bioRxiv Channel: Vienna BioCenter
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Zebrafish Ski7 tunes RNA levels during the oocyte-to-embryo transition
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https://biorxiv.org/cgi/content/short/2020.03.19.998716v1?rss=1"
Cabrera Quio, L. E.Schleiffer, A.Mechtler, K.Pauli, A.2020-03-20doi:10.1101/2020.03.19.998716Cold Spring Harbor Laboratory Press2020-03-20
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Ubiquitous selfish toxin-antidote elements in Caenorhabditis species
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https://biorxiv.org/cgi/content/short/2020.08.06.240564v1?rss=1"
Ben-David, E.Pliota, P.Widen, S. A.Koreshova, A.Lemus-Vergara, T.Verpukhovskiy, P.Mandali, S.Braendle, C.Burga, A.Kruglyak, L.2020-08-07doi:10.1101/2020.08.06.240564Cold Spring Harbor Laboratory Press2020-08-07
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The linear ubiquitin chain assembly complex generates heterotypic ubiquitin chains
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https://biorxiv.org/cgi/content/short/2020.05.27.117952v1?rss=1"
Carvajal, A. R.Diaz, C. G.Vogel, A.Sonn-Segev, A.Schodl, K.Deszcz, L.Orban-Nemeth, Z.Sakamoto, S.Mechtler, K.Kukura, P.Clausen, T.Haselbach, D.Ikeda, F.2020-05-28doi:10.1101/2020.05.27.117952Cold Spring Harbor Laboratory Press2020-05-28
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Unravelling the developmental roadmap towards human brown adipose tissue
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https://biorxiv.org/cgi/content/short/2020.07.09.194886v1?rss=1"
Stefania CarobbioAnne-Claire GuenantinMyriam BahriIsabella SamuelsonFloris HonigSonia Rodriguez-FdezKathleen LongIoannis KamzolasSherine AwadDunja LukovicSlaven ErcegAndrew R BassettSasha MendjanLudovic vallierBarry S RosenDavide ChiarugiAntonio Vidal-Puig2020-07-09doi:10.1101/2020.07.09.194886Cold Spring Harbor Laboratory Press2020-07-09
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Molecular archaeology of the human brain
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https://biorxiv.org/cgi/content/short/598094v1?rss=1"
Kaczanowska, J.Ganglberger, F.Galik, B.Hess, A.Moodley, Y.Buehler, K.Haubensak, W.2019-04-11doi:10.1101/598094Cold Spring Harbor Laboratory Press2019-04-11
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Muscle cell type diversification driven by extensive gene duplications
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https://biorxiv.org/cgi/content/short/2020.07.19.210658v1?rss=1"
Cole, A. G.Kaul, S.Jahnel, S. M.Steger, J.Zimmermann, B.Reischl, R.Richards, G. S.Rentzsch, F.Steinmetz, P.Technau, U.2020-07-19doi:10.1101/2020.07.19.210658Cold Spring Harbor Laboratory Press2020-07-19
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araDEEPopsis: From images to phenotypic traits using deep transfer learning
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https://biorxiv.org/cgi/content/short/2020.04.01.018192v1?rss=1"
Huether, P.Schandry, N.Jandrasits, K.Bezrukov, I.Becker, C.2020-04-01doi:10.1101/2020.04.01.018192Cold Spring Harbor Laboratory Press2020-04-01
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A limited set of transcriptional programs define major histological types and provide the molecular basis for a cellular taxonomy of the human body
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https://biorxiv.org/cgi/content/short/857169v1?rss=1"
Breschi, A.Munoz-Aguirre, M.Wucher, V.Davis, C. A.Garrido-Martin, D.Djebali, S.Gillis, J.Pervouchine, D. D.Vlasova, A.Dobin, A.Zaleski, C.Drenkow, J.Danyko, C.Scavelli, A.Reverter, F.Snyder, M. P.Gingeras, T. R.Guigo, R.2019-11-27doi:10.1101/857169Cold Spring Harbor Laboratory Press2019-11-27
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A High-throughput Screening Method to Identify Proteins Involved in Unfolded Protein Response Signaling in Plants
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https://biorxiv.org/cgi/content/short/825190v1?rss=1"
Alcântara, A.Seitner, D.Navarrete, F.Djamei, A.2019-10-31doi:10.1101/825190Cold Spring Harbor Laboratory Press2019-10-31
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Fungal effector Jsi1 hijacks plant JA/ET signaling through Topless
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https://biorxiv.org/cgi/content/short/844365v1?rss=1"
Darino, M. A.Marques, J.Chia, K.-S.Aleksza, D.Soto, L. M.Uhse, S.Borg, M.Betz, R.Bindics, J.zienkiewicz, k.Feussner, I.Petit-Houdenot, Y.Djamei, A.2019-11-16doi:10.1101/844365Cold Spring Harbor Laboratory Press2019-11-16
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Native mass spectrometry can effectively predict PROTAC efficacy
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https://biorxiv.org/cgi/content/short/851980v1?rss=1"
Beveridge, R.Kessler, D.Rumpel, K.Ettmayer, P.Meinhart, A.Clausen, T.2019-11-25doi:10.1101/851980Cold Spring Harbor Laboratory Press2019-11-25
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DEK influences the trade-off between growth and arrest via H2A.Z-nucleosomes in Arabidopsis
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https://biorxiv.org/cgi/content/short/829226v1?rss=1"
Brestovitsky, A.Ezer, D.Waidmann, S.Maslen, S. L.Balcerowicz, M.Cortijo, S.Charoensawan, V.Martinho, C.Rhodes, D.Jonak, C.Wigge, P. A.2019-11-04doi:10.1101/829226Cold Spring Harbor Laboratory Press2019-11-04
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Core binding factor leukemia hijacks T-cell prone PU.1 antisense promoter
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https://biorxiv.org/cgi/content/short/2020.05.29.120857v1?rss=1"
van der Kouwe, E.Heller, G.Czibere, A.Castilla, L. H.Delwel, R.Di Ruscio, A.Ebralidze, A. K.Forte, M.Kazianka, L.Kornauth, C.Le, T.Lind, K.Monteiro Barbosa, I. A.Pichler, A.Pulikkan, J. A.Schmolke, A.-S.Sill, H.Sperr, W.Spittler, A.Trinh, B. Q.Valent, P.Vanura, K.Welner, R. S.Zuber, J.Tenen, D. G.Staber, P. B.2020-05-31doi:10.1101/2020.05.29.120857Cold Spring Harbor Laboratory Press2020-05-31
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A synthetic peptide library for benchmarking crosslinking mass spectrometry search engines
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https://biorxiv.org/cgi/content/short/821447v1?rss=1"
Beveridge, R.Stadlmann, J.Penninger, J. M.Mechtler, K.2019-10-28doi:10.1101/821447Cold Spring Harbor Laboratory Press2019-10-28
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Scalable, rapid and highly sensitive isothermal detection of SARS-CoV-2 for laboratory and home testing
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https://biorxiv.org/cgi/content/short/2020.06.23.166397v1?rss=1"
Kellner, M. J.Ross, J. J.Schnabl, J.Dekens, M. P. S.Heinen, R.Tanner, N. A.Fritsche-Polanz, R.Traugott, M.Seitz, T.Zoufaly, A.Foedinger, M.Wenisch, C.Zuber, J.Vienna Covid-19 Diagnostics Initiative (VCDI),Pauli, A.Brennecke, J.2020-06-23doi:10.1101/2020.06.23.166397Cold Spring Harbor Laboratory Press2020-06-23
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Expanded huntingtin CAG repeats disrupt the balance between neural progenitor expansion and differentiation in human cerebral organoids
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https://biorxiv.org/cgi/content/short/850586v1?rss=1"
Zhang, J.Ooi, J.Utami, K. H.Langley, S. R.Aning, O. A.Park, D. S.Renner, M.Ma, S.Cheok, C. F.Knoblich, J. A.Ginhoux, F.Petretto, E. G.Pouladi, M. A.2019-11-26doi:10.1101/850586Cold Spring Harbor Laboratory Press2019-11-26
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EXO70D isoforms mediate selective autophagic degradation of Type-A ARR proteins to regulate cytokinin sensitivity
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https://biorxiv.org/cgi/content/short/2020.02.07.938712v1?rss=1"
Acheampong, A. K.Shanks, C. M.Chang, C.-Y.Schaller, G. E.Dagdas, Y.Kieber, J. J.2020-02-07doi:10.1101/2020.02.07.938712Cold Spring Harbor Laboratory Press2020-02-07
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NMD is required for timely cell fate transitions by fine-tuning gene expression and controlling translation
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https://biorxiv.org/cgi/content/short/2020.07.07.180133v1?rss=1"
Galimberti, E.Sehlke, R.Huth, M.Garmhausen, M.Romeike, M.Ramesmayer, J.Stummer, S.Titz-Teixeira, F.Herzog, V.Chugunova, A.Leesch, K. F.Holcik, L.Santini, L.Lackner, A.von Haeseler, A.Buecker, C.Pauli, A.Schoefer, C.Ameres, S. L.Smith, A.Beyer, A.Leeb, M.2020-07-07doi:10.1101/2020.07.07.180133Cold Spring Harbor Laboratory Press2020-07-07
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The Pleiades cluster of fungal effector genes inhibit 1 host defenses
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https://biorxiv.org/cgi/content/short/827600v1?rss=1"
Navarrete, F.Grujic, N.Stirnberg, A.Aleksza, D.Gallei, M.Adi, H.Bindics, J.Trujillo, M.Djamei, A.2019-11-01doi:10.1101/827600Cold Spring Harbor Laboratory Press2019-11-01
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Cerebellar neurodynamics during motor planning predict decision timing and outcome on single-trial level
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https://biorxiv.org/cgi/content/short/833889v1?rss=1"
Lin, Q.Helmreich, M.Schlumm, F.Li, J.Robson, D.Engert, F.Schier, A.Noebauer, T.Vaziri, A.2019-11-11doi:10.1101/833889Cold Spring Harbor Laboratory Press2019-11-11
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Fast and highly efficient affinity enrichment of Azide-A-DSBSO cross-linked peptides.
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https://biorxiv.org/cgi/content/short/2019.12.17.879601v1?rss=1"
Matzinger, M.Kandioller, W.Doppler, P.Heiss, E. H.Mechtler, K.2019-12-18doi:10.1101/2019.12.17.879601Cold Spring Harbor Laboratory Press2019-12-18
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Two microRNAs are sufficient for embryogenesis in C. elegans
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https://biorxiv.org/cgi/content/short/2020.06.28.176024v1?rss=1"
Dexheimer, P. J.Wang, J.Cochella, L.2020-06-28doi:10.1101/2020.06.28.176024Cold Spring Harbor Laboratory Press2020-06-28
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Quantifying the heterogeneity of macromolecular machines by mass photometry
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https://biorxiv.org/cgi/content/short/864553v1?rss=1"
Sonn Segev, A.Belacic, K.Bodrug, T.Young, G.VanderLinden, R. T.Schulman, B.Schimpf, J.Friedrich, T.Vinh Dip, P.Schwartz, T.Bauer, B.Peters, J.-M.Struwe, W. B.Benesch, J. L.Brown, N. G.Haselbach, D.Kukura, P.2019-12-04doi:10.1101/864553Cold Spring Harbor Laboratory Press2019-12-04
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Understory light quality affects leaf pigments and leaf phenology in different plant functional types
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https://biorxiv.org/cgi/content/short/829036v1?rss=1"
Brelsford, C. C.Trasser, M.Paris, T.Hartikainen, S. M.Robson, T. M.2019-11-02doi:10.1101/829036Cold Spring Harbor Laboratory Press2019-11-02
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Leukemia cell of origin influences apoptotic priming and sensitivity to LSD1 inhibition
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https://biorxiv.org/cgi/content/short/2020.05.11.089060v1?rss=1"
Cai, S. F.Chu, S. H.Goldberg, A. D.Parvin, S.Koche, R. P.Glass, J. L.Stein, E. M.Tallman, M. S.Sen, F.Famulare, C.Cusan, M.Huang, C.-H.Chen, C.-W.Zou, L.Cordner, K. B.DelGaudio, N. L.Durani, V.Kini, M.Rex, M.Tian, H. S.Zuber, J. L.Baslan, T.Lowe, S. W.Rienhoff, H. Y.Letai, A.Levine, R. L.Armstrong, S. A.2020-05-13doi:10.1101/2020.05.11.089060Cold Spring Harbor Laboratory Press2020-05-13
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PHF3 regulates neuronal gene expression through the new Pol II CTD reader domain SPOC
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https://biorxiv.org/cgi/content/short/2020.02.11.943159v1?rss=1"
Appel, L.-M.Franke, V.Bruno, M.Grishkovskaya, I.Kasiliauskaite, A.Schoeberl, U. E.Puchinger, M. G.Kostrhon, S.Beltzung, E.Mechtler, K.Lin, G.Vlasova, A.Leeb, M.Pavri, R.Stark, A.Akalin, A.Stefl, R.Bernecky, C.Djinovic-Carugo, K.Slade, D.2020-02-12doi:10.1101/2020.02.11.943159Cold Spring Harbor Laboratory Press2020-02-12
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Cerebral organoid model reveals excessive proliferation of human caudal late interneuron progenitors in Tuberous Sclerosis Complex
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https://biorxiv.org/cgi/content/short/2020.02.27.967802v1?rss=1"
Eichmueller, O. L.Corsini, N. S.Vertesy, A.Scholl, T.Gruber, V.-E.Peer, A. M.Chu, J.Novatchkova, M.Paredes, M. F.Feucht, M.Knoblich, J. A.2020-02-27doi:10.1101/2020.02.27.967802Cold Spring Harbor Laboratory Press2020-02-27
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Modeling the spatiotemporal control of cell cycle acceleration during axolotl spinal cord regeneration
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https://biorxiv.org/cgi/content/short/2020.02.10.941443v1?rss=1"
Cura Costa, E.Rodrigo Albors, A.Tanaka, E. M.Chara, O.2020-02-10doi:10.1101/2020.02.10.941443Cold Spring Harbor Laboratory Press2020-02-10
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ESCO1 and CTCF enable formation of long chromatin loops by protecting cohesinSTAG1 from WAPL
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https://biorxiv.org/cgi/content/short/779058v1?rss=1"
Wutz, G.St. Hilaire, B. T. G.Ladurner, R.Stocsits, R.Nagasaka, K.Pignard, B.Sanborn, A.Tang, W.Varnai, C.Ivanov, M.Schoenfelder, S.van der Lelij, P.Huang, X.Duernberger, G.Roitinger, E.Mechtler, K.Davidson, I. F.Fraser, P.Aiden, E. L.Peters, J. M.2019-09-23doi:10.1101/779058Cold Spring Harbor Laboratory Press2019-09-23
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Cohesin-dependent and independent mechanisms support chromosomal contacts between promoters and enhancers
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https://biorxiv.org/cgi/content/short/2020.02.10.941989v1?rss=1"
Thiecke, M. J.Wutz, G.Muhar, M.Tang, W.Bevan, S.Malysheva, V.Stocsits, R. R.Neumann, T.Zuber, J.Fraser, P.Schoenfelder, S.Peters, J.-M.Spivakov, M.2020-02-11doi:10.1101/2020.02.10.941989Cold Spring Harbor Laboratory Press2020-02-11
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Reduced PABPN1 levels causes cytoskeleton disorganization and aberrant differentiation
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https://biorxiv.org/cgi/content/short/2020.01.15.907311v1?rss=1"
Raz, V.van der Wal, E.Domagoj, C.Olie, C. S.Maton, L.de Greef, J. C.Lin, I.-H.Chen, Y.-F.Kareem, E.Penninger, J. M.Kessler, B.2020-01-15doi:10.1101/2020.01.15.907311Cold Spring Harbor Laboratory Press2020-01-15
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LSD1 inhibitors induce neuronal differentiation of Merkel cell carcinoma by disrupting the LSD1-CoREST complex and activating TGFβ signaling
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https://biorxiv.org/cgi/content/short/2020.04.14.041657v1?rss=1"
Leiendecker, L.Jung, P. S.Neumann, T.Wiesner, T.Obenauf, A. C.2020-04-15doi:10.1101/2020.04.14.041657Cold Spring Harbor Laboratory Press2020-04-15
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Sister-chromatid-sensitive Hi-C reveals the conformation of replicated human chromosomes
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https://biorxiv.org/cgi/content/short/2020.03.10.978148v1?rss=1"
Mitter, M.Gasser, C.Takacs, Z.Langer, C. H. C.Tang, W.Jessberger, G.Beales, C. T.Neuner, E.Ameres, S. L.Peters, J.-M.Goloborodko, A.Micura, R.Gerlich, D. W.2020-03-11doi:10.1101/2020.03.10.978148Cold Spring Harbor Laboratory Press2020-03-11
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Reconstitution of Alveolar Regeneration via novel DATPs by Inflammatory Niches
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https://biorxiv.org/cgi/content/short/2020.06.14.151324v1?rss=1"
Choi, J.Park, J.-E.Tsagkogeorga, G.Yanagita, M.Koo, B.-K.Han, N.Lee, J.-H.2020-06-15doi:10.1101/2020.06.14.151324Cold Spring Harbor Laboratory Press2020-06-15
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Nitric oxide coordinates histone acetylation and expression of genes involved in growth/development and stress response
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https://biorxiv.org/cgi/content/short/2020.06.16.154476v1?rss=1"
Ageeva_Kieferle, A.Georgii, E.Winkler, B.Ghirardo, A.Albert, A.Huether, P.Mengel, A.Becker, C.Schnitzler, J.-P.Durner, J.Lindermayr, C.2020-06-17doi:10.1101/2020.06.16.154476Cold Spring Harbor Laboratory Press2020-06-17
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A cross-kingdom conserved ER-phagy receptor maintains endoplasmic reticulum homeostasis during stress
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https://biorxiv.org/cgi/content/short/2020.03.18.995316v1?rss=1"
Stephani, M.Picchianti, L.Gajic, A.Beveridge, R.Skarwan, E.Sanchez de Medina Hernandez, V.Mohseni, A.Clavel, M.Zeng, Y.Naumann, C.Matuszkiewicz, M.Turco, E.Loefke, C.Li, B.Durnberger, G.Schutzbier, M.Chen, H. T.Abdrakhmanov, A.Savova, A.Chia, K.-S.Djamei, A.Schaffner, I.Abel, S.Jiang, L.Mechtler, K.Ikeda, F.Martens, S.Clausen, T.Dagdas, Y.2020-03-19doi:10.1101/2020.03.18.995316Cold Spring Harbor Laboratory Press2020-03-19
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The histone variant H2A.W promotes heterochromatin accessibility for efficient DNA methylation in Arabidopsis
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https://biorxiv.org/cgi/content/short/2020.03.19.998609v1?rss=1"
Bourguet, P.Picard, C. L.Yelagandula, R.Pelissier, T.Lorkovic, Z. J.Pouch-Pelissier, M.-N.Jacobsen, S. E.Berger, F.Mathieu, O.2020-03-20doi:10.1101/2020.03.19.998609Cold Spring Harbor Laboratory Press2020-03-20
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Gradual evolution of allopolyploidy in Arabidopsis suecica
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https://biorxiv.org/cgi/content/short/2020.08.24.264432v1?rss=1"
Burns, R.Mandakova, T.Jagoda, J.Soto-Jimenez, L. M.Liu, C.Lysak, M. A.Novikova, P. Y.Nordborg, M.2020-08-24doi:10.1101/2020.08.24.264432Cold Spring Harbor Laboratory Press2020-08-24
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Stage-specific transcriptomes and DNA methylomes indicate an early and transient loss of transposon control in Arabidopsis shoot stem cells
]]>
https://biorxiv.org/cgi/content/short/430447v1?rss=1"
Mittelsten Scheid, O.Gutzat, R.Rembart, K.Nussbaumer, T.Pisupati, R.Hofmann, F.Bradamante, G.Daubel, N.Gaidora, A.Lettner, N.Dona, M.Nordborg, M.Nodine, M.2018-09-29doi:10.1101/430447Cold Spring Harbor Laboratory Press2018-09-29
<![CDATA[
Friendly regulates membrane depolarization induced mitophagy in Arabidopsis
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https://biorxiv.org/cgi/content/short/2020.07.12.198424v1?rss=1"
Juncai MaZizhen LiangJierui ZhaoPengfei WangWenlong MaJuan A. Fernandez AndradeYonglun ZengNenad GrujicLiwen JiangYasin DagdasByung-Ho Kang2020-07-12doi:10.1101/2020.07.12.198424Cold Spring Harbor Laboratory Press2020-07-12
<![CDATA[
The Irish potato famine pathogen subverts host vesicle trafficking to channel starvation-induced autophagy to the pathogen interface
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https://biorxiv.org/cgi/content/short/2020.03.20.000117v1?rss=1"
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]]>Pandey, P.Leary, A. Y.Tümtas, Y.Savage, Z.Dagvadorj, B.Tan, E.Khandare, V.Duggan, C.Yusunov, T.Madalinski, M.Gabriel Mirkin, F.Schornack, S.Dagdas, Y.Kamoun, S.Bozkurt, T. O.2020-03-21doi:10.1101/2020.03.20.000117Cold Spring Harbor Laboratory Press2020-03-21
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Chromatin Regulates Bipartite-Classified Small RNA Expression to Maintain Epigenome Homeostasis in Arabidopsis
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https://biorxiv.org/cgi/content/short/2020.05.04.076885v1?rss=1"
Papareddy, R. K.Paldi, K.Paulraj, S.Kao, P.Nodine, M. D.2020-05-05doi:10.1101/2020.05.04.076885Cold Spring Harbor Laboratory Press2020-05-05
<![CDATA[
Genome duplication and reorganization in Aquilegia
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https://biorxiv.org/cgi/content/short/407973v1?rss=1"
Aköz, G.Nordborg, M.2018-09-04doi:10.1101/407973Cold Spring Harbor Laboratory Press2018-09-04
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Transcriptional Activation of Arabidopsis Zygotes Is Required for Their Initial Division
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https://biorxiv.org/cgi/content/short/679035v1?rss=1"
Kao, P.Nodine, M. D.2019-06-21doi:10.1101/679035Cold Spring Harbor Laboratory Press2019-06-21
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MicroRNA Dynamics and Functions During Arabidopsis Embryogenesis
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https://biorxiv.org/cgi/content/short/633735v1?rss=1"
Plotnikova, A.Kellner, M. J.Mosiolek, M.Schon, M. A.Nodine, M. D.2019-05-09doi:10.1101/633735Cold Spring Harbor Laboratory Press2019-05-09
<![CDATA[
Autophagy mediates temporary reprogramming and dedifferentiation in plant somatic cells
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https://biorxiv.org/cgi/content/short/747410v1?rss=1"
Rodriguez, E.Chevalier, J.Olsen, J.Ansbol, J.Kapousidou, V.Zuo, Z.Svenning, S.Loefke, C.Koemeda, S.Drozdowskyj, P. S.Jez, J.Durnberger, G.Kuenzl, F.Schutzbier, M.Mechtler, K.Lolle, S.Dagdas, Y.Petersen, M.2019-08-28doi:10.1101/747410Cold Spring Harbor Laboratory Press2019-08-28
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Common alleles of CMT2 and NRPE1 are major determinants of de novo DNA methylation variation in Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/819516v1?rss=1"
Sasaki, E.Kawakatsu, T.Ecker, J.Nordborg, M.2019-10-25doi:10.1101/819516Cold Spring Harbor Laboratory Press2019-10-25
<![CDATA[
A hypomorphic allele of telomerase reverse transcriptase uncovers the minimal functional length of telomeres in Arabidopsis.
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https://biorxiv.org/cgi/content/short/520163v1?rss=1"
Watson, J. M.Trieb, J.Troestl, M.Renfrew, K.Mandakova, T.Shippen, D. E.Riha, K.2019-01-14doi:10.1101/520163Cold Spring Harbor Laboratory Press2019-01-14
<![CDATA[
N-terminal β-strand underpins biochemical specialization of an ATG8 isoform
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https://biorxiv.org/cgi/content/short/453563v1?rss=1"
Zess, E. K.Jensen, C.Cruz-Mireles, N.De la Concepcion, J. C.Sklenar, J.Imre, R.Roitinger, E.Hughes, R.Belhaj, K.Mechtler, K.Menke, F.Bozkurt, T.Banfield, M.Kamoun, S.Maqbool, A.Dagdas, Y.2018-10-25doi:10.1101/453563Cold Spring Harbor Laboratory Press2018-10-25
<![CDATA[
mRNA decapping machinery targets transcripts of the LBD3/ASL9 transcription factor to authorize formation of apical hook and lateral roots in Arabidopsis
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https://biorxiv.org/cgi/content/short/834465v1?rss=1"
Zuo, Z.Roux, M. E.Rodriguez, E.Chevalier, J. R.Dagdas, Y.Yamashino, T.Petersen, M.2019-11-07doi:10.1101/834465Cold Spring Harbor Laboratory Press2019-11-07
<![CDATA[
Host autophagosomes are diverted to a plant-pathogen interface
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https://biorxiv.org/cgi/content/short/102996v1?rss=1"
Dagdas, Y.Pandey, P.Sanguankiattichai, N.Tumtas, Y.Belhaj, K.Duggan, C.Segretin, M.Kamoun, S.Bozkurt, T. O.2017-01-30doi:10.1101/102996Cold Spring Harbor Laboratory Press2017-01-30
<![CDATA[
The anti-apoptosis ubiquitin E3 ligase XIAP promotes autophagosome-lysosome fusion during autophagy
]]>
https://biorxiv.org/cgi/content/short/291294v1?rss=1"
Pötsch, I.Ebner, P.Deszcz, L.Bachtrog, I.Stephani, M.Diaz, C. G.Dagdas, Y.Ikeda, F.2018-03-29doi:10.1101/291294Cold Spring Harbor Laboratory Press2018-03-29
<![CDATA[
Adaptive Reduction of Male Gamete Number in a Selfing Species
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https://biorxiv.org/cgi/content/short/272757v1?rss=1"
Tsuchimatsu, T.Kakui, H.Yamazaki, M.Marona, C.Tsutsui, H.Hedhly, A.Meng, D.Sato, Y.Stadler, T.Grossniklaus, U.Kanaoka, M. M.Lenhard, M.Nordborg, M.Shimizu, K. K.2018-02-28doi:10.1101/272757Cold Spring Harbor Laboratory Press2018-02-28
<![CDATA[
The Aquilegia genome: adaptive radiation and an extraordinarily polymorphic chromosome with a unique history
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https://biorxiv.org/cgi/content/short/264101v1?rss=1"
Filiault, D.Ballerini, E.Mandakova, T.Akoz, G.Derieg, N.Schmutz, J.Jenkins, J.Grimwood, J.Shu, S.Hayes, R.Hellsten, U.Barry, K.Yan, J.Mihaltcheva, S.Karafiatova, M.Nizhynska, V.Lysak, M.Hodges, S.Nordborg, M.2018-02-12doi:10.1101/264101Cold Spring Harbor Laboratory Press2018-02-12
<![CDATA[
The embryonic transcriptome of Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/479584v1?rss=1"
Hofmann, F.Schon, M. A.Nodine, M. D.2018-11-27doi:10.1101/479584Cold Spring Harbor Laboratory Press2018-11-27
<![CDATA[
A novel model plant to study the light control of seed germination
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https://biorxiv.org/cgi/content/short/470401v1?rss=1"
Merai, Z.Graeber, K.Wilhelmsson, P.Ullrich, K. K.Arshad, W.Grosche, C.Tarkowska, D.Tureckova, V.Strnad, M.Rensing, S. A.Leubner-Metzger, G.Mittelsten Scheid, O.2018-11-14doi:10.1101/470401Cold Spring Harbor Laboratory Press2018-11-14
<![CDATA[
Plant genes influence microbial hubs that shape beneficial leaf communities
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https://biorxiv.org/cgi/content/short/181198v1?rss=1"
Brachi, B.Filiault, D.Darme, P.Le Mentec, M.Kerdaffrec, E.Rabanal, F.Anastasio, A.Box, M.Duncan, S.Morton, T.Novikova, P.Perisin, M.Tsuchimatsu, T.Woolley, R.Yu, M.Dean, C.Nordborg, M.Holme, S.Bergelson, J.2017-08-26doi:10.1101/181198Cold Spring Harbor Laboratory Press2017-08-26
<![CDATA[
An Acentriolar Centrosome At The C. elegans Ciliary Base
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https://biorxiv.org/cgi/content/short/2020.08.21.260547v1?rss=1"
Garbrecht, J.Laos, T.Holzer, E.Dillinger, M.Dammermann, A.2020-08-22doi:10.1101/2020.08.21.260547Cold Spring Harbor Laboratory Press2020-08-22
<![CDATA[
Assembly defects of the human tRNA splicing endonuclease contribute to impaired pre-tRNA processing in pontocerebellar hypoplasia
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https://biorxiv.org/cgi/content/short/2020.08.03.234229v1?rss=1"
Sekulovski, S.Devant, P.Panizza, S.Gogakos, T.Pitiriciu, A.Heitmeier, K.Ramsay, E. P.Barth, M.Schmidt, C.Weitzer, S.Tuschl, T.Baas, F.Martinez, J.Trowitzsch, S.2020-08-03doi:10.1101/2020.08.03.234229Cold Spring Harbor Laboratory Press2020-08-03
<![CDATA[
Expansin-controlled cell wall stiffness regulates root growth in Arabidopsis
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https://biorxiv.org/cgi/content/short/2020.06.25.170969v1?rss=1"
Samalova, M.Elsayad, K.Melnikava, A.Peaucelle, A.Gahurova, E.Gumulec, J.Spyroglou, I.Zemlyanskaya, E. V.Ubogoeva, E. V.Hejatko, J.2020-06-27doi:10.1101/2020.06.25.170969Cold Spring Harbor Laboratory Press2020-06-27
<![CDATA[
Cardioids reveal self-organizing principles of human cardiogenesis
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https://biorxiv.org/cgi/content/short/2020.07.06.189431v1?rss=1"
Hofbauer, P.Jahnel, S.Papai, N.Giesshammer, M.Tavernini, K.Grdseloff, N.Penc, M.Meledeth, C.Deyett, A.Schmidt, C.Ctortecka, C.Salic, S.Novatchkova, M.Mendjan, S.2020-07-06doi:10.1101/2020.07.06.189431Cold Spring Harbor Laboratory Press2020-07-06
<![CDATA[
Arabidopsis Poly(ADP-ribose)-binding protein RCD1 interacts with Photoregulatory Protein Kinases in nuclear bodies
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https://biorxiv.org/cgi/content/short/2020.07.02.184937v1?rss=1"
Vainonen, J. P.Shapiguzov, A.Krasensky-Wrzaczek, J.De Masi, R.Gossens, R.Danciu, I.Battchikova, N.Jonak, C.Wirthmueller, L.Wrzaczek, M.Kangasjärvi, J.2020-07-04doi:10.1101/2020.07.02.184937Cold Spring Harbor Laboratory Press2020-07-04
<![CDATA[
Cooperative molecular networks drive a mammalian cell state transition
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https://biorxiv.org/cgi/content/short/2020.03.23.000109v1?rss=1"
Lackner, A.Sehlke, R.Garmhausen, M.Stirparo, G. G.Huth, M.Titz-Teixeira, F.van der Lelij, P.Ramesmayer, J.Thomas, H. F.Ralser, M.Santini, L.Sarov, M.Stewart, A. F.Smith, A. G.Beyer, A.Leeb, M.2020-03-25doi:10.1101/2020.03.23.000109Cold Spring Harbor Laboratory Press2020-03-25
<![CDATA[
Structures of three MORN repeat proteins and a re-evaluation of the proposed lipid-binding properties of MORN repeats
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https://biorxiv.org/cgi/content/short/826180v1?rss=1"
Sajko, S.Grishkovskaya, I.Kostan, J.Graewert, M.Setiawan, K.Truebestein, L.Niedermuller, K.Gehin, C.Sponga, A.Puchinger, M.Gavin, A.-C.Svergun, D. I.Leonard, T.Smith, T. K.Morriswood, B. C.Djinovic-Carugo, K.2019-10-31doi:10.1101/826180Cold Spring Harbor Laboratory Press2019-10-31
<![CDATA[
Peroxiredoxin promotes longevity and H2O2-resistance in yeast through redox-modification of PKA
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https://biorxiv.org/cgi/content/short/676270v1?rss=1"
Molin, M.Roger, F.Picazo, C.Asami, C.Reiter, W.Hanzen, S.Gao, C.Lagniel, G.Welkenhuysen, N.Labarre, J.Nyström, T.Grotli, M.Hartl, M.2019-06-19doi:10.1101/676270Cold Spring Harbor Laboratory Press2019-06-19
<![CDATA[
Keratins couple with the nuclear lamina and regulate proliferation in colonic epithelial cells
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https://biorxiv.org/cgi/content/short/2020.06.22.164467v1?rss=1"
Stenvall, C.-G. A.Nyström, J. H.Butler-Hallissey, C.Adam, S. A.Foisner, R.Ridge, K. M.Goldman, R. D.Toivola, D. M.2020-06-22doi:10.1101/2020.06.22.164467Cold Spring Harbor Laboratory Press2020-06-22
<![CDATA[
Membrane Interactions of α-Synuclein Revealed by Multiscale Molecular Dynamics Simulations, Markov State Models, and NMR
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https://biorxiv.org/cgi/content/short/2020.06.18.156216v1?rss=1"
Amos, S.-B.Schwarz, T.Shih, J.Cossins, B.Baker, T.Taylor, R.Konrat, R.Sansom, M.2020-06-18doi:10.1101/2020.06.18.156216Cold Spring Harbor Laboratory Press2020-06-18
<![CDATA[
PP2A-Rts1 antagonizes Rck2-mediated hyperosmotic stress signaling in yeast
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https://biorxiv.org/cgi/content/short/2020.05.30.124925v1?rss=1"
Hollenstein, D. M.Veis, J.Romanov, N.Gerecova, G.Ogris, E.Hartl, M.Ammerer, G.Reiter, W.2020-05-31doi:10.1101/2020.05.30.124925Cold Spring Harbor Laboratory Press2020-05-31
<![CDATA[
iDePP: a genetically encoded system for the inducible depletion of PI(4,5)P2 in Arabidopsis thaliana.
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https://biorxiv.org/cgi/content/short/2020.05.13.091470v1?rss=1"
Doumane, M.Colin, L.Lebecq, A.Fangain, A.Bareille, J.Hamant, O.Belkhadir, Y.Jaillais, Y.Caillaud, M.-C.2020-05-13doi:10.1101/2020.05.13.091470Cold Spring Harbor Laboratory Press2020-05-13
<![CDATA[
Simultaneous estimation of transcript abundances and transcript specific fragment distributions of RNA-Seq data with the Mix2 model
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https://biorxiv.org/cgi/content/short/005918v1?rss=1"
Andreas TuerkGregor Wiktorin2014-06-04doi:10.1101/005918Cold Spring Harbor Laboratory Press2014-06-04
<![CDATA[
Mixture models reveal multiple positional bias types in RNA-Seq data and lead to accurate transcript concentration estimates
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https://biorxiv.org/cgi/content/short/011767v1?rss=1"
Andreas TuerkGregor WiktorinSerhat Güler2014-11-24doi:10.1101/011767Cold Spring Harbor Laboratory Press2014-11-24
<![CDATA[
Genome-wide Ultrabithorax binding analysis reveals highly targeted genomic loci at developmental regulators and a potential connection to Polycomb-mediated regulation
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https://biorxiv.org/cgi/content/short/012609v1?rss=1"
Daria ShlyuevaAntonio C.A. Meireles-FilhoMichaela PaganiAlexander Stark2014-12-12doi:10.1101/012609Cold Spring Harbor Laboratory Press2014-12-12
<![CDATA[
Super-resolution imaging reveals structurally distinct periodic patterns of chromatin along pachytene chromosomes
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https://biorxiv.org/cgi/content/short/023432v1?rss=1"
Kirti PrakashDavid FournierStefan RedlGerrit BestMáté BorsosRené KettingKiKuë Tachibana-KonwalskiChristoph CremerUdo Birk2015-08-20doi:10.1101/023432Cold Spring Harbor Laboratory Press2015-08-20
<![CDATA[
Automatic segmentation of Drosophila neural compartments using GAL4 expression data reveals novel visual pathways
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https://biorxiv.org/cgi/content/short/032292v1?rss=1"
Karin PanserLaszlo TirianFlorian SchulzeSantiago VillalbaGregory SXE JefferisKatja BuehlerAndrew D Straw2015-11-29doi:10.1101/032292Cold Spring Harbor Laboratory Press2015-11-29
<![CDATA[
Sensitive whole mount in situ localization of small RNAs in plants
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https://biorxiv.org/cgi/content/short/037978v1?rss=1"
Mouli Ghosh DastidarMagdalena MosiolekMichael D NodineAlexis Maizel2016-01-26doi:10.1101/037978Cold Spring Harbor Laboratory Press2016-01-26
<![CDATA[
Predicting functional neuroanatomical maps from fusing brain networks with genetic information
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https://biorxiv.org/cgi/content/short/070037v1?rss=1"
Florian GanglbergerJoanna KaczanowskaJosef M. PenningerAndreas HessKatja BuehlerWulf Haubensak2016-08-17doi:10.1101/070037Cold Spring Harbor Laboratory Press2016-08-17
<![CDATA[
SIRVs: Spike-In RNA Variants as External Isoform Controls in RNA-Sequencing
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https://biorxiv.org/cgi/content/short/080747v1?rss=1"
Paul, L.Kubala, P.Horner, G.Ante, M.Hollaender, I.Alexander, S.Reda, T.2016-10-13doi:10.1101/080747Cold Spring Harbor Laboratory Press2016-10-13
<![CDATA[
Unstable inheritance of 45S rRNA genes in Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/088088v1?rss=1"
Rabanal, F. A.Nizhynska, V.Mandakova, T.Novikova, P. Y.Lysak, M.Mott, R.Nordborg, M.2016-11-16doi:10.1101/088088Cold Spring Harbor Laboratory Press2016-11-16
<![CDATA[
Ancient hybridization and strong adaptation to viruses across African vervet monkey populations
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https://biorxiv.org/cgi/content/short/088989v1?rss=1"
Svardal, H.Jasinska, A.Apetrei, C.Coppola, G.Huang, Y.Schmitt, C.Jacquelin, B.Müller-Trutwin, M.Weinstock, G.Grobler, P.Wilson, R.Turner, T.Warren, W.Freimer, N.Nordborg, M.2016-11-22doi:10.1101/088989Cold Spring Harbor Laboratory Press2016-11-22
<![CDATA[
Patterns of polymorphism at the self-incompatibility locus in 1,083 Arabidopsis thaliana genomes
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https://biorxiv.org/cgi/content/short/098228v1?rss=1"
Tsuchimatsu, T.Goubet, P.Gallina, S.Holl, A.-C.Fobis-Loisy, I.Berges, H.Marande, W.Prat, E.Meng, D.Long, Q.Platzer, A.Nordborg, M.Vekemans, X.Castric, V.2017-01-04doi:10.1101/098228Cold Spring Harbor Laboratory Press2017-01-04
<![CDATA[
Verification of Arabidopsis stock collections using SNPmatch - an algorithm for genotyping high-plexed samples
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https://biorxiv.org/cgi/content/short/109520v1?rss=1"
Pisupati, R.Reichardt, I.Seren, U.Korte, P.Nizhynska, V.Kerdaffrec, E.Uzunova, K.Rabanal, F.Filiault, D. L.Nordborg, M.2017-02-17doi:10.1101/109520Cold Spring Harbor Laboratory Press2017-02-17
<![CDATA[
The Maternal Environment Interacts With Genetic Variation In Regulating Seed Dormancy In Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/117879v1?rss=1"
Kerdaffrec, E.Nordborg, M.2017-03-17doi:10.1101/117879Cold Spring Harbor Laboratory Press2017-03-17
<![CDATA[
Hardwired synthetic lethality within the cohesin complex in human cancer cells
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https://biorxiv.org/cgi/content/short/125708v1?rss=1"
Petronczki, M. P.van der Lelij, P.Lieb, S.Jude, J.Wutz, G.Santos, C. P.Falkenberg, K.Schlattl, A.Ban, J.Schwentner, R.Kovar, H.Real, F. X.Waldman, T.Pearson, M.Kraut, N.Peters, J.-M.Zuber, J.2017-04-08doi:10.1101/125708Cold Spring Harbor Laboratory Press2017-04-08
<![CDATA[
A Deep Learning And Novelty Detection Framework For Rapid Phenotyping In High-Content Screening
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https://biorxiv.org/cgi/content/short/134627v1?rss=1"
Sommer, C.Hoefler, R.Samwer, M.Gerlich, D. W.2017-05-05doi:10.1101/134627Cold Spring Harbor Laboratory Press2017-05-05
<![CDATA[
Accumulation And Functional Architecture Of Deleterious Genetic Variants During The Extinction Of Wrangel Island Mammoths
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https://biorxiv.org/cgi/content/short/137455v1?rss=1"
Fry, E.Kim, S. K.Chigurapti, S.Mika, K. M.Ratan, A.Dammermann, A.Mitchell, B. J.Miller, W.Lynch, V. J.2017-05-14doi:10.1101/137455Cold Spring Harbor Laboratory Press2017-05-14
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Spatial Specificity Of Auxin Responses Coordinates Wood Formation
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https://biorxiv.org/cgi/content/short/142885v1?rss=1"
Brackmann, K.Jouannet, V.Qi, J.Schlamp, T.Gruenwald, K.Sanchez, P.Greb, T.2017-05-27doi:10.1101/142885Cold Spring Harbor Laboratory Press2017-05-27
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PARP inhibition causes premature loss of cohesion in cancer cells
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https://biorxiv.org/cgi/content/short/153932v1?rss=1"
Kukolj, E.Kaufmann, T.Dick, A. E.Zeillinger, R.Gerlich, D. W.Slade, D.2017-06-22doi:10.1101/153932Cold Spring Harbor Laboratory Press2017-06-22
<![CDATA[
Natural Genetic Variation Shapes Root System Responses to Phytohormones in Arabidopsis
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https://biorxiv.org/cgi/content/short/155184v1?rss=1"
Ristova, D.Metesch, K.Busch, W.2017-06-24doi:10.1101/155184Cold Spring Harbor Laboratory Press2017-06-24
<![CDATA[
Synthetic lethality between the cohesin subunits STAG1 and STAG2 in diverse cancer contexts
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https://biorxiv.org/cgi/content/short/155309v1?rss=1"
van der Lelij, P.Lieb, S.Jude, J.Wutz, G.Santos, C. P.Falkenberg, K.Schlattl, A.Ban, J.Schwentner, R.Hoffmann, T.Kovar, H.Real, F. X.Waldman, T.Pearson, M.Kraut, N.Peters, J.-M.Zuber, J.Petronczki, M. P.2017-06-25doi:10.1101/155309Cold Spring Harbor Laboratory Press2017-06-25
<![CDATA[
Resolving systematic errors in widely-used enhancer activity assays in human cells enables genome-wide functional enhancer characterization
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https://biorxiv.org/cgi/content/short/164590v1?rss=1"
Muerdter, F.Boryn, Łukasz M.Woodfin, A. R.Neumayr, C.Rath, M.Zabidi, M. A.Pagani, M.Haberle, V.Kazmar, T.Catarino, R. R.Schernhuber, K.Arnold, C. D.Stark, A.2017-07-17doi:10.1101/164590Cold Spring Harbor Laboratory Press2017-07-17
<![CDATA[
Are Caenorhabditis elegans magnetoreceptive?
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https://biorxiv.org/cgi/content/short/165738v1?rss=1"
Keays, D. A.Landler, L.Nimpf, S.Nordmann, G.Papadaki-Anastasopoulou, A.Hochstoeger, T.2017-07-19doi:10.1101/165738Cold Spring Harbor Laboratory Press2017-07-19
<![CDATA[
Zinc availability modulates plant growth and immune responses via AZI1
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https://biorxiv.org/cgi/content/short/166645v1?rss=1"
Bouain, N.Satbhai, S. B.Saenchai, C.Desbrosses, G.Berthomieu, P.Busch, W.Rouached, H.2017-07-21doi:10.1101/166645Cold Spring Harbor Laboratory Press2017-07-21
<![CDATA[
The genetic architecture of the network underlying flowering time variation in Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/175430v1?rss=1"
Sasaki, E.Frommlet, F.Nordborg, M.2017-08-11doi:10.1101/175430Cold Spring Harbor Laboratory Press2017-08-11
<![CDATA[
CTCF, WAPL and PDS5 proteins control the formation of TADs and loops by cohesin
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https://biorxiv.org/cgi/content/short/177444v1?rss=1"
Wutz, G.Varnai, C.Nagasaka, K.Cisneros, D. A.Stocsits, R.Tang, W.Schoenfelder, S.Jessberger, G.Muhar, M.Hossain, J. M.Walther, N.Koch, B.Kueblbeck, M.Ellenberg, J.Zuber, J.Fraser, P.Peters, J.-M.2017-08-17doi:10.1101/177444Cold Spring Harbor Laboratory Press2017-08-17
<![CDATA[
Thiol-linked alkylation for the metabolic sequencing of RNA
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https://biorxiv.org/cgi/content/short/177642v1?rss=1"
Herzog, V. A.Reichholf, B.Neumann, T.Rescheneder, P.Bhat, P.Burkard, T. R.Wlotzka, W.von Haeseler, A.Zuber, J.Ameres, S. L.2017-08-17doi:10.1101/177642Cold Spring Harbor Laboratory Press2017-08-17
<![CDATA[
A Mechanism of Cohesin-Dependent Loop Extrusion Organizes Zygotic Genome Architecture
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https://biorxiv.org/cgi/content/short/177766v1?rss=1"
Gassler, J.Brandao, H. B.Imakaev, M.Flyamer, I. M.Ladstatter, S.Bickmore, W. A.Peters, J.-M.Mirny, L. A.Tachibana-Konwalski, K.2017-08-17doi:10.1101/177766Cold Spring Harbor Laboratory Press2017-08-17
<![CDATA[
Complex models of sequence evolution require accurate estimators as exemplified with the invariable site plus Gamma model
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https://biorxiv.org/cgi/content/short/185652v1?rss=1"
Nguyen, L. T.von Haeseler, A.Minh, B. Q.2017-09-07doi:10.1101/185652Cold Spring Harbor Laboratory Press2017-09-07
<![CDATA[
Small RNAs are trafficked from the epididymis to developing mammalian sperm
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https://biorxiv.org/cgi/content/short/194522v1?rss=1"
Sharma, U.Sun, F.Reichholf, B.Herzog, V.Ameres, S.Rando, O.2017-09-27doi:10.1101/194522Cold Spring Harbor Laboratory Press2017-09-27
<![CDATA[
Functional analyses of the CIF1-CIF2 complex in Trypanosoma brucei identify the structural motifs required for complex formation and cytokinesis
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https://biorxiv.org/cgi/content/short/196238v1?rss=1"
Hu, H.Majneri, P.Li, D.Kurasawa, Y.An, T.Dong, G.Li, Z.2017-09-29doi:10.1101/196238Cold Spring Harbor Laboratory Press2017-09-29
<![CDATA[
The VT GAL4, LexA, and split-GAL4 driver line collections for targeted expression in the Drosophila nervous system
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https://biorxiv.org/cgi/content/short/198648v1?rss=1"
Tirian, L.Dickson, B.2017-10-05doi:10.1101/198648Cold Spring Harbor Laboratory Press2017-10-05
<![CDATA[
LEM-3 is a midbody-tethered DNA nuclease that resolves chromatin bridges during cytokinesis
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https://biorxiv.org/cgi/content/short/221291v1?rss=1"
HONG, Y.Sonneville, R.Wang, B.Scheidt, V.Meier, B.Woglar, A.Demetriou, S.Labib, K.Jantsch, V.Gartner, A.2017-11-17doi:10.1101/221291Cold Spring Harbor Laboratory Press2017-11-17
<![CDATA[
Signaling-dependent control of apical membrane size and self-renewal in rosette-stage human neuroepithelial stem cells
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https://biorxiv.org/cgi/content/short/222125v1?rss=1"
Medelnik, J.-P.Roensch, K.Okawa, S.del Sol, A.Chara, O.Mchedlishvili, L.Tanaka, E.2017-11-23doi:10.1101/222125Cold Spring Harbor Laboratory Press2017-11-23
<![CDATA[
SLAM-ITseq: Sequencing cell type-specific transcriptomes without cell sorting
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https://biorxiv.org/cgi/content/short/235093v1?rss=1"
Matsushima, W.Herzog, V. A.Neumann, T.Gapp, K.Zuber, J.Ameres, S. L. L.Miska, E. A.2017-12-15doi:10.1101/235093Cold Spring Harbor Laboratory Press2017-12-15
<![CDATA[
Peripheral infrastructure vectors and an extended set of plant parts for the modular cloning system
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https://biorxiv.org/cgi/content/short/237768v1?rss=1"
Gantner, J.Ilse, T.Ordon, J.Kretschmer, C.Gruetzner, R.Loefke, C.Dagdas, Y.Buerstenbinder, K.Marillonnet, S.Stuttmann, J.2017-12-21doi:10.1101/237768Cold Spring Harbor Laboratory Press2017-12-21
<![CDATA[
Nucleosome turnover is sufficient to establish varied histone methylation states
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https://biorxiv.org/cgi/content/short/256321v1?rss=1"
Chory, E. J.Calarco, J. P.Hathaway, N. A.Bell, O.Neel, D.Crabtree, G. R.2018-01-31doi:10.1101/256321Cold Spring Harbor Laboratory Press2018-01-31
<![CDATA[
Structure of a novel dimeric SET domain methyltransferase regulating cell motility
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https://biorxiv.org/cgi/content/short/264291v1?rss=1"
Pivovarova, Y.Liu, J.Lesigang, J.Koldyka, O.Rauschmeier, R.Hu, K.Dong, G.2018-02-12doi:10.1101/264291Cold Spring Harbor Laboratory Press2018-02-12
<![CDATA[
Incomplete reprogramming of cell-specific epigenetic marks during asexual reproduction leads to heritable phenotypic variation in plants
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https://biorxiv.org/cgi/content/short/267955v1?rss=1"
Wibowo, A.Becker, C.Durr, J.Price, J.Staepen, S.Hilton, S.Putra, H.Papareddy, R.Saintain, Q.Harvey, S.Bending, G. D.Schulze-Lefert, P.Weigel, D.Gutierrez-Marcos, J.2018-02-19doi:10.1101/267955Cold Spring Harbor Laboratory Press2018-02-19
<![CDATA[
The BRCA1-BARD1 complex associates with the synaptonemal complex and pro-crossover factors and influences RAD-51 dynamics during Caenorhabditis elegans meiosis
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https://biorxiv.org/cgi/content/short/280214v1?rss=1"
Janisiw, E.Dello Stritto, M. R.Jantsch, V.Silva, N.2018-03-11doi:10.1101/280214Cold Spring Harbor Laboratory Press2018-03-11
<![CDATA[
Dynamics of sister chromatid resolution during cell cycle progression
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https://biorxiv.org/cgi/content/short/283770v1?rss=1"
Stanyte, R.Nuebler, J.Blaukopf, C.Hoefler, R.Stocsits, R.Peters, J.-M.Gerlich, D. W.2018-03-16doi:10.1101/283770Cold Spring Harbor Laboratory Press2018-03-16
<![CDATA[
Phosphorylation of HspB1 regulates its mechanosensitive molecular chaperone interaction with native filamin C
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https://biorxiv.org/cgi/content/short/325712v1?rss=1"
Collier, M.Alderson, T. R.de Villiers, C.Nicholls, D.Gastall, H.Allison, T.Degiacomi, M.Fuerst, D.van de Ven, P.Djinovic-Carugo, K.Baldwin, A.Watkins, H.Gehmlich, K.Benesch, J. L.2018-05-18doi:10.1101/325712Cold Spring Harbor Laboratory Press2018-05-18
<![CDATA[
Broad applicability of a streamlined Ethyl Cinnamate-based clearing procedure
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https://biorxiv.org/cgi/content/short/346247v1?rss=1"
Masselink, W.Reumann, D.Murawala, P.Pasierbek, P.Taniguchi, Y.Knoblich, J. A.Tanaka, E. M.2018-06-13doi:10.1101/346247Cold Spring Harbor Laboratory Press2018-06-13
<![CDATA[
Revised testing procedures do not elicit magnetoreceptive behavior in C. elegans
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https://biorxiv.org/cgi/content/short/349944v1?rss=1"
Landler, L.Nordmann, G.Nimpf, S.Hochstoeger, T.Kagerbauer, D.Keays, D.2018-06-18doi:10.1101/349944Cold Spring Harbor Laboratory Press2018-06-18
<![CDATA[
The Ly6/uPAR protein Bouncer is necessary and sufficient for species-specific fertilization
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https://biorxiv.org/cgi/content/short/354688v1?rss=1"
Herberg, S.Gert, K. R.Schleiffer, A.Pauli, A.2018-06-24doi:10.1101/354688Cold Spring Harbor Laboratory Press2018-06-24
<![CDATA[
Homeostatic and Interferon-induced gene expression represent different states of promoter-associated transcription factor ISGF3
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https://biorxiv.org/cgi/content/short/377275v1?rss=1"
Platanitis, E.Demiroz, D.Capelle, C.Schneller, A.Hartl, M.Gossenreiter, T.Mueller, M.Novatchkova, M.Decker, T.2018-07-25doi:10.1101/377275Cold Spring Harbor Laboratory Press2018-07-25
<![CDATA[
A unifying model to predict multiple object orienting behaviors in tethered flies
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https://biorxiv.org/cgi/content/short/379651v1?rss=1"
Poehlmann, A.Soselisa, S.Fenk, L. M.Straw, A. D.2018-07-28doi:10.1101/379651Cold Spring Harbor Laboratory Press2018-07-28
<![CDATA[
The novel lncRNA lnc-NR2F1 is pro-neurogenic and mutated in human neurodevelopmental disorders
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https://biorxiv.org/cgi/content/short/410837v1?rss=1"
Ang, C. E.Ma, Q.Wapinski, O.Fan, S.Flynn, R. A.Coe, B.Onoguchi, M.Olmos, V. H.Do, B. T.Dukes-Rimsky, L.Xu, J.Lee, Q. Y.Tanabe, K.Wang, L.Elling, U.Penninger, J.Qu, K.Eichler, E. E.Srivastava, A.Wernig, M.Chang, H.2018-09-08doi:10.1101/410837Cold Spring Harbor Laboratory Press2018-09-08
<![CDATA[
Olfaction regulates organismal proteostasis and longevity via microRNA-dependent signaling
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https://biorxiv.org/cgi/content/short/420687v1?rss=1"
Finger, F.Ottens, F.Springhorn, A.Drexel, T.Proksch, L.Metz, S.Cochella, L.Hoppe, T.2018-09-18doi:10.1101/420687Cold Spring Harbor Laboratory Press2018-09-18
<![CDATA[
ANKRD31 regulates spatiotemporal patterning of meiotic recombination initiation and ensures recombination between heterologous sex chromosomes in mice
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https://biorxiv.org/cgi/content/short/423293v1?rss=1"
Papanikos, F.Clement, J. A. J.Testa, E.Ravindranathan, R.Grey, C.Dereli, I.Bondarieva, A.Valerio-Cabrera, S.Stanzione, M.Schleiffer, A.Jansa, P.Lustyk, D.Jifeng, F.Forejt, J.Barchi, M.de Massy, B.Toth, A.2018-09-28doi:10.1101/423293Cold Spring Harbor Laboratory Press2018-09-28
<![CDATA[
Cross-linking/Mass Spectrometry: A Community-Wide, Comparative Study Towards Establishing Best Practice Guidelines
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https://biorxiv.org/cgi/content/short/424697v1?rss=1"
Iacobucci, C.Piotrowski, C.Aebersold, R.Amaral, B. C.Andrews, P.Borchers, C.Brodie, N. I.Bruce, J. E.Chaignepain, S.Chavez, J. D.Claverol, S.Cox, J.Degliesposti, G.Dong, M. Q.Edinger, N.Emanuelsson, C.Gay, M.Goetze, M.Gozzo, F. C.Gutierrez, C.Haupt, C.Heck, A. J. R.Herzog, F.Huang, L.Hoopmann, M. R.Kalisman, N.Klykov, O.Kukacka, Z.Liu, F.MacCoss, M. J.Mechtler, K.Mesika, R.Moritz, R. L.Nagaraj, N.Nesati, V.Ninnis, R.Novak, P.O'Reilly, F. J.Pelzing, M.Petrotchenko, E.Piersimoni, L.Plasencia, M.Pukala, T.Rand,2018-09-26doi:10.1101/424697Cold Spring Harbor Laboratory Press2018-09-26
<![CDATA[
Id4 eliminates the pro-activation factor Ascl1 to maintain quiescence of adult hippocampal stem cells
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https://biorxiv.org/cgi/content/short/426015v1?rss=1"
Blomfield, I. M.Rocamonde, B.Masdeu, M. D. M.Mulugeta, E.Vaga, S.van den Berg, D. L. C.Huillard, E.Guillemot, F.Urban, N.2018-09-25doi:10.1101/426015Cold Spring Harbor Laboratory Press2018-09-25
<![CDATA[
MTHFD1 is a genetic interactor of BRD4 and links folate metabolism to transcriptional regulation
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https://biorxiv.org/cgi/content/short/439422v1?rss=1"
Sdelci, S.Rendeiro, A.Rathert, P.Hofstaetter, G.Ringler, A.Moll, H. P.You, W.Klavins, K.Guertl, B.Farlik, M.Schick, S.Klepsch, F.Oldach, M.Buphamalai, P.Schischlik, F.Majek, P.Parapatics, K.Schmidl, C.Schuster, M.Penz, T.Buckley, D. L.Hudecz, O.Imre, R.Kralovics, R.Bennett, K. L.Mueller, A. C.Mechtler, K.Menche, J.Bradner, J. E.Winter, G. E.Casanova, E.Bock, C.Zuber, J.Kubicek, S.2018-10-10doi:10.1101/439422Cold Spring Harbor Laboratory Press2018-10-10
<![CDATA[
Sulfated RaxX, which represents an unclassified group of ribosomally synthesized post-translationally modified peptides, binds a host immune receptor
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https://biorxiv.org/cgi/content/short/442517v1?rss=1"
Luu, D. D.Joe, A.Chen, Y.Parys, K.Bahar, O.Pruitt, R.Chen, L. J. G.Petzold, C. J.Long, K.Adamchak, C.Stewart, V.Belkhadir, Y.Ronald, P. C.2018-10-13doi:10.1101/442517Cold Spring Harbor Laboratory Press2018-10-13
<![CDATA[
Systems approaches provide new insights into Arabidopsis thaliana root growth under mineral nutrient limitation
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https://biorxiv.org/cgi/content/short/460360v1?rss=1"
Bouain, N.Korte, A.Satbhai, S. B.Rhee, S. Y.Busch, W.Rouached, H.2018-11-04doi:10.1101/460360Cold Spring Harbor Laboratory Press2018-11-04
<![CDATA[
Architectural principles for Hfq/Crc-mediated regulation of gene expression
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https://biorxiv.org/cgi/content/short/464024v1?rss=1"
Luisi, B. F.Pei, X. Y.Dendooven, T.Sonnleitner, E.Chen, S.Blasi, U.2018-11-06doi:10.1101/464024Cold Spring Harbor Laboratory Press2018-11-06
<![CDATA[
WUSCHEL acts as a rheostat on the auxin pathway to maintain apical stem cells in Arabidopsis
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https://biorxiv.org/cgi/content/short/468421v1?rss=1"
Ma, Y.Miotk, A.Sutikovic, Z.Medzihradszky, A.Enzl, C.Ermakova, O.Gaillochet, C.Forner, J.Utan, G.Brackmann, K.Galvan-Ampudia, C.Vernoux, T.Thomas, G.Lohmann, J. U.2018-11-12doi:10.1101/468421Cold Spring Harbor Laboratory Press2018-11-12
<![CDATA[
Remote control of alternative splicing in roots through TOR kinase
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https://biorxiv.org/cgi/content/short/472126v1?rss=1"
nView larger version (76K):norg.highwire.dtl.DTLVardef@a8c978org.highwire.dtl.DTLVardef@1430da0org.highwire.dtl.DTLVardef@1339990org.highwire.dtl.DTLVardef@a6dd5a_HPS_FORMAT_FIGEXP M_FIG C_FIG Art by Dr. Luciana Giono.
]]>Petrillo, E.Riegler, S.Fuchs, A.Servi, L.Godoy Herz, M. A.Kubaczka, M. G.Venhuizen, P.Schweighofer, A.Kornblihtt, A. R.Simpson, C.Brown, J. W. S.Meyer, C.Kalyna, M.Barta, A.2018-11-19doi:10.1101/472126Cold Spring Harbor Laboratory Press2018-11-19
<![CDATA[
Optimized fragmentation improves the identification of peptides cross-linked using MS-cleavable reagents
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https://biorxiv.org/cgi/content/short/476051v1?rss=1"
Stieger, C. E.Doppler, P.Mechtler, K.2018-11-23doi:10.1101/476051Cold Spring Harbor Laboratory Press2018-11-23
<![CDATA[
Selective roles of vertebrate PCF11 in premature and full-length transcript termination
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https://biorxiv.org/cgi/content/short/491514v1?rss=1"
Kamieniarz-Gdula, K.Gdula, M. R.Panser, K.Nojima, T.Monks, J.Wisniewski, J. R.Riepsaame, J.Brockdorff, N.Pauli, A.Proudfoot, N. J.2018-12-09doi:10.1101/491514Cold Spring Harbor Laboratory Press2018-12-09
<![CDATA[
Augmin-mediated amplification of long-lived spindle microtubules directs plus-ends to kinetochores
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https://biorxiv.org/cgi/content/short/501445v1?rss=1"
David, A. F.Roudot, P.Legant, W. R.Betzig, E.Danuser, G.Gerlich, D. W.2018-12-19doi:10.1101/501445Cold Spring Harbor Laboratory Press2018-12-19
<![CDATA[
The Prrx1 limb enhancer marks an adult population of injury-responsive, multipotent dermal fibroblasts
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https://biorxiv.org/cgi/content/short/524124v1?rss=1"
Currie, J. D.Grosser, L.Murawala, P.Schuez, M.Michel, M.Tanaka, E. M.Sandoval-Guzman, T.2019-01-18doi:10.1101/524124Cold Spring Harbor Laboratory Press2019-01-18
<![CDATA[
Werner syndrome helicase is a selective vulnerability of microsatellite instability high tumor cells
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https://biorxiv.org/cgi/content/short/530659v1?rss=1"
Lieb, S.Blaha-Ostermann, S.Kamper, E.Ehrenhoefer-Woelfer, K.Schlattl, A.Wernitznig, A.Lipp, J. J.Nagasaka, K.Bader, G.Neumueller, R. A.Kraut, N.Pearson, M. A.Petronczki, M.Woehrle, S.2019-01-26doi:10.1101/530659Cold Spring Harbor Laboratory Press2019-01-26
<![CDATA[
A neurodevelopmental origin of behavioral individuality
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https://biorxiv.org/cgi/content/short/540880v1?rss=1"
Linneweber, G.Andriatsilavo, M.Dutta, S.Hellbruegge, L.Liu, G.Ejsmont, R.Fenk, L.Straw, A.Wernet, M.Hiesinger, P. R.Hassan, B.2019-02-05doi:10.1101/540880Cold Spring Harbor Laboratory Press2019-02-05
<![CDATA[
Meiotic DNA repair in the nucleolus employs a non-homologous end joining mechanism
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https://biorxiv.org/cgi/content/short/553529v1?rss=1"
Sims, J.Copenhaver, G. P.Schloegelhofer, P.2019-02-18doi:10.1101/553529Cold Spring Harbor Laboratory Press2019-02-18
<![CDATA[
EXOCYST70A3 controls root system depth in Arabidopsis via the dynamic modulation of auxin transport
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https://biorxiv.org/cgi/content/short/559187v1?rss=1"
Ogura, T.Goeschl, C.Filiault, D.Mirea, M.Slovak, R.Wolhrab, B.Satbhai, S. B.Busch, W.2019-02-24doi:10.1101/559187Cold Spring Harbor Laboratory Press2019-02-24
<![CDATA[
Absolute quantification of cohesin, CTCF and their regulators in human cells
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https://biorxiv.org/cgi/content/short/560425v1?rss=1"
Holzmann, J.Politi, A. Z.Nagasaka, K.Hantsche-Grininger, M.Walther, N.Koch, B.Fuchs, J.Dürnberger, G.Tang, W.Ladurner, R.Stocsits, R. R.Busslinger, G. A.Novak, B.Mechtler, K.Davidson, I. F.Ellenberg, J.Peters, J.-M.2019-02-26doi:10.1101/560425Cold Spring Harbor Laboratory Press2019-02-26
<![CDATA[
Differential impacts of the head on Platynereis dumerilii peripheral circadian rhythms
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https://biorxiv.org/cgi/content/short/593772v1?rss=1"
Arboleda, E.Zurl, M.Tessmar-Raible, K.2019-03-30doi:10.1101/593772Cold Spring Harbor Laboratory Press2019-03-30
<![CDATA[
Evolution of neuronal anatomy and circuitry in two highly divergent nematode species
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https://biorxiv.org/cgi/content/short/595025v1?rss=1"
Hong, R. L.Riebesell, M.Bumbarger, D. J.Cook, S. J.Carstensen, H. R.Sarpolaki, T.Cochella, L.Castrejon, J.Moreno, E.Sieriebriennikov, B.Hobert, O.Sommer, R. J.2019-04-01doi:10.1101/595025Cold Spring Harbor Laboratory Press2019-04-01
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A heterochromatin-specific RNA export pathway facilitates piRNA production
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https://biorxiv.org/cgi/content/short/596171v1?rss=1"
ElMaghraby, M. F.Andersen, P. R.Puehringer, F.Meixner, K.Lendl, T.Tirian, L.Brennecke, J.2019-04-02doi:10.1101/596171Cold Spring Harbor Laboratory Press2019-04-02
<![CDATA[
Identification of novel genes involved in phosphate accumulation in Lotus japonicus through Genome Wide Association mapping of root system architecture and anion content
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https://biorxiv.org/cgi/content/short/600726v1?rss=1"
Giovannetti, M.Goeschl, C.Andersen, S. U.Kopriva, S.Busch, W.2019-04-05doi:10.1101/600726Cold Spring Harbor Laboratory Press2019-04-05
<![CDATA[
The nascent RNA binding complex SFiNX licenses piRNA-guided heterochromatin formation
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https://biorxiv.org/cgi/content/short/609693v1?rss=1"
Batki, J.Schnabl, J.Wang, J.Handler, D.Andreev, V.Stieger, C.Novatchkova, M.Lampersberger, L.Kauneckaite, K.Mechtler, K.Patel, D.Brennecke, J.2019-04-17doi:10.1101/609693Cold Spring Harbor Laboratory Press2019-04-17
<![CDATA[
Metabolic control of YAP via the acto-myosin system during liver regeneration
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https://biorxiv.org/cgi/content/short/617878v1?rss=1"
Meyer, K.Morales-Navarrete, H.Seifert, S.Wilsch-Braeuninger, M.Dahmen, U.Tanaka, E. M.Brusch, L.Kalaidzidis, Y.Zerial, M.2019-04-24doi:10.1101/617878Cold Spring Harbor Laboratory Press2019-04-24
<![CDATA[
Hierarchical recurrent state space models reveal discrete and continuous dynamics of neural activity in C. elegans
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https://biorxiv.org/cgi/content/short/621540v1?rss=1"
Linderman, S. W.Nichols, A. L. A.Blei, D. M.Zimmer, M.Paninski, L.2019-04-29doi:10.1101/621540Cold Spring Harbor Laboratory Press2019-04-29
<![CDATA[
A Protein Engineering Approach for Uncovering Cryptic Ubiquitin-binding Sites: from a Ubiquitin-Variant Inhibitor of APC/C to K48 Chain Binding
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https://biorxiv.org/cgi/content/short/669846v1?rss=1"
Watson, E. R.Grace, C. R. R.Zhang, W.Miller, D. J.Davidson, I. F.Prabu, J. R.Yu, S.Bolhuis, D. L.Kulko, E. T.Vollrath, R.Haselbach, D.Stark, H.Peters, J.-M.Brown, N. G.Sidhu, S. S.Schulman, B. A.2019-06-12doi:10.1101/669846Cold Spring Harbor Laboratory Press2019-06-12
<![CDATA[
Improved Sensitivity in Low-Input Proteomics using Micro-Pillar Array-based Chromatography
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https://biorxiv.org/cgi/content/short/678995v1?rss=1"
Stadlmann, J.Hudecz, O.Krssakova, G.Van Raemdonck, G.Op De Beeck, J.Desmet, G.Penninger, J. M.Jacobs, P.Mechtler, K.2019-06-21doi:10.1101/678995Cold Spring Harbor Laboratory Press2019-06-21
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Invariants of Frameshifted Variants
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https://biorxiv.org/cgi/content/short/684076v1?rss=1"
Bartonek, L.Braun, D.Zagrovic, B.2019-06-27doi:10.1101/684076Cold Spring Harbor Laboratory Press2019-06-27
<![CDATA[
Molecular mechanism for the recognition of sequence-divergent CIF peptides by the plant receptor kinases GSO1/SGN3 and GSO2.
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https://biorxiv.org/cgi/content/short/692228v1?rss=1"
Okuda, S.Fujita, S.Moretti, A.Hohmann, U.Gonzalez Doblas, V. G.Ma, Y.Pfister, A.Brandt, B.Geldner, N.Hothorn, M.2019-07-04doi:10.1101/692228Cold Spring Harbor Laboratory Press2019-07-04
<![CDATA[
TMT-Opsins differentially modulate medaka brain function in a context-dependent fashion
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https://biorxiv.org/cgi/content/short/698480v1?rss=1"
Fontinha, B. M.Zekoll, T.Gallach, M.Reithofer, F.Barker, A. J.Hofbauer, M.Fischer, R.von Haeseler, A.Baier, H.Tessmar-Raible, K.2019-07-11doi:10.1101/698480Cold Spring Harbor Laboratory Press2019-07-11
<![CDATA[
Evolved for success in novel environments: the round goby genome
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https://biorxiv.org/cgi/content/short/708974v1?rss=1"
Adrian-Kalchhauser, I.Blomberg, A.Larsson, T.Musliova, Z.Peart, C. R.Pippel, M.Hongroe Solbakken, M.Suurvaeli, J.Walser, J.-C.Wilson, J. Y.Alm Rosenblad, M.Burguera, D.Gutnik, S.Michiels, N.Toelpel, M.Pankov, K.Schloissnig, S.Winkler, S.2019-07-19doi:10.1101/708974Cold Spring Harbor Laboratory Press2019-07-19
<![CDATA[
Structural control for the coordinated assembly into functional pathogenic type-3 secretion systems
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https://biorxiv.org/cgi/content/short/714097v1?rss=1"
Goessweiner-Mohr, N.Kotov, V.Brunner, M. J.Mayr, J.Wald, J.Kuhlen, L.Miletic, S.Vesper, O.Lugmayr, W.Wagner, S.DiMaio, F.Lea, S.Marlovits, T. C.2019-07-24doi:10.1101/714097Cold Spring Harbor Laboratory Press2019-07-24
<![CDATA[
Dynamics of activating and repressive histone modifications in Drosophila neural stem cell lineages and brain tumors
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https://biorxiv.org/cgi/content/short/724039v1?rss=1"
Abdusselamoglu, M. D.Landskron, L.Bowman, S. K.Eroglu, E.Burkard, T. R.Kingston, R. E.Knoblich, J.2019-08-03doi:10.1101/724039Cold Spring Harbor Laboratory Press2019-08-03
<![CDATA[
Norovirus replication in human intestinal epithelial cells is restricted by the interferon-induced JAK/STAT signalling pathway and RNA Polymerase II mediated transcriptional responses.
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https://biorxiv.org/cgi/content/short/731802v1?rss=1"
Hosmillo, M. T.Chaudhry, Y.Nayak, K.Sorgeloos, F.Koo, B.-K.Merenda, A.Lillestol, R.Drumright, L.Zilbauer, M.Goodfellow, I. G.2019-08-10doi:10.1101/731802Cold Spring Harbor Laboratory Press2019-08-10
<![CDATA[
Crystal structure of the TbBILBO1 N-terminal domain reveals a ubiquitin fold with a long rigid loop for the binding of its partner
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https://biorxiv.org/cgi/content/short/738153v1?rss=1"
Dong, G.2019-08-16doi:10.1101/738153Cold Spring Harbor Laboratory Press2019-08-16
<![CDATA[
Cep97 Is Required For Centriole Structural Integrity And Cilia Formation In Drosophila
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https://biorxiv.org/cgi/content/short/740217v1?rss=1"
Dobbelaere, J.Schmidt-Cernohorska, M.Huranova, M.Slade, D.Dammermann, A.2019-08-20doi:10.1101/740217Cold Spring Harbor Laboratory Press2019-08-20
<![CDATA[
Site-specific ubiquitination of the E3 ligase HOIP regulates cell death and immune signaling
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https://biorxiv.org/cgi/content/short/742544v1?rss=1"
Fennell, L. M.Deszcz, L.Schleiffer, A.Mechtler, K.Kavirayani, A.Ikeda, F.2019-08-21doi:10.1101/742544Cold Spring Harbor Laboratory Press2019-08-21
<![CDATA[
Profiling cellular diversity in sponges informs animal cell type and nervous system evolution
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https://biorxiv.org/cgi/content/short/758276v1?rss=1"
Musser, J.Schippers, K. J.Nickel, M.Mizzon, G.Kohn, A. B.Pape, C.Hammel, J. U.Wolf, F.Liang, C.Hernandez-Plaza, A.Achim, K.Schieber, N.Francis, W. R.Vargas R., S.Kling, S.Renkert, M.Feuda, R.Gaspar, I.Burkhardt, P.Bork, P.Beck, M.Kreshuk, A.Wörheide, G.Huerta-Cepas, J.Schwab, Y.Moroz, L. L.Arendt, D.2019-09-05doi:10.1101/758276Cold Spring Harbor Laboratory Press2019-09-05
<![CDATA[
The IDA cell separation pathway connects developmental and defense responses
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https://biorxiv.org/cgi/content/short/761346v1?rss=1"
Olsson, V.Smakowska-Luzan, E.Breiden, M.Marhavy, P.Schneeweiss, R.Belkhadir, Y.Simon, R.Butenko, M. A.2019-09-08doi:10.1101/761346Cold Spring Harbor Laboratory Press2019-09-08
<![CDATA[
Ifnar1 signaling breaks the hepatic urea cycle to regulate adaptive immunity
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https://biorxiv.org/cgi/content/short/762310v1?rss=1"
Lercher, A.Bhattacharya, A.Popa, A. M.Caldera, M.Schlapansky, M. F.Baazim, H.Majek, P.Brunner, J. S.Kosack, L. J.Vitko, D.Pinter, T.Guertl, B.Reil, D.Kalinke, U.Bennett, K. L.Menche, J.Cheng, P. N.Schabbauer, G.Trauner, M.Klavins, K.Bergthaler, A.2019-09-10doi:10.1101/762310Cold Spring Harbor Laboratory Press2019-09-10
<![CDATA[
Importance of parental genome balance in the generation of novel yet heritable epigenetic and transcriptional states during doubled haploid breeding
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https://biorxiv.org/cgi/content/short/812347v1?rss=1"
Price, J.Antunez-Sanchez, J.Hussain, N.Wibowo, A.Papareddy, R.Becker, C.Teakle, G.Barker, G.Weigel, D.Gutierrez-Marcos, J.2019-10-21doi:10.1101/812347Cold Spring Harbor Laboratory Press2019-10-21
<![CDATA[
Chromatin organization in early land plants reveals an ancestral association between H3K27me3, transposons, and constitutive heterochromatin
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https://biorxiv.org/cgi/content/short/827881v1?rss=1"
Montgomery, S. A.Tanizawa, Y.Galik, B.Wang, N.Ito, T. A.Mochizuki, T.Akimcheva, S.Bowman, J.Cognat, V.Drouard, L.Ekker, H.Houng, S.-F.Kohchi, T.Lin, S.-S.Liu, L.-Y. D.Nakamura, Y.Valeeva, L. R.Shakirov, E. V.Shippen, D. E.Wei, W.-L.Yagura, M.Yamaoka, S.Yamato, K. T.Liu, C.Berger, F.2019-11-01doi:10.1101/827881Cold Spring Harbor Laboratory Press2019-11-01
<![CDATA[
Host-dependent induction of disease tolerance to infection by tetracycline antibiotics
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https://biorxiv.org/cgi/content/short/833269v1?rss=1"
Colaco, H. G.Barros, A.Neves-Costa, A.Seixas, E.Pedroso, D.Velho, T. R.Willmann, K.Yi, H.-S.Shong, M.Benes, V.Weis, S.Köcher, T.Moita, L. F.2019-11-07doi:10.1101/833269Cold Spring Harbor Laboratory Press2019-11-07
<![CDATA[
A deeply conserved miR-1 dependent regulon supports muscle cell physiology
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https://biorxiv.org/cgi/content/short/2020.08.31.275644v1?rss=1"
Gutierrez-Perez, P.Santillan, E. M.Lendl, T.Schrempf, A. C.Steinacker, T. L.Asparuhova, M.Brandstetter, M.Haselbach, D.Cochella, L.2020-09-01doi:10.1101/2020.08.31.275644Cold Spring Harbor Laboratory Press2020-09-01
<![CDATA[
Fast and highly efficient affinity enrichment of Azide-A-DSBSO cross-linked peptides.
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https://biorxiv.org/cgi/content/short/2019.12.17.879601v1?rss=1"
Matzinger, M.Kandioller, W.Doppler, P.Heiss, E. H.Mechtler, K.2019-12-18doi:10.1101/2019.12.17.879601Cold Spring Harbor Laboratory Press2019-12-18
<![CDATA[
Plasticity of the primary metabolome in 241 cold grown Arabidopsis thaliana accessions and its relation to natural habitat temperature
]]>
https://biorxiv.org/cgi/content/short/2020.09.24.311092v1?rss=1"
Weiszmann, J.Clauw, P.Jagoda, J.Reichardt-Gomez, I.Koemeda, S.Jez, J.Nordborg, M.Walther, D.Naegele, T.Weckwerth, W.2020-09-25doi:10.1101/2020.09.24.311092Cold Spring Harbor Laboratory Press2020-09-25
<![CDATA[
Host-interactor screens of Phytophthora infestans RXLR proteins reveal vesicle trafficking as a major effector-targeted process
]]>
https://biorxiv.org/cgi/content/short/2020.09.24.308585v1?rss=1"
Petre, B.Contreras, M. P.Bozkurt, T. O.Schattat, M. H.Sklenar, J.Schornack, S.Abd-El-Haliem, A.Castells-Graells, R.Lozano-Duran, R.Dagdas, Y.Menke, F.Jones, A. M. E.Vossen, J.Robatzek, S.Kamoun, S.Win, J.2020-09-24doi:10.1101/2020.09.24.308585Cold Spring Harbor Laboratory Press2020-09-24
<![CDATA[
A transposon surveillance mechanism that safeguards plant male fertility during stress
]]>
https://biorxiv.org/cgi/content/short/2020.10.03.324764v1?rss=1"
Gutierrez-Marcos, J.Lee, Y.-S.Maple, R.Durr, J.Dawson, A.Tamim, S.Meyers, B. C.del Genio, C.Papareddy, R.Luo, A.Lamb, J.Sylvester, A. W.Birchler, J. A.Nodine, M. D.Rouster, J.2020-10-04doi:10.1101/2020.10.03.324764Cold Spring Harbor Laboratory Press2020-10-04
<![CDATA[
Sequencing and analysis of Arabidopsis thaliana NOR2 reveal its distinct organization and tissue-specific expression of rRNA ribosomal variants
]]>
https://biorxiv.org/cgi/content/short/2020.09.10.272005v1?rss=1"
Sims, J.Sestini, G.Elgert, C.von Haeseler, A.Schloegelhofer, P.2020-09-11doi:10.1101/2020.09.10.272005Cold Spring Harbor Laboratory Press2020-09-11
<![CDATA[
The Anti-histamine Azelastine, Identified by Computational Drug Repurposing, Inhibits SARS-CoV-2 Infection in Reconstituted Human Nasal Tissue In Vitro
]]>
https://biorxiv.org/cgi/content/short/2020.09.15.296228v1?rss=1"
Konrat, R.Papp, H.Szijarto, V.Gesell, T.Nagy, G.Madai, M.Zeghbib, S.Kuczmog, A.Lanszki, Z.Helyes, Z.Kemenesi, G.Jakab, F.Nagy, E.2020-09-15doi:10.1101/2020.09.15.296228Cold Spring Harbor Laboratory Press2020-09-15
<![CDATA[
NBR1 directly promotes the formation of p62 - ubiquitin condensates via its PB1 and UBA domains
]]>
https://biorxiv.org/cgi/content/short/2020.09.18.303552v1?rss=1"
Savova, A.Romanov, J.Martens, S.2020-09-18doi:10.1101/2020.09.18.303552Cold Spring Harbor Laboratory Press2020-09-18
<![CDATA[
The extracellular matrix protein agrin is essential for epicardial epithelial-to-mesenchymal transition during heart development
]]>
https://biorxiv.org/cgi/content/short/2020.09.25.313742v1?rss=1"
Sun, X.Malandraki-Miller, S.Kennedy, T.Bassat, E.Klaourakis, K.Zhou, J.Gamen, E.Vieira, J. M.Tzahor, E.Riley, P.2020-09-26doi:10.1101/2020.09.25.313742Cold Spring Harbor Laboratory Press2020-09-26
<![CDATA[
Loss of RNF43/ZNRF3 predisposes to Hepatocellular carcinoma by impairing liver regeneration and altering liver fat metabolism
]]>
https://biorxiv.org/cgi/content/short/2020.09.25.313205v1?rss=1"
Mastrogiovanni, G.Pacini, C.Kakava, S.Arnes-Benito, R.Bradshaw, C. R.Davies, S.Saeb-Parsy, K.Koo, B.-K.Huch, M.2020-09-25doi:10.1101/2020.09.25.313205Cold Spring Harbor Laboratory Press2020-09-25
<![CDATA[
LAP2alpha maintains a mobile and low assembly state of A-type lamins in the nuclear interior
]]>
https://biorxiv.org/cgi/content/short/2020.09.25.313296v1?rss=1"
Naetar, N.Georgiou, K.Knapp, C.Bronshtein, I.Zier, E.Fichtinger, P.Dechat, T.Garini, Y.Foisner, R.2020-09-25doi:10.1101/2020.09.25.313296Cold Spring Harbor Laboratory Press2020-09-25
<![CDATA[
Structural insights into F-actin regulation and sarcomere assembly via myotilin
]]>
https://biorxiv.org/cgi/content/short/2020.09.25.310029v1?rss=1"
Kostan, J.Pavsic, M.Puz, V.Schwarz, T. C.Drepper, F.Molt, S.Graewert, M. A.Schreiner, C.Sajko, S.van der Ven, P. F. M.Svergun, D.Warscheid, B.Konrat, R.Fuerst, D. O.Lenarcic, B.Djinovic-Carugo, K.2020-09-25doi:10.1101/2020.09.25.310029Cold Spring Harbor Laboratory Press2020-09-25
<![CDATA[
MCM complexes are barriers that restrict cohesin-mediated loop extrusion
]]>
https://biorxiv.org/cgi/content/short/2020.10.15.340356v1?rss=1"
Dequeker, B. J. H.Brandao, H. B.Scherr, M. J.Gassler, J.Powell, S.Gaspar, I.Flyamer, I. M.Tang, W.Stocsits, R.Davidson, I. F.Peters, J.-M.Duderstadt, K. E.Mirny, L. A.Tachibana, K.2020-10-15doi:10.1101/2020.10.15.340356Cold Spring Harbor Laboratory Press2020-10-15
<![CDATA[
GWAS analysis combined with QTL mapping identify CPT3 and ABH as genes underlying dolichol accumulation in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2020.10.21.348912v1?rss=1"
Gawarecka, K.Siwinska, J.Poznanski, J.Onysk, A.Surowiecki, P.Surmacz, L.Ahn, J. H.Korte, A.Swiezewska, E.Ihnatowicz, A.2020-10-21doi:10.1101/2020.10.21.348912Cold Spring Harbor Laboratory Press2020-10-21
<![CDATA[
Polyploidy-associated paramutation in Arabidopsis is determined by small RNAs, temperature, and structure
]]>
https://biorxiv.org/cgi/content/short/2020.10.21.348839v1?rss=1"
Bente, H.Foerster, A. M.Sarazin, A.Lettner, N.Mittelsten Scheid, O.2020-10-22doi:10.1101/2020.10.21.348839Cold Spring Harbor Laboratory Press2020-10-22
<![CDATA[
Comparative transcriptomic analysis reveals conserved transcriptional programs underpinning organogenesis and reproduction in land plants
]]>
https://biorxiv.org/cgi/content/short/2020.10.29.361501v1?rss=1"
Julca, I.Flores, M.Proost, S.Lindner, A.-C.Hackenberg, D.Steinbachova, L.Michaelidis, C.Gomes Pereira, S.Misra, C. S.Kawashima, T.Borg, M.Berger, F.Goldberg, J.Johnson, M.Honys, D.Twell, D.Sprunck, S.Dresselhaus, T.Becker, J.Mutwil, M.2020-10-30doi:10.1101/2020.10.29.361501Cold Spring Harbor Laboratory Press2020-10-30
<![CDATA[
Full species-wide leaf and seed ionomic diversity of Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2020.11.09.373282v1?rss=1"
Campos, A. C. A. L.van Dijk, W. F. A.Ramakrishna, P.Giles, T.Korte, P.Douglas, A.Smith, P.Salt, D. E.2020-11-10doi:10.1101/2020.11.09.373282Cold Spring Harbor Laboratory Press2020-11-10
<![CDATA[
u-track 3D: measuring and interrogating intracellular dynamics in three dimensions.
]]>
https://biorxiv.org/cgi/content/short/2020.11.30.404814v1?rss=1"
Roudot, P.Legant, W. R.Zou, Q.Dean, K. M.Welf, E. S.David, A. F.Gerlich, D. W.Fiolka, R. P.Betzig, E.Danuser, G.2020-12-01doi:10.1101/2020.11.30.404814Cold Spring Harbor Laboratory Press2020-12-01
<![CDATA[
Tension-dependent stabilization of E-cadherin limits cell-cell contact expansion
]]>
https://biorxiv.org/cgi/content/short/2020.11.20.391284v1?rss=1"
Slovakova, J.Sikora, M.Caballero-Mancebo, S.Krens, G. S.Heisenberg, C.-P.Kaufmann, W. A.Huljev, K.2020-11-20doi:10.1101/2020.11.20.391284Cold Spring Harbor Laboratory Press2020-11-20
<![CDATA[
Biomolecular Condensation Drives Leukemia Caused by NUP98-Fusion Proteins
]]>
https://biorxiv.org/cgi/content/short/2020.11.16.384271v1?rss=1"
35 repeats of Phenylalanine-Glycine (FG) in the NUP98 N-terminus. Conversely, different C-terminal NUP98-fusion partners are often transcriptional and epigenetic regulators. Given these structural features we hypothesized that mechanisms of oncogenic transformation by NUP98-fusion proteins are hard-wired in their protein interactomes. Affinity purification coupled to mass spectrometry of five distinct NUP98-fusion proteins revealed a conserved set of interactors that was highly enriched for proteins involved in biomolecular condensation. We developed biotinylated isoxazole-mediated condensome mass spectrometry (biCon-MS) to show that NUP98-fusion proteins alter the global composition of biomolecular condensates. In addition, an artificial FG-repeat containing fusion protein was able to phenocopy the induction of leukemic gene expression as mediated by NUP98-KDM5A. Thus, we propose that IDR-containing fusion proteins have evolved to uniquely combine biomolecular condensation with gene control to induce cancer.
AML, NUP98, fusion protein, AP-MS, LLPS, biCon-MS, condensate
]]>Terlecki-Zaniewicz, S.Eder, T.Schmoellerl, J.Humer, T.Kuchynka, N.Parapatics, K.Heyes, E.Liberante, F. G.Müller, A. C.Grebien, F.2020-11-16doi:10.1101/2020.11.16.384271Cold Spring Harbor Laboratory Press2020-11-16
<![CDATA[
Rapid nucleus-scale reorganization of chromatin in neurons enables transcriptional adaptation for memory consolidation
]]>
https://biorxiv.org/cgi/content/short/2020.12.03.409623v1?rss=1"
Peter, M.Aschauer, D. F.Paz Pandolfo, R.Sinning, A.Grössl, F.Kargl, D.Kraitsy, K.Burkard, T. R.Luhmann, H. J.Haubensak, W.Rumpel, S.2020-12-03doi:10.1101/2020.12.03.409623Cold Spring Harbor Laboratory Press2020-12-03
<![CDATA[
A BTB-DOMAIN TRANSCRIPTION FACTOR RECRUITS CHROMATIN REMODELERS AND A HISTONE CHAPERONE DURING THE EXIT FROM PLURIPOTENCY
]]>
https://biorxiv.org/cgi/content/short/2020.12.03.409912v1?rss=1"
Olivieri, D.Paramanathan, S.Bardet, A. F.Hess, D.Smallwood, S. A.Elling, U.Betschinger, J.2020-12-06doi:10.1101/2020.12.03.409912Cold Spring Harbor Laboratory Press2020-12-06
<![CDATA[
Transcriptomic profiling uncovers novel players in innate immunity in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2021.01.02.425067v1?rss=1"
Safaeizadeh, M.Boller, T.Becker, C.2021-01-04doi:10.1101/2021.01.02.425067Cold Spring Harbor Laboratory Press2021-01-04
<![CDATA[
Wnt/beta-catenin signalling is dispensable for adult neural stem cell homeostasis and activation.
]]>
https://biorxiv.org/cgi/content/short/2020.12.29.424694v1?rss=1"
Austin, S. H. L.Harris, L.Paun, O.Rigo, P.Guillemot, F.Urban Avellaneda, N.2020-12-29doi:10.1101/2020.12.29.424694Cold Spring Harbor Laboratory Press2020-12-29
<![CDATA[
Plant-derived benzoxazinoids act as antibiotics and shape bacterial communities
]]>
https://biorxiv.org/cgi/content/short/2021.01.12.425818v1?rss=1"
Schandry, N.Jandrasits, K.Garrido-Oter, R.Becker, C.2021-01-12doi:10.1101/2021.01.12.425818Cold Spring Harbor Laboratory Press2021-01-12
<![CDATA[
The molecular principles of Piwi-mediated co-transcriptional silencing through the dimeric SFiNX complex
]]>
https://biorxiv.org/cgi/content/short/2021.01.08.425619v1?rss=1"
Schnabl, J.Wang, J.Hohmann, U.Gehre, M.Batki, J.Andreev, V. I.Purkhauser, K.Fasching, N.Duchek, P.Novatchkova, M.Mechtler, K.Plaschka, C.Patel, D. J.Brennecke, J.2021-01-08doi:10.1101/2021.01.08.425619Cold Spring Harbor Laboratory Press2021-01-08
<![CDATA[
Lamina-associated polypeptide 2α is required for intranuclear MRTF-A activity
]]>
https://biorxiv.org/cgi/content/short/2021.01.08.425886v1?rss=1"
Sidorenko, E.Sokolova, M.Pennanen, A.Kyheroinen, S.Posern, G.Foisner, R.Vartiainen, M.2021-01-08doi:10.1101/2021.01.08.425886Cold Spring Harbor Laboratory Press2021-01-08
<![CDATA[
CYK-1/Formin activation in cortical RhoA signaling centers promotes organismal left-right symmetry breaking
]]>
https://biorxiv.org/cgi/content/short/2021.01.08.425924v1?rss=1"
Middelkoop, T. C.Garcia-Baucells, J.Quintero-Cadena, P.Pimpale, L. G.Yazdi, S.Sternberg, P.Gross, P.Grill, S. W.2021-01-08doi:10.1101/2021.01.08.425924Cold Spring Harbor Laboratory Press2021-01-08
<![CDATA[
Reconstitution of cargo-induced LC3 lipidation in mammalian selective autophagy
]]>
https://biorxiv.org/cgi/content/short/2021.01.08.425958v1?rss=1"
Chang, C.Shi, X.Jensen, L.Yokom, A. L.Fracchiolla, D.Martens, S.Hurley, J. H.2021-01-09doi:10.1101/2021.01.08.425958Cold Spring Harbor Laboratory Press2021-01-09
<![CDATA[
Ribosomal intron-mediated switch governs yeast survival in starvation
]]>
https://biorxiv.org/cgi/content/short/2021.01.19.427159v1?rss=1"
Lukacisin, M.Espinosa-Cantu, A.Bollenbach, T.2021-01-19doi:10.1101/2021.01.19.427159Cold Spring Harbor Laboratory Press2021-01-19
<![CDATA[
Structural and functional studies of the first tripartite protein complex at the Trypanosoma brucei flagellar pocket collar
]]>
https://biorxiv.org/cgi/content/short/2021.01.26.428227v1?rss=1"
BONHIVERS, M.Isch, C.Majneri, P.Landrein, N.Pivovarova, Y.Lesigang, J.Lauruol, F.Robinson, D. R.Dong, G.2021-01-26doi:10.1101/2021.01.26.428227Cold Spring Harbor Laboratory Press2021-01-26
<![CDATA[
Vasopressin V2 is a promiscuous G protein-coupled receptor that is biased by its peptide ligands
]]>
https://biorxiv.org/cgi/content/short/2021.01.28.427950v1?rss=1"
Heydenreich, F. M.Plouffe, B.Rizk, A.Milic, D.Zhou, J.Breton, B.Le Gouill, C.Inoue, A.Bouvier, M.Veprintsev, D.2021-01-28doi:10.1101/2021.01.28.427950Cold Spring Harbor Laboratory Press2021-01-28
<![CDATA[
Revisiting a GWAS peak in Arabidopsis thaliana reveals possible confounding by genetic heterogeneity
]]>
https://biorxiv.org/cgi/content/short/2021.02.03.429533v1?rss=1"
Sasaki, E.Koecher, T.Filiault, D.Nordborg, M.2021-02-03doi:10.1101/2021.02.03.429533Cold Spring Harbor Laboratory Press2021-02-03
<![CDATA[
RGI-GOLVEN signalling promotes FLS2 abundance to regulate plant immunity
]]>
https://biorxiv.org/cgi/content/short/2021.01.29.428839v1?rss=1"
Stegmann, M.Zecua-Ramirez, P.Ludwig, C.Lee, H.-S.Peterson, B.Nimchuk, Z. L.Belkhadir, Y.Hueckelhoven, R.2021-01-30doi:10.1101/2021.01.29.428839Cold Spring Harbor Laboratory Press2021-01-30
<![CDATA[
Crosstalk between H2A variant-specific modifications impacts vital cell functions
]]>
https://biorxiv.org/cgi/content/short/2021.01.14.426637v1?rss=1"
Schmuecker, A.Lei, B.Lorkovic, Z.Capella, M.Braun, S. J.Bourguet, P.Mathieu, O.Mechtler, K.Berger, F.2021-01-15doi:10.1101/2021.01.14.426637Cold Spring Harbor Laboratory Press2021-01-15
<![CDATA[
Metabolic flux partitioning between the TCA cycle and glyoxylate shunt combined with a reversible methyl citrate cycle provide nutritional flexibility for Mycobacterium tuberculosis
]]>
https://biorxiv.org/cgi/content/short/2021.01.29.428863v1?rss=1"
Borah, K.Mendum, T. A.Hawkins, N.Ward, J.Beale, M.Larrouy-Maumus, G.Bhatt, A.Pichler, H.MOULIN, M.Haertlein, M.Forsyth, T.Noack, S.Goulding, C.McFadden, J.Beste, D. J.2021-01-31doi:10.1101/2021.01.29.428863Cold Spring Harbor Laboratory Press2021-01-31
<![CDATA[
Comparative proteome signatures of ultra-low input samples by TMT multiplexed Data-Independent Acquisition
]]>
https://biorxiv.org/cgi/content/short/2021.02.11.430601v1?rss=1"
Ctortecka, C.Krssakova, G.Stejskal, K.Penninger, J.Mendjan, S.Mechtler, K.Stadlmann, J.2021-02-11doi:10.1101/2021.02.11.430601Cold Spring Harbor Laboratory Press2021-02-11
<![CDATA[
Ultra-sensitive nanoLC-MS using second generation micro pillar array LC technology with Orbitrap Exploris 480 and FAIMS PRO to enable single cell proteomics
]]>
https://biorxiv.org/cgi/content/short/2021.02.10.430648v1?rss=1"
Stejskal, K.Op de Beeck, J.Düernberger, G.Jacobs, P. O.Mechtler, K.2021-02-11doi:10.1101/2021.02.10.430648Cold Spring Harbor Laboratory Press2021-02-11
<![CDATA[
Genomic evidence that governmentally produced Cannabis sativa poorly represents genetic variation available in state markets
]]>
https://biorxiv.org/cgi/content/short/2021.02.13.431041v1?rss=1"
Vergara, D.Huscher, E. L.Keepers, K. G.Pisupati, R.Schwabe, A. L.McGlaughlin, M. E.Kane, N. C.2021-02-14doi:10.1101/2021.02.13.431041Cold Spring Harbor Laboratory Press2021-02-14
<![CDATA[
Extensive N4 cytosine methylation is essential for Marchantia sperm function
]]>
https://biorxiv.org/cgi/content/short/2021.02.12.428880v1?rss=1"
Walker, J.Zhang, J.Liu, Y.Vickers, M.Dolan, L.Nakajima, K.Feng, X.2021-02-12doi:10.1101/2021.02.12.428880Cold Spring Harbor Laboratory Press2021-02-12
<![CDATA[
A genetic program boosts mitochondrial function to power macrophage tissue invasion
]]>
https://biorxiv.org/cgi/content/short/2021.02.18.431643v1?rss=1"
Emtenani, S.Martin, E. T.Gyoergy, A.Bicher, J.Wendelin-Genger, J.Koecher, T.Hurd, T.Bergthaler, A.Rangan, P.Siekhaus, D. E.2021-02-18doi:10.1101/2021.02.18.431643Cold Spring Harbor Laboratory Press2021-02-18
<![CDATA[
Differentially accessible Cdc4 phospho-degrons regulate Ctf19CCAN kinetochore subunit stability in mitosis
]]>
https://biorxiv.org/cgi/content/short/2021.02.12.430993v1?rss=1"
Westermann, S.Böhm, M.Killinger, K.Dudziak, A.Pant, P.Jänen, K.Hohoff, S.Mechtler, K.Örd, M.Loog, M.Sanchez-Garcia, E.2021-02-16doi:10.1101/2021.02.12.430993Cold Spring Harbor Laboratory Press2021-02-16
<![CDATA[
REPROGRAMMING CBX8-PRC1 FUNCTION WITH A POSITIVE ALLOSTERIC MODULATOR
]]>
https://biorxiv.org/cgi/content/short/2021.02.23.432388v1?rss=1"
Suh, J. L.Bsteh, D.Si, Y.Hart, B.Weaver, T. M.Pribitzer, C.Lau, R.Soni, S.Ogana, H.Rectenwald, J. M.Norris, J. L.Cholensky, S. H.Sagum, C.Umana, J. D.Li, D.Hardy, B.Bedford, M. T.Mumenthaler, S. M.Lenz, H.-J.Kim, Y.-m.Wang, G. G.Pearce, K. H.James, L.Kireev, D. B.Musselman, C. A.Frye, S. V.Bell, O.2021-02-23doi:10.1101/2021.02.23.432388Cold Spring Harbor Laboratory Press2021-02-23
<![CDATA[
Global genetic heterogeneity in adaptive traits
]]>
https://biorxiv.org/cgi/content/short/2021.02.26.433043v1?rss=1"
Lopez-Arboleda, W. A.Reinert, S.Nordborg, M.Korte, A.2021-02-26doi:10.1101/2021.02.26.433043Cold Spring Harbor Laboratory Press2021-02-26
<![CDATA[
Interferons Reshape the 3D Conformation and Accessibility of Macrophage Chromatin
]]>
https://biorxiv.org/cgi/content/short/2021.03.09.434568v1?rss=1"
Platanitis, E.Güner, S.Geetha, A. R. S. J.Boccuni, L.Vogt, A.Novatchkova, M.Sommer, A.Müller, M.Decker, T.2021-03-12doi:10.1101/2021.03.09.434568Cold Spring Harbor Laboratory Press2021-03-12
<![CDATA[
Cell-intrinsic functions of the transcription factor Bhlhe40 in activated B cells and T follicular helper cells restrain the germinal center reaction and prevent lymphomagenesis
]]>
https://biorxiv.org/cgi/content/short/2021.03.12.435122v1?rss=1"
Rauschmeier, R.Reinhardt, A.Gustafsson, C.Glaros, V.Artemov, A. V.Taneja, R.Mansson, R.Busslinger, M.Kreslavsky, T.2021-03-12doi:10.1101/2021.03.12.435122Cold Spring Harbor Laboratory Press2021-03-12
<![CDATA[
Community Evaluation of Glycoproteomics Informatics Solutions Reveals High-Performance Search Strategies of Glycopeptide Data
]]>
https://biorxiv.org/cgi/content/short/2021.03.14.435332v1?rss=1"
Kawahara, R.Alagesan, K.Bern, M.Cao, W.Chalkley, R. J.Cheng, K.Choo, M. S.Edwards, N.Goldman, R.Hoffmann, M.Hu, Y.Huang, Y.Kim, J. Y.Kletter, D.Liquet-Weiland, B.Liu, M.Mechref, Y.Meng, B.Neelamegham, S.Nguyen-Khuong, T.Nilsson, J.Pap, A.Park, G. W.Parker, B. L.Pegg, C. L.Penninger, J. M.Phung, T. K.Pioch, M.Rapp, E.Sakalli, E.Sanda, M.Shulz, B. L.Scott, N. E.Sofronov, G.Stadlmann, J.Vakhrushev, S. Y.Woo, C. M.Wu, H.-Y.Yang, P.Ying, W.Zhang, H.Zhang, Y.Zhao, J.Zaia, J.Haslam, S. M.Palmisano, G.Yoo, J. S2021-03-15doi:10.1101/2021.03.14.435332Cold Spring Harbor Laboratory Press2021-03-15
<![CDATA[
Bacterial-type plant ferroxidases tune local phosphate sensing in root development
]]>
https://biorxiv.org/cgi/content/short/2021.03.19.436157v1?rss=1"
Naumann, C.Heisters, M.Brandt, W.Janitza, P.Alfs, C.Tang, N.Nienguesso, A. T.Ziegler, J.Imre, R.Mechtler, K.Dagdas, Y.Hoehenwarter, W.Sawers, G.Quint, M.Abel, S.2021-03-21doi:10.1101/2021.03.19.436157Cold Spring Harbor Laboratory Press2021-03-21
<![CDATA[
The Arabidopsis F-box protein FBW2 degrades AGO1 to avoid spurious loading of illegitimate small RNA
]]>
https://biorxiv.org/cgi/content/short/2021.03.24.436811v1?rss=1"
Hacquard, T.Clavel, M.Baldrich, P.Lechner, E.Perez-Salamo, I.Schepetilnikov, M.Derrien, B.Dubois, M.Hammann, P.Kuhn, L.Brun, D.Bouteiller, N.Vaucheret, H.Meyers, B.Genschik, P.2021-03-24doi:10.1101/2021.03.24.436811Cold Spring Harbor Laboratory Press2021-03-24
<![CDATA[
Tissue-specific versus pleiotropic enhancers within the bric-a-brac tandem gene duplicates display differential regulatory activity and evolutionary conservation
]]>
https://biorxiv.org/cgi/content/short/2021.03.25.436949v1?rss=1"
BOURBON, H.-M. G.Benetah, M.Guillou, E.MOJICA VAZQUEZ, L. H.BAANANNOU, A.BERNAT - FABRE, S.LOUBIERES, V.BANTIGNIES, F.CAVALLI, G.BOUBE, M.2021-03-25doi:10.1101/2021.03.25.436949Cold Spring Harbor Laboratory Press2021-03-25
<![CDATA[
Identification of lectin receptors for conserved SARS-CoV-2 glycosylation sites
]]>
https://biorxiv.org/cgi/content/short/2021.04.01.438087v1?rss=1"
Hoffmann, D.Mereiter, S.Oh, Y. J.Monteil, V.Zhu, R.Canena, D.Hain, L.Laurent, E.Gruber, C.Novatchkova, M.Ticevic, M.Chabloz, A.Wirnsberger, G.Hagelkrueys, A.Altmann, F.Mach, L.Stadlmann, J.Oostenbrink, C.Mirazimi, A.Hinterdorfer, P.Penninger, J. M.2021-04-01doi:10.1101/2021.04.01.438087Cold Spring Harbor Laboratory Press2021-04-01
<![CDATA[
Extensive OMICS resource for Sf21 and Tni cell lines
]]>
https://biorxiv.org/cgi/content/short/2021.04.06.438574v1?rss=1"
Galik, B.Landry, J. J. M.Kirkpatrick, J. M.Fritz, M. H.-Y.Baying, B.Blake, J.Haase, B.Collier, P. G.Hercog, R.Pavlinic, D.Stolt-Bergner, P.Besir, H.Remans, K.Gyenesei, A.Benes, V.2021-04-06doi:10.1101/2021.04.06.438574Cold Spring Harbor Laboratory Press2021-04-06
<![CDATA[
An evidence-based 3D reconstruction of Asteroxylon mackiei the most complex plant preserved from the Rhynie chert
]]>
https://biorxiv.org/cgi/content/short/2021.04.11.439326v1?rss=1"
Hetherington, A. J.Bridson, S. L.Lee Jones, A.Hass, H.Kerp, H.Dolan, L.2021-04-11doi:10.1101/2021.04.11.439326Cold Spring Harbor Laboratory Press2021-04-11
<![CDATA[
A CENH3 mutation promotes meiotic exit and restores fertility in SMG7-deficient Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2021.04.08.439068v1?rss=1"
Capitao, C.Tanasa, S.Fulnecek, J.Raxwal, V. K.Akimcheva, S.Bulankova, P.Mikulkova, P.Lermontova, I.Mittelsten Scheid, O.Riha, K.2021-04-10doi:10.1101/2021.04.08.439068Cold Spring Harbor Laboratory Press2021-04-10
<![CDATA[
The ubiquitin ligase HOIL-1L regulates immune responses by interacting with linear ubiquitin chains
]]>
https://biorxiv.org/cgi/content/short/2021.04.13.439587v1?rss=1"
Gomez Diaz, C.Jonsson, G.Schodl, K.Deszcz, L.Bestehorn, A.Eislmayr, K.Almagro, J.Kavirayani, A.Fennell, L. M.Hagelkrueys, A.Kovarik, P.Penninger, J. M.Ikeda, F.2021-04-13doi:10.1101/2021.04.13.439587Cold Spring Harbor Laboratory Press2021-04-13
<![CDATA[
An automated workflow for label-free and multiplexed single cell proteomics sample preparation at unprecedented sensitivity.
]]>
https://biorxiv.org/cgi/content/short/2021.04.14.439828v1?rss=1"
Hartlmayr, D.Ctortecka, C.Seth, A.Mendjan, S.Tourniaire, G.Mechtler, K.2021-04-14doi:10.1101/2021.04.14.439828Cold Spring Harbor Laboratory Press2021-04-14
<![CDATA[
In vitro reconstitution of Sgk3 activation by phosphatidylinositol-3-phosphate
]]>
https://biorxiv.org/cgi/content/short/2021.04.13.439688v1?rss=1"
Pokorny, D.Truebestein, L.Fleming, K. D.Burke, J. E.Leonard, T. A.2021-04-13doi:10.1101/2021.04.13.439688Cold Spring Harbor Laboratory Press2021-04-13
<![CDATA[
Repression of CHROMOMETHYLASE 3 Prevents Epigenetic Collateral Damage in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2021.04.14.439682v1?rss=1"
Papareddy, R. K.Paldi, K.Smolka, A. D.Hüther, P.Becker, C.Nodine, M. D.2021-04-14doi:10.1101/2021.04.14.439682Cold Spring Harbor Laboratory Press2021-04-14
<![CDATA[
Sperm membrane proteins DCST1 and DCST2 are required for the sperm-egg fusion process in mice and fish
]]>
https://biorxiv.org/cgi/content/short/2021.04.18.440256v1?rss=1"
Noda, T.Blaha, A.Fujihara, Y.Gert, K. R.Emori, C.Deneke, V. E.Oura, S.Berent, S.Kodani, M.Panser, K.Cabrera-Quio, L. E.Pauli, A.Ikawa, M.2021-04-18doi:10.1101/2021.04.18.440256Cold Spring Harbor Laboratory Press2021-04-18
<![CDATA[
Two light sensors decode moonlight versus sunlight to adjust a plastic circadian/circalunidian clock to moon phase
]]>
https://biorxiv.org/cgi/content/short/2021.04.16.440114v1?rss=1"
24h (no moon) periodicity. Abundance, light sensitivity, and genetic requirement indicate Platynereis r-Opsin1 as receptor to determine moonrise, while the cryptochrome L-Cry is required to discriminate between moon- and sunlight valence. Comparative experiments in Drosophila suggest that Cryptochromes requirement for light valence interpretation is conserved. Its exact biochemical properties differ, however, between species with dissimilar timing ecology.
Our work advances the molecular understanding of lunar impact on fundamental rhythmic processes, including those of marine mass spawners endangered by anthropogenic change.
]]>Zurl, M.Poehn, B.Rieger, D.Krishnan, S.Rokvic, D.Rajan, V. B. V.Gerrard, E.Schlichting, M.Orel, L.Lucas, R. J.Wolf, E.Helfrich-Foerster, C.Raible, F.Tessmar-Raible, K.2021-04-18doi:10.1101/2021.04.16.440114Cold Spring Harbor Laboratory Press2021-04-18
<![CDATA[
A Cryptochrome adopts distinct moon- and sunlight states and functions as moonlight interpreter in monthly oscillator entrainment
]]>
https://biorxiv.org/cgi/content/short/2021.04.16.439809v1?rss=1"
Poehn, B.Krishnan, S.Zurl, M.Coric, A.Rokvic, D.Arboleda, E.Orel, L.Raible, F.Wolf, E.Tessmar-Raible, K.2021-04-18doi:10.1101/2021.04.16.439809Cold Spring Harbor Laboratory Press2021-04-18
<![CDATA[
Principles of mRNA targeting and regulation via the Arabidopsis m6A-binding proteins ECT2 and ECT3
]]>
https://biorxiv.org/cgi/content/short/2021.04.18.440342v1?rss=1"
Brodersen, P.Arribas-Hernandez, L.Rennie, S.Staiger, D.Koester, T.Schon, M.Lewinski, M.Porcelli, C.Andersson, R.Nodine, M. D.Enugutti, B.2021-04-18doi:10.1101/2021.04.18.440342Cold Spring Harbor Laboratory Press2021-04-18
<![CDATA[
The receptor kinase SRF3 coordinates iron-level and flagellin dependent defense and growth responses in plants
]]>
https://biorxiv.org/cgi/content/short/2021.04.26.441470v1?rss=1"
Platre, M. P.Satbhai, S.Brent, L.Gleason, M. F.Grison, M.Zhang, L.Glavier, M.Cao, M.Gaillochet, C.Goeschl, C.Giovanetti, M.Enugutti, B.von Reth, M.Alcazar, R.Parker, J. E.Vert, G.Bayer, E. E.Busch, W.2021-04-26doi:10.1101/2021.04.26.441470Cold Spring Harbor Laboratory Press2021-04-26
<![CDATA[
NMR structures and functional roles of two related chitin-binding domains of a lytic polysaccharide monooxygenase from Cellvibrio japonicus
]]>
https://biorxiv.org/cgi/content/short/2021.04.25.441307v1?rss=1"
Madland, E.Forsberg, Z.Wang, Y.Lindorff-Larsen, K.Niebisch, A.Modregger, J.Eijsink, V. G. H.Aachmann, F. L.Courtade, G.2021-04-26doi:10.1101/2021.04.25.441307Cold Spring Harbor Laboratory Press2021-04-26
<![CDATA[
The sperm protein SPACA4 is required for efficient fertilization in mice
]]>
https://biorxiv.org/cgi/content/short/2021.05.02.442348v1?rss=1"
Herberg, S.Fujihara, Y.Blaha, A.Panser, K.Kobayashi, K.Larasati, T.Novatchkova, M.Theussl, C. H.Olszanska, O.Ikawa, M.Pauli, A.2021-05-02doi:10.1101/2021.05.02.442348Cold Spring Harbor Laboratory Press2021-05-02
<![CDATA[
E3 ubiquitin ligase RNF213 employs a non-canonical zinc finger active site and is allosterically regulated by ATP
]]>
https://biorxiv.org/cgi/content/short/2021.05.10.443411v1?rss=1"
Ahel, J.Fletcher, A. J.Grabarczyk, D. B.Roitinger, E.Deszcz, L.Lehner, A.Virdee, S.Clausen, T.2021-05-10doi:10.1101/2021.05.10.443411Cold Spring Harbor Laboratory Press2021-05-10
<![CDATA[
SCON - A Short Conditional intrON for conditional knockout with one-step zygote injection
]]>
https://biorxiv.org/cgi/content/short/2021.05.09.443220v1?rss=1"
Wu, S.-H. S.Szep-Bakonyi, R.Lee, H.Colozza, G.Boese, A.Gert, K. R.Hallay, N.Kim, J.Zhu, Y.Pilat-Carotta, S.Theussl, H.-C.Pauli, A.Koo, B.-K.2021-05-10doi:10.1101/2021.05.09.443220Cold Spring Harbor Laboratory Press2021-05-10
<![CDATA[
A quantitative map of nuclear pore assembly reveals two distinct mechanisms
]]>
https://biorxiv.org/cgi/content/short/2021.05.17.444137v1?rss=1"
Otsuka, S.Tempkin, J. O. B.Politi, A. Z.Rybina, A.Hossain, M. J.Kueblbeck, M.Callegari, A.Koch, B.Sali, A.Ellenberg, J.2021-05-18doi:10.1101/2021.05.17.444137Cold Spring Harbor Laboratory Press2021-05-18
<![CDATA[
A RIF1 and KAP1-based, double-bookmarking system generates a toggle switch that stabilises the identities of the active and inactive X chromosomes during random X inactivation in mouse
]]>
https://biorxiv.org/cgi/content/short/2020.06.04.133512v1?rss=1"
Enervald, E.Foti, R.Powell, L. M.Piszczek, A.Buonomo, S.2020-06-04doi:10.1101/2020.06.04.133512Cold Spring Harbor Laboratory Press2020-06-04
<![CDATA[
Microtubules Promote the Non-cell Autonomy of MicroRNAs by Inhibiting their Cytoplasmic Loading into ARGONAUTE1 in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2021.05.26.445899v1?rss=1"
Fan, L.Zhang, C.Zhang, Y.Stewart, E.Jez, J.Nakajima, K.Chen, X.2021-05-27doi:10.1101/2021.05.26.445899Cold Spring Harbor Laboratory Press2021-05-27
<![CDATA[
DNA replication timing directly regulates the frequency of oncogenic chromosomal translocations
]]>
https://biorxiv.org/cgi/content/short/2021.05.29.446276v1?rss=1"
Peycheva, M.Neumann, T.Malzl, D.Nazarova, M.Schoeberl, U.Pavri, R.2021-05-29doi:10.1101/2021.05.29.446276Cold Spring Harbor Laboratory Press2021-05-29
<![CDATA[
Cell-autonomous generation of the wave pattern within the vertebrate segmentation clock
]]>
https://biorxiv.org/cgi/content/short/2021.05.29.446196v1?rss=1"
Rohde, L. A.Bercowsky-Rama, A.Negrete, J.Valentin, G.Naganathan, S. R.Desai, R. A.Strnad, P.Soroldoni, D.Julicher, F.Oates, A. C.2021-05-30doi:10.1101/2021.05.29.446196Cold Spring Harbor Laboratory Press2021-05-30
<![CDATA[
BacPROTACs mediate targeted protein degradation in bacteria
]]>
https://biorxiv.org/cgi/content/short/2021.06.09.447781v1?rss=1"
Morreale, F. E.Kleine, S.Leodolter, J.Ovchinnikov, S.Kley, J.Kurzbauer, R.Hoi, D. M.Meinhart, A.Hartl, M.Haselbach, D.Kaiser, M.Clausen, T.2021-06-10doi:10.1101/2021.06.09.447781Cold Spring Harbor Laboratory Press2021-06-10
<![CDATA[
Functional diversification gave rise to allelic specialization in a rice NLR immune receptor pair
]]>
https://biorxiv.org/cgi/content/short/2021.06.25.449940v1?rss=1"
De la Concepcion, J. C.Benjumea, J. V.Bialas, A.Terauchi, R.Kamoun, S.Banfield, M. J.2021-06-25doi:10.1101/2021.06.25.449940Cold Spring Harbor Laboratory Press2021-06-25
<![CDATA[
Innate, translation-dependent silencing of an invasive transposon in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2021.06.29.450179v1?rss=1"
Oberlin, S.Rajeswaran, R.Trasser, M.Barragan-Borrero, V.Schon, M. A.Plotnikova, A.Loncsek, L.Nodine, M. D.Mari-Ordonez, A.Voinnet, O.2021-06-29doi:10.1101/2021.06.29.450179Cold Spring Harbor Laboratory Press2021-06-29
<![CDATA[
ZFP462 targets heterochromatin to transposon-derived enhancers restricting transcription factor binding and expression of lineage-specifying genes
]]>
https://biorxiv.org/cgi/content/short/2021.06.28.449463v1?rss=1"
Yelagandula, R.Stecher, K.Novatchkova, M.Michetti, L.Michlits, G.Wang, J.Hofbauer, P.Pribitzer, C.Vainorius, G.Isbel, L.Mendjan, S.Schubeler, D.Elling, U.Brennecke, J.Bell, O.2021-06-28doi:10.1101/2021.06.28.449463Cold Spring Harbor Laboratory Press2021-06-28
<![CDATA[
A genetic toolkit for studying transposon control in the Drosophila melanogaster ovary
]]>
https://biorxiv.org/cgi/content/short/2021.06.29.450424v1?rss=1"
Brennecke, J.ElMaghraby, M. F.Laszlo, T.Senti, K. A.Meixner, K.2021-07-01doi:10.1101/2021.06.29.450424Cold Spring Harbor Laboratory Press2021-07-01
<![CDATA[
A chromatin phase transition protects mitotic chromosomes against microtubule perforation
]]>
https://biorxiv.org/cgi/content/short/2021.07.05.450834v1?rss=1"
Schneider, M. W. G.Gibson, B. A.Otsuka, S.Spicer, M. F. D.Petrovic, M.Blaukopf, C.Langer, C. C. H.Doolittle, L. K.Rosen, M. K.Gerlich, D. W.2021-07-05doi:10.1101/2021.07.05.450834Cold Spring Harbor Laboratory Press2021-07-05
<![CDATA[
Molecular architecture of the human tRNA ligase complex
]]>
https://biorxiv.org/cgi/content/short/2021.07.11.451954v1?rss=1"
Kroupova, A.Ackle, F.Boneberg, F. M.Chui, A.Weitzer, S.Faini, M.Leitner, A.Aebersold, R.Martinez, J.Jinek, M.2021-07-12doi:10.1101/2021.07.11.451954Cold Spring Harbor Laboratory Press2021-07-12
<![CDATA[
SMC complexes can traverse physical roadblocks bigger than their ring size
]]>
https://biorxiv.org/cgi/content/short/2021.07.15.452501v1?rss=1"
Pradhan, B.Barth, R.Kim, E.Davidson, I. F.Bauer, B.van Laar, T.Yang, W.Ryu, J.-K.van der Torre, J.Peters, J.-M.Dekker, C.2021-07-16doi:10.1101/2021.07.15.452501Cold Spring Harbor Laboratory Press2021-07-16
<![CDATA[
Chromosome-level Thlaspi arvense genome provides new tools for translational research and for a newly domesticated cash cover crop of the cooler climates
]]>
https://biorxiv.org/cgi/content/short/2021.07.30.454478v1?rss=1"
Nunn, A.Rodriguez-Arevalo, I.Tandukar, Z.Frels, K.Contreras-Garrido, A.Carbonell-Bejerano, P.Zhang, P.Ramos-Cruz, D.Jandrasits, K.Lanz, C.Brusa, A.Mirouze, M.Dorn, K.Jarvis, B.Sedbrook, J.Wyse, D. L.Otto, C.Langenberger, D.Stadler, P. F.Weigel, D.Marks, D.Anderson, J. A.Becker, C.Chopra, R.2021-08-01doi:10.1101/2021.07.30.454478Cold Spring Harbor Laboratory Press2021-08-01
<![CDATA[
A SUMO-dependent regulatory switch connects the piRNA pathway to the heterochromatin machinery in Drosophila
]]>
https://biorxiv.org/cgi/content/short/2021.07.27.453956v1?rss=1"
Andreev, V. I.Yu, C.Wang, J.Schnabl, J.Tirian, L.Gehre, M.Handler, D.Duchek, P.Novatchkova, M.Baumgartner, L.Meixner, K.Sienski, G.Patel, D. J.Brennecke, J.2021-07-27doi:10.1101/2021.07.27.453956Cold Spring Harbor Laboratory Press2021-07-27
<![CDATA[
The CHK-2 antagonizing phosphatase PPM-1.D regulates meiotic entry via catalytic and non-catalytic activities
]]>
https://biorxiv.org/cgi/content/short/2021.08.02.453806v1?rss=1"
Baudrimont, A.Paouneskou, D.Mohammad, A.Lichtenberger, R.Blundon, J.Kim, Y.Hartl, M.Falk, S.Schedl, T.Jantsch, V.2021-08-02doi:10.1101/2021.08.02.453806Cold Spring Harbor Laboratory Press2021-08-02
<![CDATA[
The Arabidopsis m6A-binding proteins ECT2 and ECT3 bind largely overlapping mRNA target sets and influence target mRNA abundance, not alternative polyadenylation
]]>
https://biorxiv.org/cgi/content/short/2021.08.01.454660v1?rss=1"
Brodersen, P.Arribas-Hernandez, L.Rennie, S.Schon, M.Porcelli, C.Enugutti, B.Andersson, R.Nodine, M. D.2021-08-03doi:10.1101/2021.08.01.454660Cold Spring Harbor Laboratory Press2021-08-03
<![CDATA[
Topological morphogenesis of neuroepithelial organoids
]]>
https://biorxiv.org/cgi/content/short/2021.08.08.455385v1?rss=1"
Ishihara, K.Mukherjee, A.Gromberg, E.Brugues, J.Tanaka, E.Julicher, F.2021-08-08doi:10.1101/2021.08.08.455385Cold Spring Harbor Laboratory Press2021-08-08
<![CDATA[
ACE2 is the critical in vivo receptor for SARS-CoV-2 in a novel COVID-19 mouse model with TNF- and IFNγ-driven immunopathology
]]>
https://biorxiv.org/cgi/content/short/2021.08.09.455606v1?rss=1"
Gawish, R.Starkl, P.Pimenov, L.Hladik, A.Lakovits, K.Oberndorfer, F.Cronin, S. J. F.Ohradanova-Repic, A.Wirnsberger, G.Agerer, B.Endler, L.Capraz, T.Perthold, J. W.Hagelkruys, A.Montserrat, N.Mirazimi, A.Boon, L.Stockinger, H.Bergthaler, A.Oostenbrink, C.Penninger, J. M.Knapp, S.2021-08-09doi:10.1101/2021.08.09.455606Cold Spring Harbor Laboratory Press2021-08-09
<![CDATA[
A diabetic milieu increases cellular susceptibility to SARS-CoV-2 infections in engineered human kidney organoids and diabetic patients
]]>
https://biorxiv.org/cgi/content/short/2021.08.13.456228v1?rss=1"
Garreta, E.Prado, P.Stanifer, M. L.Monteil, V.Hurtado del Pozo, C.Ullate-Agote, A.Vilas-Zornoza, A.Romero, J. P.Jonsson, G.Oria, R.Leopoldi, A.Hagelkrueys, A.Moya-Rull, D.Gonzalez, F.Marco, A.Tarantino, C.Domingo-Pedrol, P.HasanAli, O.Ventura-Aguiar, P.Campistol, J. M.Prosper, F.Mirazimi, A.Boulant, S.Penninger, J.Montserrat, N.2021-08-13doi:10.1101/2021.08.13.456228Cold Spring Harbor Laboratory Press2021-08-13
<![CDATA[
A quantitative mapping approach to identify direct interactions within complexomes
]]>
https://biorxiv.org/cgi/content/short/2021.08.25.457734v1?rss=1"
View larger version (25K):
org.highwire.dtl.DTLVardef@1cc7cf1org.highwire.dtl.DTLVardef@1eed9borg.highwire.dtl.DTLVardef@8197b2org.highwire.dtl.DTLVardef@e5cb8_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Trepte, P.Secker, C.Choi, S. G.Olivet, J.Ramos, E. S.Cassonnet, P.Golusik, S.Zenkner, M.Beetz, S.Sperling, M.Wang, Y.Hao, T.Spirohn, K.Twizere, J.-C.Calderwood, M. A.Hill, D. E.Jacob, Y.Vidal, M.Wanker, E. E.2021-08-26doi:10.1101/2021.08.25.457734Cold Spring Harbor Laboratory Press2021-08-26
<![CDATA[
Structure-guided glyco-engineering of ACE2 for improved potency as soluble SARS-CoV-2 decoy receptor
]]>
https://biorxiv.org/cgi/content/short/2021.08.31.458325v1?rss=1"
Capraz, T.Kienzl, N. F.Laurent, E.Perthold, J. W.Foederl-Hoebenreich, E.Gruenwald-Gruber, C.Maresch, D.Monteil, V.Niederhoefer, J.Wirnsberger, G.Mirazimi, A.Zatloukal, K.Mach, L.Penninger, J. M.Oostenbrink, C.Stadlmann, J.2021-08-31doi:10.1101/2021.08.31.458325Cold Spring Harbor Laboratory Press2021-08-31
<![CDATA[
A high resolution single molecule sequencing-based Arabidopsis transcriptome using novel methods of Iso-seq analysis
]]>
https://biorxiv.org/cgi/content/short/2021.09.02.458763v1?rss=1"
Zhang, R.Kuo, R.Coulter, M.Calixto, C. P. G.Entizne, J. C.Guo, W.Marquez, Y.Milne, L.Riegler, S.Matsui, A.Tanaka, M.Harvey, S.Yubang, G.Wiebner-Kroh, T.Crespi, M.Denby, K.Hur, A. b.Huq, E.Jantsch, M. F.Jarmolowski, A.Koester, T.Laubinger, S.Li, Q. Q.Gu, L.Seki, M.Staiger, D.Sunkar, R.Szweykowska-Kulinska, Z.Tu, S.-L.Wachter, A.Waugh, R.Xiong, L.Zhang, X.-N.Reddy, A. S. N.Barta, A.Kalyna, M.Brown, J. W.2021-09-03doi:10.1101/2021.09.02.458763Cold Spring Harbor Laboratory Press2021-09-03
<![CDATA[
Quantitative accuracy and precision in multiplexed single-cell proteomics.
]]>
https://biorxiv.org/cgi/content/short/2021.09.03.458853v1?rss=1"
100-times more abundant than the investigated samples, undoubtedly the total ion current increases, but quantitative accuracy possibly is affected. We here focus on narrowly titrated carrier spikes (i.e., <20x) and assess their elimination for comparable sensitivity at superior accuracy. We find that subtle changes in the carrier ratio can severely impact measurement variability and describe alternative multiplexing strategies to evaluate data quality. Lastly, we demonstrate elevated replicate overlap while preserving acquisition throughput at improved quantitative accuracy with DIA-TMT and discuss optimized experimental designs for multiplexed proteomics of trace samples. This comprehensive benchmarking gives an overview of currently available techniques and guides conceptualizing the optimal single-cell proteomics experiment.
]]>Ctortecka, C.Stejskal, K.Krssakova, G.Mendjan, S.Mechtler, K.2021-09-04doi:10.1101/2021.09.03.458853Cold Spring Harbor Laboratory Press2021-09-04
<![CDATA[
Intercellular crosstalk regulating ARRB2/RARRES1 is involved in transition from fibrosis to cancer
]]>
https://biorxiv.org/cgi/content/short/2021.09.08.458161v1?rss=1"
Schierwagen, R.Dietrich, P.Heinzen, J.Klein, S.Uschner, F. E.Ortiz, C.Tyc, O.Torres, S.Hieber, C.Kraus, N.Premont, R. T.Gruenewald, L. D.Poisson, J.Ratou, P.-E.Kristiansen, G.Gracia-Sancho, J.Poglitsch, M.Ludwig-Portugall, I.Walther, T.Trautwein, C.Abdullah, Z.Muench, C.Welsch, C.Fernandez, M.Zeuzem, S.Moreau, R.Helllerbrand, C.Rombouts, K.Kastenmueller, W.Diehl, A. M.Trebicka, J.2021-09-08doi:10.1101/2021.09.08.458161Cold Spring Harbor Laboratory Press2021-09-08
<![CDATA[
Clinical grade ACE2 as a universal agent to block SARS-CoV-2 variants
]]>
https://biorxiv.org/cgi/content/short/2021.09.10.459744v1?rss=1"
Wirnsberger, G.Monteil, V.Eaton, B.Postnikova, E.Murphy, M.Braunsfeld, B.Crozier, I.Kricek, F.Niederhoefer, J.Schwarzboeck, A.Breid, H.Sanchez Jimenez, A.Bugajska-Schretter, A.Dohnal, A.Ruf, C.Gugenberger, R.Hagelkrueys, A.Montserrat, N.Holbrook, M.Oostenbrink, C.Shoemaker, R. H.Mirazimi, A.Penninger, J. M.2021-09-10doi:10.1101/2021.09.10.459744Cold Spring Harbor Laboratory Press2021-09-10
<![CDATA[
FIBCD1 is a Conserved Receptor for Chondroitin Sulphate Proteoglycans of the Brain Extracellular Matrix and a Candidate Gene for a Complex Neurodevelopmental Disorder
]]>
https://biorxiv.org/cgi/content/short/2021.09.09.459581v1?rss=1"
Fell, C. W.Hagelkruys, A.Cicvaric, A.Horrer, M.Liu, L.Li, J. S. S.Stadlmann, J.Polyansky, A. A.Mereiter, S.Tejada, M. A.Kokotovic, T.Scaramuzza, A.Twyman, K.Morrow, M. M.Juusola, J.Yan, H.Wang, J.Burmeister, M.Andersen, T. L.Wirnsberger, G.Holmskov, U.Perrimon, N.Zagrovic, B.Monje, F. J.Moeller, J. B.Penninger, J. M.Nagy, V.2021-09-10doi:10.1101/2021.09.09.459581Cold Spring Harbor Laboratory Press2021-09-10
<![CDATA[
Development of a novel, pan-variant aerosol intervention for COVID-19
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https://biorxiv.org/cgi/content/short/2021.09.14.459961v1?rss=1"
Shoemaker, R. H.Panettieri, R. A.Libutti, S. K.Hochster, H. S.Watts, N. R.Wingfield, P. T.Starkl, P. M.Pimenov, L.Gawish, R.Hladik, A.Knapp, S.Boring, D.White, J. M.Lawrence, Q.Boone, J.Marshall, J. D.Matthews, R. L.Cholewa, B. D.Richig, J. W.Chen, B. T.McCormick, D. L.Gugensberger, R.Holler, S.Penninger, J. M.Wirnsberger, G.2021-09-14doi:10.1101/2021.09.14.459961Cold Spring Harbor Laboratory Press2021-09-14
<![CDATA[
Extracellular vesicles from therapeutic grade allogeneic human placental stromal cells induce angiogenesis and modulate immunity
]]>
https://biorxiv.org/cgi/content/short/808808v1?rss=1"
Wolf, m.Vari, B.Bloechl, C.Raninger, A. M.Poupardin, R.Beez, C. M.Hoog, A.Brachtl, G.Eminger, E.Binder, H. M.Oeller, M.Spittler, A.Heuser, T.Obermayer, A.Seifert, M.Huber, C. G.Schallmoser, K.Volk, H. D.Strunk, D.2019-10-17doi:10.1101/808808Cold Spring Harbor Laboratory Press2019-10-17
<![CDATA[
Tig1 regulates proximo-distal identity during salamander limb regeneration
]]>
https://biorxiv.org/cgi/content/short/2021.02.03.428234v1?rss=1"
Oliveira, C. R.Knapp, D.Elewa, A.Gonzalez Malagon, S. G.Gates, P. B.Petzold, A.Arce, H.Cordoba, R.Chara, O.Tanaka, E. M.Simon, A.Yun, M.2021-02-04doi:10.1101/2021.02.03.428234Cold Spring Harbor Laboratory Press2021-02-04
<![CDATA[
A NET4-RabG3 couple mediate the link between actin and the tonoplast and is essential for normal actin cytoskeletal remodelling in stomatal closure to flg22
]]>
https://biorxiv.org/cgi/content/short/2021.09.29.461190v1?rss=1"
HAWKINS, T. J.Kopischke, M.Mentlak, D.Duckney, P.Kroon, J.Bui, M. T.Richardson, C.Casey, M.Alexander, A.De Jaeger, G.Kalde, M.Moore, I.Dagdas, Y.Hussey, P. J.Robatzek, S.2021-09-30doi:10.1101/2021.09.29.461190Cold Spring Harbor Laboratory Press2021-09-30
<![CDATA[
Regressive evolution of an effector following a host jump in the Irish Potato Famine Pathogen Lineage
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https://biorxiv.org/cgi/content/short/2021.10.04.463104v1?rss=1"
Zess, E. K.Dagdas, Y. F.Peers, E.Maqbool, A.Banfield, M. J.Bozkurt, T. O.Kamoun, S.2021-10-05doi:10.1101/2021.10.04.463104Cold Spring Harbor Laboratory Press2021-10-05
<![CDATA[
Neutral competition within a long-lived population of symmetrically dividing cells shapes the clonal composition of cerebral organoids
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https://biorxiv.org/cgi/content/short/2021.10.06.463206v1?rss=1"
Pflug, F. G.Haendeler, S.Esk, C.Lindenhofer, D.Knoblich, J. A.von Haeseler, A.2021-10-06doi:10.1101/2021.10.06.463206Cold Spring Harbor Laboratory Press2021-10-06
<![CDATA[
DeepSTARR predicts enhancer activity from DNA sequence and enables the de novo design of enhancers
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https://biorxiv.org/cgi/content/short/2021.10.05.463203v1?rss=1"
de Almeida, B. P.Reiter, F.Pagani, M.Stark, A.2021-10-07doi:10.1101/2021.10.05.463203Cold Spring Harbor Laboratory Press2021-10-07
<![CDATA[
Activation of the essential kinase PDK1 by phosphoinositide-driven autophosphorylation
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https://biorxiv.org/cgi/content/short/2021.10.08.463254v1?rss=1"
Levina, A.Fleming, K. D.Burke, J. E.Leonard, T. A.2021-10-08doi:10.1101/2021.10.08.463254Cold Spring Harbor Laboratory Press2021-10-08
<![CDATA[
Limited specificity of molecular interactions incurs an environment-dependent fitness cost in bacteria
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https://biorxiv.org/cgi/content/short/2021.10.20.465141v1?rss=1"
Igler, C.Fourcade, C.Waldminghaus, T.Pauler, F.Santhanam, B.Tkacik, G.Guet, C. C.2021-10-20doi:10.1101/2021.10.20.465141Cold Spring Harbor Laboratory Press2021-10-20
<![CDATA[
Mimicked synthetic ribosomal protein complex for benchmarking cross-linking mass spectrometry workflows
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https://biorxiv.org/cgi/content/short/2021.10.21.465295v1?rss=1"
View larger version (30K):
org.highwire.dtl.DTLVardef@146c751org.highwire.dtl.DTLVardef@1c7a6e1org.highwire.dtl.DTLVardef@9d2ee7org.highwire.dtl.DTLVardef@1725693_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Matzinger, M.Vasiu, A. D.Madalinski, M.Stanek, F.Mechtler, K.2021-10-22doi:10.1101/2021.10.21.465295Cold Spring Harbor Laboratory Press2021-10-22
<![CDATA[
A molecular network of conserved factors keeps ribosomes dormant in the egg
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https://biorxiv.org/cgi/content/short/2021.11.03.467131v1?rss=1"
Leesch, K. F.Lorenzo-Orts, L.Pribitzer, C.Grishkovskaya, I.Matzinger, M.Roitinger, E.Belacic, K.Kandolf, S.Lin, T.-Y.Mechtler, K.Meinhart, A.Haselbach, D.Pauli, A.2021-11-03doi:10.1101/2021.11.03.467131Cold Spring Harbor Laboratory Press2021-11-03
<![CDATA[
Parental environmental effects are common and strong, but unpredictable, in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2021.11.04.467350v1?rss=1"
Latzel, V.Fischer, M.Groot, M.Gutzat, R.Lampei, C.Ouborg, J.Parepa, M.Schmid, K. J.Vergeer, P.Zhang, Y.Bossdorf, O.2021-11-04doi:10.1101/2021.11.04.467350Cold Spring Harbor Laboratory Press2021-11-04
<![CDATA[
Reciprocal zebrafish-medaka hybrids reveal maternal control of zygotic genome activation timing
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https://biorxiv.org/cgi/content/short/2021.11.03.467109v1?rss=1"
Gert, K. R.Cabrera Quio, L. E.Novatchkova, M.Guo, Y.Cairns, B. R.Pauli, A.2021-11-04doi:10.1101/2021.11.03.467109Cold Spring Harbor Laboratory Press2021-11-04
<![CDATA[
Maternally-inherited anti-sense piRNAs antagonize transposon expression in teleost embryos
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https://biorxiv.org/cgi/content/short/2021.11.03.467172v1?rss=1"
Guo, Y.Gert, K. R.Lebedeva, S.Potok, M. E.Wike, C. L.Grow, E. J.Ketting, R. F.Pauli, A.Cairns, B.2021-11-04doi:10.1101/2021.11.03.467172Cold Spring Harbor Laboratory Press2021-11-04
<![CDATA[
Extensive gene duplication in Arabidopsis revealed by pseudo-heterozygosity
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https://biorxiv.org/cgi/content/short/2021.11.15.468652v1?rss=1"
Jaegle, B.Soto-Jimenez, L. M.Burns, R.Rabanal, F. A.Nordborg, M.2021-11-16doi:10.1101/2021.11.15.468652Cold Spring Harbor Laboratory Press2021-11-16
<![CDATA[
Pre- and post-mating reproductive isolation evolve independently during rapid adaptation to high temperature
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https://biorxiv.org/cgi/content/short/2021.11.08.467720v1?rss=1"
Hsu, S.-K.Lai, W.-Y.Novak, J.Lehner, F.Jaksic, A. M.Versace, E.Schlötterer, C.2021-11-10doi:10.1101/2021.11.08.467720Cold Spring Harbor Laboratory Press2021-11-10
<![CDATA[
Genome assembly of the Australian black tiger shrimp (Penaeus monodon) reveals a fragmented IHHNV EVE sequence
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https://biorxiv.org/cgi/content/short/2021.11.11.468259v1?rss=1"
Huerlimann, R.Cowley, J. A.Wade, N. M.Wang, Y.Kasinadhuni, N.Chan, C.-K. K.Jabbari, J.Siemering, K.Gordon, L.Tinning, M.Montenegro, J. D.Maes, G. E.Sellars, M. J.Coman, G. J.McWilliam, S.Zenger, K. R.Khatkar, M. S.Raadsma, H. W.Donovan, D.Krishna, G.Jerry, D.2021-11-12doi:10.1101/2021.11.11.468259Cold Spring Harbor Laboratory Press2021-11-12
<![CDATA[
The sperm protein Spaca6 is essential for fertilization in zebrafish
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https://biorxiv.org/cgi/content/short/2021.11.19.469324v1?rss=1"
Binner, M. I.Kogan, A.Panser, K.Schleiffer, A.Deneke, V. E.Pauli, A.2021-11-19doi:10.1101/2021.11.19.469324Cold Spring Harbor Laboratory Press2021-11-19
<![CDATA[
In Diverse Conditions Intrinsic Chromatin Condensates Have Liquid-like Material Properties
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https://biorxiv.org/cgi/content/short/2021.11.22.469620v1?rss=1"
Gibson, B. A.Blaukopf, C.Lou, T.Doolittle, L. K.Finkelstein, I. J.Narlikar, G.Gerlich, D. W.Rosen, M. K.2021-11-22doi:10.1101/2021.11.22.469620Cold Spring Harbor Laboratory Press2021-11-22
<![CDATA[
amica: an interactive and user-friendly web-platform for the analysis of proteomics data
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https://biorxiv.org/cgi/content/short/2021.11.23.466958v1?rss=1"
Didusch, S.Madern, M.Hartl, M.Baccarini, M.2021-11-23doi:10.1101/2021.11.23.466958Cold Spring Harbor Laboratory Press2021-11-23
<![CDATA[
The ADAR1 editome reveals drivers of editing-specificity for ADAR1-isoforms
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https://biorxiv.org/cgi/content/short/2021.11.24.469911v1?rss=1"
Kleinova, R.Leuchtenberger, A. F.Lo Giudice, C.Tanzer, A.Derdak, S.Picardi, E.Jantsch, M. F.2021-11-24doi:10.1101/2021.11.24.469911Cold Spring Harbor Laboratory Press2021-11-24
<![CDATA[
Analysis of 8000 proteins and reduced carry over significantly increase the throughput of single-shot proteomics
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https://biorxiv.org/cgi/content/short/2021.11.28.470272v1?rss=1"
Stejskal, K.Op de Beeck, J.Matzinger, M.Duernberger, G.Boychenko, O.Jacobs, P.Mechtler, K.2021-11-28doi:10.1101/2021.11.28.470272Cold Spring Harbor Laboratory Press2021-11-28
<![CDATA[
The HUSH complex controls brain architecture and protocadherin fidelity
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https://biorxiv.org/cgi/content/short/2021.11.29.466909v1?rss=1"
Hagelkruys, A.Horrer, M.Taubenschmid-Stowers, J.Kavirayani, A.Novatchkova, M.Orthofer, M.Pai, T.-P.Cikes, D.Zhuk, S.Balmana, M.Esk, C.Koglgruber, R.Cronin, S. J.Elling, U.Knoblich, J. A.Penninger, J. M.2021-11-30doi:10.1101/2021.11.29.466909Cold Spring Harbor Laboratory Press2021-11-30
<![CDATA[
Stem cell specific interferon stimulated gene expression is regulated by the formative pluripotency network through IRF1
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https://biorxiv.org/cgi/content/short/2021.12.07.471598v1?rss=1"
Romeike, M.Spach, S.Huber, M.Feng, S.Vainorius, G.Elling, U.Buecker, C.2021-12-07doi:10.1101/2021.12.07.471598Cold Spring Harbor Laboratory Press2021-12-07
<![CDATA[
Standing genetic variation fuels rapid evolution of herbicide resistance in blackgrass
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https://biorxiv.org/cgi/content/short/2021.12.14.472587v1?rss=1"
Kersten, S.Chang, J.Huber, C. D.Voichek, Y.Lanz, C.Hagmaier, T.Lang, P.Lutz, U.Hirschberg, I.Lerchl, J.Porri, A.Van de Peer, Y.Schmid, K.Weigel, D.Rabanal, F. A.2021-12-16doi:10.1101/2021.12.14.472587Cold Spring Harbor Laboratory Press2021-12-16
<![CDATA[
Release of Notch activity coordinated by IL-1β signalling confers differentiation plasticity of airway progenitors via Fosl2 during alveolar regeneration
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https://biorxiv.org/cgi/content/short/2021.06.19.449004v1?rss=1"
Choi, J.Jang, Y. J.Dabrowska, C.Iich, E.Evans, K.Hall, H.Janes, S. M.Simons, B. D.Koo, B.-K.Kim, J.Lee, J.-H.2021-06-19doi:10.1101/2021.06.19.449004Cold Spring Harbor Laboratory Press2021-06-19
<![CDATA[
Loss of Cohesin regulator PDS5A reveals repressive role of Polycomb loops
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https://biorxiv.org/cgi/content/short/2021.12.15.472841v1?rss=1"
Bsteh, D.Moussa, H. F.Michlits, G.Yelagandula, R.Wang, J.Elling, U.Bell, O.2021-12-16doi:10.1101/2021.12.15.472841Cold Spring Harbor Laboratory Press2021-12-16
<![CDATA[
A self-generated Toddler gradient guides mesodermal cell migration
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https://biorxiv.org/cgi/content/short/2021.12.16.472981v1?rss=1"
Stock, J.Kazmar, T.Schlumm, F.Hannezo, E.Pauli, A.2021-12-17doi:10.1101/2021.12.16.472981Cold Spring Harbor Laboratory Press2021-12-17
<![CDATA[
Global SLAM-Seq for accurate mRNA decay determination and identification of NMD targets
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https://biorxiv.org/cgi/content/short/2021.12.20.473500v1?rss=1"
Alalam, H.Zepeda, J.Sunnerhagen, P.2021-12-20doi:10.1101/2021.12.20.473500Cold Spring Harbor Laboratory Press2021-12-20
<![CDATA[
A Modified TurboID Approach Identifies Tissue-Specific Centriolar Components In C. elegans
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https://biorxiv.org/cgi/content/short/2021.12.20.473533v1?rss=1"
Holzer, E.Rumpf-Kienzl, C.Falk, S.Dammermann, A.2021-12-21doi:10.1101/2021.12.20.473533Cold Spring Harbor Laboratory Press2021-12-21
<![CDATA[
ModelRevelator: Fast phylogenetic model estimation via deep learning
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https://biorxiv.org/cgi/content/short/2021.12.22.473813v1?rss=1"
Burgstaller-Muehlbacher, S.Crotty, S. M.Schmidt, H. A.Drucks, T.von Haeseler, A.2021-12-23doi:10.1101/2021.12.22.473813Cold Spring Harbor Laboratory Press2021-12-23
<![CDATA[
Clinical grade ACE2 effectively inhibits SARS-CoV-2 Omicron infections
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https://biorxiv.org/cgi/content/short/2021.12.25.474113v1?rss=1"
Monteil, V.Devignot, S.Klingstroem, J.Thalin, C.Kellner, M. J.Christ, W.Havervall, S.Mereiter, S.Knapp, S.Montserrat, N.Braunsfeld, B.Kozieradzki, I.Ali, O. H.Hagelkrueys, A.Stadlmann, J.Oostenbrink, C.Wirnsberger, G.Penninger, J. M.Mirazimi, A.2021-12-27doi:10.1101/2021.12.25.474113Cold Spring Harbor Laboratory Press2021-12-27
<![CDATA[
An automated microfluidic platform integrating functional vascularized organoids-on-chip
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https://biorxiv.org/cgi/content/short/2021.12.29.474327v1?rss=1"
Quintard, C.Jonsson, G.Laporte, C.Bissardon, C.Pitaval, A.Werschler, N.Leopoldi, A.Hagelkrüys, A.Blandin, P.Achard, J.-L.Navarro, F.Fouillet, Y.Penninger, J. M.Gidrol, X.2021-12-29doi:10.1101/2021.12.29.474327Cold Spring Harbor Laboratory Press2021-12-29
<![CDATA[
MethylScore, a pipeline for accurate and context-aware identification of differentially methylated regions from population-scale plant WGBS data
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https://biorxiv.org/cgi/content/short/2022.01.06.475031v1?rss=1"
Hüther, P.Hagmann, J.Nunn, A.Kakoulidou, I.Pisupati, R.Langenberger, D.Weigel, D.Johannes, F.Schultheiss, S. J.Becker, C.2022-01-06doi:10.1101/2022.01.06.475031Cold Spring Harbor Laboratory Press2022-01-06
<![CDATA[
Multi-GBS: A massively multiplexed GBS-based protocol optimized for large, repetitive conifer genomes
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https://biorxiv.org/cgi/content/short/2022.01.10.475685v1?rss=1"
Vallebueno-Estrada, M.Steindl, S.Akulova, V.Riefler, J.Slusarz, L.Arizpe, A.Swarts, K.2022-01-11doi:10.1101/2022.01.10.475685Cold Spring Harbor Laboratory Press2022-01-11
<![CDATA[
The genetic structure of a wild wheat population has remained associated with microhabitats over 36 years
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https://biorxiv.org/cgi/content/short/2022.01.10.475641v1?rss=1"
Dahan-Meir, T.Ellis, T. J.Mafessoni, F.Sela, H.Manisterski, J.Avivi-Ragolsky, N.Raz, A.Feldman, M.Anikster, Y.Nordborg, M.Levy, A. A.2022-01-11doi:10.1101/2022.01.10.475641Cold Spring Harbor Laboratory Press2022-01-11
<![CDATA[
Transcription shapes 3D chromatin organization by interacting with loop-extruding cohesin complexes
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https://biorxiv.org/cgi/content/short/2022.01.07.475367v1?rss=1"
Banigan, E. J.Tang, W.van den Berg, A. A.Stocsits, R. R.Wutz, G.Brandao, H. B.Busslinger, G. A.Peters, J.-M.Mirny, L. A.2022-01-08doi:10.1101/2022.01.07.475367Cold Spring Harbor Laboratory Press2022-01-08
<![CDATA[
Structure of a bacterial ribonucleoprotein complex central to the control of cell envelope biogenesis
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https://biorxiv.org/cgi/content/short/2022.01.04.474903v1?rss=1"
Luisi, B. F.Islam, M. S.Hardwick, S. W.Quell, L.Chirgadze, D. Y.Görke, B.2022-01-05doi:10.1101/2022.01.04.474903Cold Spring Harbor Laboratory Press2022-01-05
<![CDATA[
Automation of tree-ring detection and measurements using deep learning
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https://biorxiv.org/cgi/content/short/2022.01.10.475709v1?rss=1"
Polacek, M.Arizpe, A.Hüther, P.Weidlich, L.Steindl, S.Swarts, K.2022-01-12doi:10.1101/2022.01.10.475709Cold Spring Harbor Laboratory Press2022-01-12
<![CDATA[
Precise Transcript Reconstruction with End-Guided Assembly
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https://biorxiv.org/cgi/content/short/2022.01.12.476004v1?rss=1"
Schon, M. A.Lutzmayer, S.Hofmann, F.Nodine, M. D.2022-01-13doi:10.1101/2022.01.12.476004Cold Spring Harbor Laboratory Press2022-01-13
<![CDATA[
Heritable and climatic sources of variation in juvenile tree growth in an Austrian common garden experiment of Central European Norway spruce populations
]]>
https://biorxiv.org/cgi/content/short/2022.01.10.475611v1?rss=1"
Morales, L.Swarts, K.2022-01-12doi:10.1101/2022.01.10.475611Cold Spring Harbor Laboratory Press2022-01-12
<![CDATA[
Complex genetic architecture underlying the plasticity of maize agronomic traits
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https://biorxiv.org/cgi/content/short/2022.01.18.476828v1?rss=1"
Jin, M.Liu, H.Liu, X.Guo, T.Guo, J.Yin, Y.Ji, Y.Li, Z.Zhang, J.Wang, X.Qiao, F.Xiao, Y.Zan, Y.Yan, J.2022-01-21doi:10.1101/2022.01.18.476828Cold Spring Harbor Laboratory Press2022-01-21
<![CDATA[
Two AGO proteins with transposon-derived sRNA cargo mark the germline in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2022.01.25.477718v1?rss=1"
Bradamante, G.Nguyen, V. H.Incarbone, M.Meir, Z.Bente, H.Dona, M.Lettner, N.Mittelsten Scheid, O.Gutzat, R.2022-01-25doi:10.1101/2022.01.25.477718Cold Spring Harbor Laboratory Press2022-01-25
<![CDATA[
Matrix topology guides collective cell migration in vivo
]]>
https://biorxiv.org/cgi/content/short/2022.01.31.478442v1?rss=1"
Soans, K. G.Ramos, A. P.Sidhaye, J.Krishna, A.Solomatina, A.Hoffmann, K. B.Schluessler, R.Guck, J.Sbalzarini, I. F.Modes, C. D.Norden, C.2022-01-31doi:10.1101/2022.01.31.478442Cold Spring Harbor Laboratory Press2022-01-31
<![CDATA[
Conditional GWAS of non-CG transposon methylation in Arabidopsis thaliana reveals major polymorphisms in five genes
]]>
https://biorxiv.org/cgi/content/short/2022.02.09.479810v1?rss=1"
Sasaki, E.Gunis, J.Reichardt-Gomez, I.Nizhynska, V.Nordborg, M.2022-02-10doi:10.1101/2022.02.09.479810Cold Spring Harbor Laboratory Press2022-02-10
<![CDATA[
Viviparity is sufficient for the evolution of genomic imprinting
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https://biorxiv.org/cgi/content/short/2022.02.04.477531v1?rss=1"
Montgomery, S. A.Hisanaga, T.Wang, N.Axelsson, E.Akimcheva, S.Sramek, M.Liu, C.Berger, F.2022-02-04doi:10.1101/2022.02.04.477531Cold Spring Harbor Laboratory Press2022-02-04
<![CDATA[
FoxP3 can fold into two distinct dimerization states with divergent functional implications for T cell homeostasis
]]>
https://biorxiv.org/cgi/content/short/2022.02.08.479534v1?rss=1"
Leng, F.Zhang, W.Ramirez, R.Leon, J.Zhong, Y.van der Veeken, J.Rudensk, A.Benoist, C.Hur, S.2022-02-10doi:10.1101/2022.02.08.479534Cold Spring Harbor Laboratory Press2022-02-10
<![CDATA[
Autophagy promotes programmed cell death and corpse clearance in specific cell types of the Arabidopsis root cap
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https://biorxiv.org/cgi/content/short/2022.02.16.480680v1?rss=1"
Feng, Q.De Rycke, R.Dagdas, Y.Nowack, M. K.2022-02-18doi:10.1101/2022.02.16.480680Cold Spring Harbor Laboratory Press2022-02-18
<![CDATA[
Transcriptional response of a target plant to benzoxazinoid and diterpene allelochemicals highlights commonalities in detoxification
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https://biorxiv.org/cgi/content/short/2022.02.21.480921v1?rss=1"
Knoch, E.Kovacs, J.Deiber, S.Shanmuganathan, R.Serra, N. S.Becker, C.Schandry, N.2022-02-22doi:10.1101/2022.02.21.480921Cold Spring Harbor Laboratory Press2022-02-22
<![CDATA[
Plant autophagosomes mature into amphisomes prior to their delivery to the central vacuole
]]>
https://biorxiv.org/cgi/content/short/2022.02.26.482093v1?rss=1"
Zhao, J.Bui, M. T.Ma, J.Kuenzl, F.De La Concepcion, J. C.Chen, Y.Petsangouraki, S.Mohseni, A.Garcia Leon, M.Salas-Gomez, M.Giannini, C.Gwennogan, D.Kobylinska, R.Clavel, M.Schellmann, S.Jaillais, Y.Friml, J.Kang, B.-H.Dagdas, Y.2022-02-26doi:10.1101/2022.02.26.482093Cold Spring Harbor Laboratory Press2022-02-26
<![CDATA[
Domestication and lowland adaptation of coastal preceramic maize from Paredones, Peru
]]>
https://biorxiv.org/cgi/content/short/2022.02.23.481166v1?rss=1"
Vallebueno-Estrada, M.Hernandez-Robles, G. G.Gonzalez-Orozco, E.Lopez-Valdivia, I.Tham, T. R.Sanchez, V. V.Swarts, K.Dillehay, T. D.Vielle-Calzada, J.-P.Montiel, R.2022-02-25doi:10.1101/2022.02.23.481166Cold Spring Harbor Laboratory Press2022-02-25
<![CDATA[
Low Density Lipoprotein Receptor-Related Protein 1 (LRP1) is a host factor for RNA viruses including SARS-CoV-2
]]>
https://biorxiv.org/cgi/content/short/2022.02.17.480904v1?rss=1"
Devignot, S.Sha, T. W.Burkard, T. R.Schmerer, P.Hagelkruys, A.Mirazimi, A.Elling, U.Penninger, J. M.Weber, F.2022-02-18doi:10.1101/2022.02.17.480904Cold Spring Harbor Laboratory Press2022-02-18
<![CDATA[
Bioframe: Operations on Genomic Intervals in Pandas Dataframes
]]>
https://biorxiv.org/cgi/content/short/2022.02.16.480748v1?rss=1"
Open2C,Abdennur, N.Fudenberg, G.Flyamer, I. M.Galitsyna, A. A.Goloborodko, A.Imakaev, M.Venev, S. V.2022-02-19doi:10.1101/2022.02.16.480748Cold Spring Harbor Laboratory Press2022-02-19
<![CDATA[
The SPOC domain is a phosphoserine binding module that bridges transcription machinery with co- and post-transcriptional regulators
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https://biorxiv.org/cgi/content/short/2022.02.26.482114v1?rss=1"
Appel, L.-M.Grishkovskaya, I.Benedum, J.Franke, V.Polyansky, A.Neudolt, A.Wunder, A.Zagrovic, B.Akalin, A.Djinovic-Carugo, K.Slade, D.2022-02-27doi:10.1101/2022.02.26.482114Cold Spring Harbor Laboratory Press2022-02-27
<![CDATA[
PCYT2 controls muscle health and muscle aging
]]>
https://biorxiv.org/cgi/content/short/2022.03.02.482658v1?rss=1"
Cikes, D.Elsayad, K.Sezgin, E.Koitai, E.Ferenc, T.Orthofer, M.Yarwood, R.Heinz, L.Sedlyarov, V.Darwish-Miranda, N.Taylor, A.Grapentine, S.al-Murshedi, F.Abot, A.Weidinger, A.Kutchukian, C.Sanchez, C.Cronin, S. J. F.Novatchkova, M.Kavirayani, A.Schuetz, T.Haubner, B.Haas, L.Hagelkrueys, A.Jackowski, S.Kozlov, A.Jacquemond, V.Knauf, C.Superti-Furga, G.Rullman, E.Gustafsson, T.McDermott, J. H.Lowe, M. P.Radak, Z.Chamberlain, J. S.Bakovic, M.Banka, S.Penninger, J.2022-03-03doi:10.1101/2022.03.02.482658Cold Spring Harbor Laboratory Press2022-03-03
<![CDATA[
Structural maturation of SYCP1-mediated meiotic chromosome synapsis through conformational remodelling by molecular adapter SYCE3
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https://biorxiv.org/cgi/content/short/2022.03.06.483192v1?rss=1"
Crichton, J. H.Dunce, J. M.Dunne, O. M.Salmon, L. J.Devenney, P. S.Lawson, J.Adams, I. R.Davies, O. R.2022-03-07doi:10.1101/2022.03.06.483192Cold Spring Harbor Laboratory Press2022-03-07
<![CDATA[
Cellular stress in brain organoids is limited to a distinct and bioinformatically removable subpopulation.
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https://biorxiv.org/cgi/content/short/2022.03.11.483643v1?rss=1"
Vertesy, A.Eichmueller, O. L.Naas, J.Novatchkova, M.Esk, C.Balmana, M.Ladstaetter, S.Bock, C.von Haeseler, A.Knoblich, J. A.2022-03-12doi:10.1101/2022.03.11.483643Cold Spring Harbor Laboratory Press2022-03-12
<![CDATA[
Structure and regulation of the Myotonic dystrophy kinase-Related Cdc42-binding Kinase
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https://biorxiv.org/cgi/content/short/2022.03.11.483953v1?rss=1"
Truebestein, L.Waltenberger, E.Gehin, C.Gavin, A.-C.Leonard, T. A.2022-03-11doi:10.1101/2022.03.11.483953Cold Spring Harbor Laboratory Press2022-03-11
<![CDATA[
Genetic and environmental drivers of large-scale epigenetic variation in Thlaspi arvense
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https://biorxiv.org/cgi/content/short/2022.03.16.484610v1?rss=1"
Galanti, D.Ramos-Cruz, D.Nunn, A.Rodriguez-Arevalo, I.Scheepens, J. F.Becker, C.Bossdorf, O.2022-03-18doi:10.1101/2022.03.16.484610Cold Spring Harbor Laboratory Press2022-03-18
<![CDATA[
Endocytosis is required for access of surface-bound cargo to the flagellar pocket of trypanosomes
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https://biorxiv.org/cgi/content/short/2022.03.15.484455v1?rss=1"
Schichler, D.Spath, E.-M.Konle, A.Riegler, S.Klein, A.Seleznev, A.Jung, S.Wuppermann, T.Wetterich, N.Borges, A.Meyer-Natus, E.Havlicek, K.Cabrera, S. P.Niedermueller, K.Sajko, S.Dohn, M.Malzer, X.Riemer, E.Tumurbaatar, T.Djinovic-Carugo, K.Dong, G.Janzen, C. J.Morriswood, B.2022-03-15doi:10.1101/2022.03.15.484455Cold Spring Harbor Laboratory Press2022-03-15
<![CDATA[
Hepatocyte-specific loss of LAP2α reduces hepatic steatosis in male mice by enhancing LMNA-mediated transcriptional regulation
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https://biorxiv.org/cgi/content/short/2022.03.18.484917v1?rss=1"
Upadhyay, K. K.Choi, E.-Y. K.Foisner, R.Omary, M. B.Brady, G. F.2022-03-19doi:10.1101/2022.03.18.484917Cold Spring Harbor Laboratory Press2022-03-19
<![CDATA[
Single-cell analyses of axolotl forebrain organization, neurogenesis, and regeneration
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https://biorxiv.org/cgi/content/short/2022.03.21.485045v1?rss=1"
Lust, K.Maynard, A.Gomes, T.Fleck, J. S.Camp, J. G.Tanaka, E. M.Treutlein, B.2022-03-22doi:10.1101/2022.03.21.485045Cold Spring Harbor Laboratory Press2022-03-22
<![CDATA[
Fate and state transitions during human blood vessel organoid development
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https://biorxiv.org/cgi/content/short/2022.03.23.485329v1?rss=1"
Nikolova, M. T.He, Z.Wimmer, R. A.Seimiya, M.Nikoloff, J. M.Penninger, J. M.Camp, J. G.Treutlein, B.2022-03-23doi:10.1101/2022.03.23.485329Cold Spring Harbor Laboratory Press2022-03-23
<![CDATA[
Canonical Wnt Signaling and the Regulation of Divergent Mesenchymal Fgf8 expression in Axolotl Limb Development and Regeneration
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https://biorxiv.org/cgi/content/short/2022.03.28.486111v1?rss=1"
Glotzer, G. L.Tardivo, P.Tanaka, E. M.2022-03-29doi:10.1101/2022.03.28.486111Cold Spring Harbor Laboratory Press2022-03-29
<![CDATA[
Cellular dynamics of endosperm development in Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/2022.04.01.485647v1?rss=1"
Ali, M. F.Shin, J.-M.Fatema, U.Kurihara, D.Berger, F.Yuan, L.Kawashima, T.2022-04-04doi:10.1101/2022.04.01.485647Cold Spring Harbor Laboratory Press2022-04-04
<![CDATA[
Unexpected Complexity of the Ammonia Monooxygenase in Archaea
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https://biorxiv.org/cgi/content/short/2022.04.06.487334v1?rss=1"
Hodgskiss, L. H.Melcher, M.Kerou, M.Chen, W.Ponce-Toledo, R. I.Savvides, S. N.Wienkoop, S.Hartl, M.Schleper, C.2022-04-06doi:10.1101/2022.04.06.487334Cold Spring Harbor Laboratory Press2022-04-06
<![CDATA[
Multiple routes of adaptation to high levels of CIN and aneuploidy in budding yeast
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https://biorxiv.org/cgi/content/short/2022.04.21.489003v1?rss=1"
Clarke, M. N.Marsoner, T.Alonso Y Adell, M.Ravichandran, M. C.Campbell, C. S.2022-04-21doi:10.1101/2022.04.21.489003Cold Spring Harbor Laboratory Press2022-04-21
<![CDATA[
A de novo transcription-dependent TAD boundary underpins critical multiway interactions during antibody class switch recombination
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https://biorxiv.org/cgi/content/short/2022.04.26.489407v1?rss=1"
Costea, J.Schoeberl, U. E.Malzl, D.von der Linde, M.Fitz, J.Makharova, M.Goloborodko, A.Pavri, R.2022-04-26doi:10.1101/2022.04.26.489407Cold Spring Harbor Laboratory Press2022-04-26
<![CDATA[
ZW sex-chromosome evolution and contagious parthenogenesis in Artemia brine shrimp
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https://biorxiv.org/cgi/content/short/2022.04.27.489735v1?rss=1"
Elkrewi, M.Khauratovich, U.Toups, M. A.Bett, V. K.Mrnjavac, A.Macon, A.Fraïsse, C.Sax, L.Huylmans, A. K.Hontoria, F.Vicoso, B.2022-04-29doi:10.1101/2022.04.27.489735Cold Spring Harbor Laboratory Press2022-04-29
<![CDATA[
HiCognition: a visual exploration and hypothesis testing tool for 3D genomics
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https://biorxiv.org/cgi/content/short/2022.04.30.490134v1?rss=1"
Langer, C. C. H.Mitter, M.Stocsits, R. R.Gerlich, D. W.2022-05-01doi:10.1101/2022.04.30.490134Cold Spring Harbor Laboratory Press2022-05-01
<![CDATA[
Visualization of loop extrusion by DNA nanoscale tracing in single cells
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https://biorxiv.org/cgi/content/short/2021.04.12.439407v1?rss=1"
Beckwith, K. S.Oedegaard Fougner, O.Morero, N. R.Barton, C.Schueder, F.Alexander, S.Jungmann, R.Birney, E.Ellenberg, J.2021-04-12doi:10.1101/2021.04.12.439407Cold Spring Harbor Laboratory Press2021-04-12
<![CDATA[
Membrane curvature sensing and stabilization by the autophagic LC3 lipidation machinery
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https://biorxiv.org/cgi/content/short/2022.05.03.490522v1?rss=1"
Jensen, L. E.Rao, S.Schuschnig, M.Cada, A. K.Martens, S.Hummer, G.Hurley, J. H.2022-05-04doi:10.1101/2022.05.03.490522Cold Spring Harbor Laboratory Press2022-05-04
<![CDATA[
PKD autoinhibition in trans regulates activation loop autophosphorylation in cis
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https://biorxiv.org/cgi/content/short/2022.05.05.490744v1?rss=1"
Reinhardt, R.Hirzel, K.Link, G.Eisler, S. A.Haegele, T.Parson, M. A. H.Burke, J. E.Hausser, A.Leonard, T. A.2022-05-05doi:10.1101/2022.05.05.490744Cold Spring Harbor Laboratory Press2022-05-05
<![CDATA[
In search of the universal method: a comparative survey of bottom-up proteomics sample preparation methods
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https://biorxiv.org/cgi/content/short/2022.05.04.490597v1?rss=1"
Varnavides, G.Madern, M.Anrather, D.Hartl, N.Reiter, W.Hartl, M.2022-05-04doi:10.1101/2022.05.04.490597Cold Spring Harbor Laboratory Press2022-05-04
<![CDATA[
The Drosophila ZAD zinc finger protein Kipferl guides Rhino to piRNA clusters
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https://biorxiv.org/cgi/content/short/2022.05.09.491178v1?rss=1"
Brennecke, J.Baumgartner, L.Handler, D.Duchek, P.Platzer, S.2022-05-09doi:10.1101/2022.05.09.491178Cold Spring Harbor Laboratory Press2022-05-09
<![CDATA[
The histone variant H2A.W cooperates with chromatin modifications and linker histone H1 to maintain transcriptional silencing of transposons in Arabidopsis
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https://biorxiv.org/cgi/content/short/2022.05.31.493688v1?rss=1"
Bourguet, P.Yelagandula, R.To, T. K.Osakabe, A.Alishe, A.Lu, R. J.-H.Kakutani, T.Chen, P.-Y.Berger, F.2022-05-31doi:10.1101/2022.05.31.493688Cold Spring Harbor Laboratory Press2022-05-31
<![CDATA[
An expanding arsenal of immune systems that protect bacteria from phages
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https://biorxiv.org/cgi/content/short/2022.05.11.491447v1?rss=1"
Millman, A.Melamed, S.Leavitt, A.Doron, S.Bernheim, A.Hör, J.Lopatina, A.Ofir, G.Hochhauser, D.Stokar-Avihail, A.Tal, N.Sharir, S.Voichek, M.Erez, Z.Ferrer, J. L. M.Dar, D.Kacen, A.Amitai, G.Sorek, R.2022-05-11doi:10.1101/2022.05.11.491447Cold Spring Harbor Laboratory Press2022-05-11
<![CDATA[
Single cell transcriptomics identifies conserved regulators of neurosecretory lineages
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https://biorxiv.org/cgi/content/short/2022.05.11.491463v1?rss=1"
Steger, J.Cole, A. G.Denner, A.Lebedeva, T.Genikhovich, G. G.Ries, A.Reischl, R.Taudes, E.Lassnig, M.Technau, U.2022-05-11doi:10.1101/2022.05.11.491463Cold Spring Harbor Laboratory Press2022-05-11
<![CDATA[
Composition can buffer protein dynamics within liquid-like condensates.
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https://biorxiv.org/cgi/content/short/2022.05.16.492059v1?rss=1"
Jelenic, S.Bindics, J.Czermak, P.Pillai, B. R.Ruer, M.Holehouse, A. S.Saha, S.2022-05-16doi:10.1101/2022.05.16.492059Cold Spring Harbor Laboratory Press2022-05-16
<![CDATA[
Assessment of 3D MINFLUX data for quantitative structural biology in cells revisited
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https://biorxiv.org/cgi/content/short/2022.05.13.491065v1?rss=1"
Gwosch, K.Balzarotti, F.Pape, J. K.Hoess, P.Ellenberg, J.Ries, J.Matti, U.Schmidt, R.Sahl, S. J.Hell, S. W.2022-05-17doi:10.1101/2022.05.13.491065Cold Spring Harbor Laboratory Press2022-05-17
<![CDATA[
Zygotic genome activation by the totipotency pioneer factor Nr5a2
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https://biorxiv.org/cgi/content/short/2022.05.17.492379v1?rss=1"
Gassler, J.Kobayashi, W.Gaspar, I.Ruangroengkulrith, S.Kuemmecke, M.Kravchenko, P.Zaczek, M.Vallot, A.Hernandez, L. G.Rico, L. C.Ladstaetter, S.Tachibana, K.2022-05-17doi:10.1101/2022.05.17.492379Cold Spring Harbor Laboratory Press2022-05-17
<![CDATA[
An improved TurboID pipeline in C. elegans by biochemical depletion of endogenously biotinylated carboxylases
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https://biorxiv.org/cgi/content/short/2022.05.22.492627v1?rss=1"
Artan, M.Hartl, M.Chen, W.de Bono, M.2022-05-22doi:10.1101/2022.05.22.492627Cold Spring Harbor Laboratory Press2022-05-22
<![CDATA[
Host-directed therapy with 2-Deoxy-D-glucose inhibits human rhinoviruses, endemic coronaviruses, and SARS-CoV-2
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https://biorxiv.org/cgi/content/short/2022.05.24.493068v1?rss=1"
Wali, L.Karbiener, M.Chou, S.Kovtunyk, V.Adonyi, A.Goesler, I.Contreras, X.Stoeva, D.Blaas, D.Stoeckl, J.Kreil, T. R.Gualdoni, G. A.Gorki, A.-D.2022-05-24doi:10.1101/2022.05.24.493068Cold Spring Harbor Laboratory Press2022-05-24
<![CDATA[
SLAMseq resolves the kinetics of maternal and zygotic gene expression in early zebrafish embryogenesis
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https://biorxiv.org/cgi/content/short/2022.06.01.494399v1?rss=1"
Bhat, P.Cabrera Quio, L. E.Herzog, V. A.Fasching, N.Pauli, A.Ameres, S. L.2022-06-02doi:10.1101/2022.06.01.494399Cold Spring Harbor Laboratory Press2022-06-02
<![CDATA[
A uniquely stable trimeric model of SARS-CoV-2 spike transmembrane domain
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https://biorxiv.org/cgi/content/short/2022.06.05.494856v1?rss=1"
Aliper, E. T.Krylov, N. A.Nolde, D. E.Polyansky, A. A.Efremov, R. G.2022-06-06doi:10.1101/2022.06.05.494856Cold Spring Harbor Laboratory Press2022-06-06
<![CDATA[
Binding of a blast fungus Zinc-finger fold effector to a hydrophobic pocket in the host exocyst subunit Exo70 modulates immune recognition in rice
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https://biorxiv.org/cgi/content/short/2022.06.18.496527v1?rss=1"
De la Concepcion, J. C.Fujisaki, K.Bentham, A. R.Cruz Mireles, N.Sanchez de Medina Hernandez, V.Shimizu, M.Lawson, D. M.Kamoun, S.Terauchi, R.Banfield, M. J.2022-06-19doi:10.1101/2022.06.18.496527Cold Spring Harbor Laboratory Press2022-06-19
<![CDATA[
Effector target-guided engineering of an integrated domain expands the disease resistance profile of a rice NLR immune receptor
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https://biorxiv.org/cgi/content/short/2022.06.14.496076v1?rss=1"
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]]>Maidment, J. H.Shimizu, M.Vera, S.Franceschetti, M.Longya, A.Stevenson, C. E.De la Concepcion, J. C.Bialas, A.Kamoun, S.Terauchi, R.Banfield, M. J.2022-06-15doi:10.1101/2022.06.14.496076Cold Spring Harbor Laboratory Press2022-06-15
<![CDATA[
Skeletal muscle lineage is dispensable for appendage regeneration in axolotl
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https://biorxiv.org/cgi/content/short/2022.06.10.495631v1?rss=1"
Hu, Y.Pan, X.Shi, Y.Qiu, Y.Wang, L.Murawala, P.Liu, Y.Xing, W.Tanaka, E.Fei, J.2022-06-12doi:10.1101/2022.06.10.495631Cold Spring Harbor Laboratory Press2022-06-12
<![CDATA[
The evolution of an RNA-based memory of self in the face of genomic conflict
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https://biorxiv.org/cgi/content/short/2022.06.17.496645v1?rss=1"
Pliota, P.Marvanova, H.Koreshova, A.Kaufman, Y.Tikanova, P.Krogull, D.Hagmueller, A.Widen, S. A.Handler, D.Gokcezade, J.Duchek, P.Brennecke, J.Ben-David, E.Burga, A.2022-06-20doi:10.1101/2022.06.17.496645Cold Spring Harbor Laboratory Press2022-06-20
<![CDATA[
The cohesin subunit RAD21.2 functions as a recombination silencer of ribosomal DNA arrays
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https://biorxiv.org/cgi/content/short/2022.06.20.496767v1?rss=1"
Kuttig, V.Sims, J.Hamamura, Y.Komaki, S.Koehler, M.Stolze, S. C.De Jaeger-Braet, J.Tuncay Elbasy, H.Nakagami, H.Failla, A. V.Schloegelhofer, P.Schnittger, A.2022-06-20doi:10.1101/2022.06.20.496767Cold Spring Harbor Laboratory Press2022-06-20
<![CDATA[
A causal model of ion interference enables assessment and correction of ratio compression in multiplex proteomics
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https://biorxiv.org/cgi/content/short/2022.06.24.497446v1?rss=1"
Madern, M.Reiter, W.Stanek, F.Hartl, N.Mechtler, K.Hartl, M.2022-06-25doi:10.1101/2022.06.24.497446Cold Spring Harbor Laboratory Press2022-06-25
<![CDATA[
Three consecutive glycolysis enzymes are involved in autophagic flux regulation through monitoring nutrient availability
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https://biorxiv.org/cgi/content/short/2022.07.12.499818v1?rss=1"
Lee, D.-H.Choi, I.Park, S. J.Kim, S.Choi, M.-S.Lee, H.-S.Pai, H.-S.2022-07-14doi:10.1101/2022.07.12.499818Cold Spring Harbor Laboratory Press2022-07-14
<![CDATA[
Adult neural stem cells and neurogenesis are resilient to intermittent fasting
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https://biorxiv.org/cgi/content/short/2022.07.08.499318v1?rss=1"
Gabarro-Solanas, R.Davaatseren, A.Kepcija, T.Crespo-Enriquez, I.Urban, N.2022-07-10doi:10.1101/2022.07.08.499318Cold Spring Harbor Laboratory Press2022-07-10
<![CDATA[
A globally distributed major virus-resistance association in Arabidopsis thaliana
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https://biorxiv.org/cgi/content/short/2022.08.02.502433v1?rss=1"
Butkovic, A.Ellis, T. J.Gonzalez, R.Jaegle, B.Nordborg, M.Elena, S. F.2022-08-03doi:10.1101/2022.08.02.502433Cold Spring Harbor Laboratory Press2022-08-03
<![CDATA[
Large neutral amino acid levels tune perinatal neuronal excitability and survival
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https://biorxiv.org/cgi/content/short/2022.07.12.499841v1?rss=1"
Knaus, L. S.Basilico, B.Malzl, D.Gerykova Bujalkova, M.Smogavec, M.Schwarz, L. A.Gorkiewicz, S.Amberg, N.Pauler, F.Rülicke, T.Menche, J.Hippenmeyer, S.Novarino, G.2022-07-13doi:10.1101/2022.07.12.499841Cold Spring Harbor Laboratory Press2022-07-13
<![CDATA[
Phosphorylation and ubiquitination independent endocytosis of BRI1
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https://biorxiv.org/cgi/content/short/2022.07.11.499622v1?rss=1"
Russinova, E.Alves Neubus Claus, L.Liu, D.Hohmann, U.Vukasinovic, N.Pleskot, R.Liu, J.Schiffner, A.Jaillais, Y.Wu, G.Wolf, S.Van Damme, D.Hothorn, M.2022-07-14doi:10.1101/2022.07.11.499622Cold Spring Harbor Laboratory Press2022-07-14
<![CDATA[
Double NPY motifs at the N-terminus of Sso2 synergistically bind Sec3 to promote membrane fusion
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https://biorxiv.org/cgi/content/short/2022.03.11.483902v1?rss=1"
Peer, M.Yuan, H.Zhang, Y.Korbula, K.Novick, P. J.Dong, G.2022-03-12doi:10.1101/2022.03.11.483902Cold Spring Harbor Laboratory Press2022-03-12
<![CDATA[
Carbon ion irradiation plus CTLA4 blockade elicits therapeutic immune responses in a murine tumor model
]]>
https://biorxiv.org/cgi/content/short/2022.07.22.500608v1?rss=1"
Hartmann, L.Osen, W.Eichmüller, O. L.Kordass, T.Furkel, J.Dickes, E.Reid, C.Debus, J.Brons, S.Abdollahi, A.Moustafa, M.Rieken, S.Eichmüller, S. B.2022-07-22doi:10.1101/2022.07.22.500608Cold Spring Harbor Laboratory Press2022-07-22
<![CDATA[
Glucose intolerance in aging is mediated by the Gpcpd1-GPC metabolic axis
]]>
https://biorxiv.org/cgi/content/short/2021.10.26.465828v1?rss=1"
Cikes, D.Leutner, M.Cronin, S. J. - F.Novatchkova, M.Pfleger, L.Klepochova, R.Rullman, E.Gustafsson, T.Hagelkrueys, A.Krebs, M.Kautzky-Willer, A.Krssak, M.Orthofer, M.Penninger, J. M.2021-10-26doi:10.1101/2021.10.26.465828Cold Spring Harbor Laboratory Press2021-10-26
<![CDATA[
Can pseudotopological models for SMC-driven DNA loop extrusion explain the traversal of physical roadblocks bigger than the SMC ring size?
]]>
https://biorxiv.org/cgi/content/short/2022.08.02.502451v1?rss=1"
Pradhan, B.Barth, R.Kim, E.Davidson, I. F.Torre, J. v. d.Peters, J.-M.Dekker, C.2022-08-03doi:10.1101/2022.08.02.502451Cold Spring Harbor Laboratory Press2022-08-03
<![CDATA[
Tumor necrosis factor is a necroptosis-associated alarmin
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https://biorxiv.org/cgi/content/short/2022.08.01.502280v1?rss=1"
Pinci, F.Gaidt, M.Jung, C.Nagl, D.Kuut, G.Hornung, V.2022-08-03doi:10.1101/2022.08.01.502280Cold Spring Harbor Laboratory Press2022-08-03
<![CDATA[
UNC-45 assisted myosin folding depends on a conserved FX3HY motif implicated in Freeman Sheldon Syndrome
]]>
https://biorxiv.org/cgi/content/short/2022.08.08.502945v1?rss=1"
Clausen, T.Vogel, A.Arnese, R.Gudino Carrillo, R.Sehr, D.Bylicki, A.Meinhart, A.2022-08-08doi:10.1101/2022.08.08.502945Cold Spring Harbor Laboratory Press2022-08-08
<![CDATA[
Unconventional Initiation of PINK1/Parkin Mitophagy by Optineurin
]]>
https://biorxiv.org/cgi/content/short/2022.08.14.503930v1?rss=1"
Nguyen, T. N.Sawa-makarska, J.Khuu, G.Lam, W. K.Adriaenssens, E.Fracchiolla, D.Shoebridge, S.Padman, B. S.Skulsuppaisarn, M.Lindblom, R. S. J.Martens, S.Lazarou, M.2022-08-15doi:10.1101/2022.08.14.503930Cold Spring Harbor Laboratory Press2022-08-15
<![CDATA[
A complex role of Arabidopsis CDKD;3 in meiotic progression and cytokinesis
]]>
https://biorxiv.org/cgi/content/short/2022.08.08.503215v1?rss=1"
Tanasa, S.Shukla, N.Cairo, A.Ganji, R. S.Mikulkova, P.Valuchova, S.Raxwal, V. K.Capitao, C.Schnittger, A.Zdrahal, Z.Riha, K.2022-08-08doi:10.1101/2022.08.08.503215Cold Spring Harbor Laboratory Press2022-08-08
<![CDATA[
Genes encoding cytochrome P450 monooxygenases and glutathione S-transferases associated with herbicide resistance evolved before the origin of land plants
]]>
https://biorxiv.org/cgi/content/short/2022.08.12.503801v1?rss=1"
Casey, A.Dolan, L.2022-08-15doi:10.1101/2022.08.12.503801Cold Spring Harbor Laboratory Press2022-08-15
<![CDATA[
Endogenous RNAi silences a burgeoning sex chromosome arms race
]]>
https://biorxiv.org/cgi/content/short/2022.08.22.504821v1?rss=1"
Vedanayagam, J.Lin, C.-J.Papareddy, R.Nodine, M. D.Flynt, A. S.Wen, J.Lai, E. C.2022-08-22doi:10.1101/2022.08.22.504821Cold Spring Harbor Laboratory Press2022-08-22
<![CDATA[
Virus-like transposons cross the species barrier and drive the evolution of genetic incompatibilities
]]>
https://biorxiv.org/cgi/content/short/2022.07.12.499685v1?rss=1"
Widen, S. A.Campo Bes, I.Koreshova, A.Krogull, D.Burga, A.2022-07-13doi:10.1101/2022.07.12.499685Cold Spring Harbor Laboratory Press2022-07-13
<![CDATA[
Multi-chamber cardioids unravel human heart development and cardiac defects
]]>
https://biorxiv.org/cgi/content/short/2022.07.14.499699v1?rss=1"
View larger version (44K):
org.highwire.dtl.DTLVardef@c9c629org.highwire.dtl.DTLVardef@f0d521org.highwire.dtl.DTLVardef@1389411org.highwire.dtl.DTLVardef@181098a_HPS_FORMAT_FIGEXP M_FIG C_FIG HIGHLIGHTS- Mesoderm induction and patterning signals specify aSHF, pSHF, and FHF progenitors
- Cardiac progenitors sort, co-develop and functionally connect in multi-chamber cardioids
- Multi-chamber cardioids coordinate contraction propagation and share a lumen
- Multi-chamber platform dissects genetic (ISL1, TBX5, FOXF1) and teratogenic defects
]]>Schmidt, C.Deyett, A.Ilmer, T.Caballero, A. T.Haendeler, S.Pimpale, L.Netzer, M. A.Ginistrelli, L. C.Cirigliano, M.Mancheno, E. J.Reumann, D.Tavernini, K.Hering, S.Hofbauer, P.Mendjan, S.2022-07-16doi:10.1101/2022.07.14.499699Cold Spring Harbor Laboratory Press2022-07-16
<![CDATA[
Molecular characteristics of diel rhythmic diversity reveal disconnection between different levels of organismal rhythmicity
]]>
https://biorxiv.org/cgi/content/short/2022.07.16.500291v1?rss=1"
Häfker, N. S.Holcik, L.Vadiwala, K.Beets, I.Stockinger, A. W.Hammer, S.Schoofs, L.Raible, F.Tessmar-Raible, K.2022-07-16doi:10.1101/2022.07.16.500291Cold Spring Harbor Laboratory Press2022-07-16
<![CDATA[
Translational specialization in pluripotency by RBPMS poises future lineage-decisions
]]>
https://biorxiv.org/cgi/content/short/2021.04.12.439420v1?rss=1"
Bartsch, D.Kalamkar, K.Ahuja, G.Bazzi, H.Papantonis, A.Kurian, L.2021-04-12doi:10.1101/2021.04.12.439420Cold Spring Harbor Laboratory Press2021-04-12
<![CDATA[
Development of a multi-sensor integrated midbrain organoid-on-a-chip platform for studying Parkinson's disease
]]>
https://biorxiv.org/cgi/content/short/2022.08.19.504522v1?rss=1"
Spitz, S.Bolognin, S.Brandauer, K.Fuessl, J.Schuller, P.Schobesberger, S.Jordan, C.Schaedl, B.Grillari, J.Wanzenboeck, H. D.Mayr, T.Harasek, M.Schwamborn, J. C.Ertl, P.2022-08-22doi:10.1101/2022.08.19.504522Cold Spring Harbor Laboratory Press2022-08-22
<![CDATA[
Identification and characterization of repressive domains in Drosophila transcription factors
]]>
https://biorxiv.org/cgi/content/short/2022.08.26.505062v1?rss=1"
Klaus, L.de Almeida, B. P.Vlasova, A.Nemcko, F.Schleiffer, A.Bergauer, K.Rath, M.Stark, A.2022-08-27doi:10.1101/2022.08.26.505062Cold Spring Harbor Laboratory Press2022-08-27
<![CDATA[
HUWE1 controls tristetraprolin proteasomal degradation by regulating its phosphorylation
]]>
https://biorxiv.org/cgi/content/short/2022.08.29.505645v1?rss=1"
Scinicariello, S.Soederholm, A.Schaefer, M.Shulkina, A.Schwartz, I.Hacker, K.Gogova, R.Kalis, R.Froussios, K.Budroni, V.Bestehorn, A.Clausen, T.Kovarik, P.Zuber, J.Versteeg, G. A.2022-08-29doi:10.1101/2022.08.29.505645Cold Spring Harbor Laboratory Press2022-08-29
<![CDATA[
Structural basis of how the BIRC6/SMAC complex regulates apoptosis and autophagy
]]>
https://biorxiv.org/cgi/content/short/2022.08.30.505823v1?rss=1"
Ehrmann, J. F.Grabarczyk, D. B.Heinke, M.Deszcz, L.Kurzbauer, R.Hudecz, O.Shulkina, A.Gogova, R.Meinhart, A.Versteeg, G. A.Clausen, T.2022-08-30doi:10.1101/2022.08.30.505823Cold Spring Harbor Laboratory Press2022-08-30
<![CDATA[
Transcriptome changes in chlorsulfuron-treated plants are caused by acetolactate synthase inhibition and not induction of a herbicide detoxification system in Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2022.08.31.505973v1?rss=1"
Casey, A.Köcher, T.Caygill, S.Champion, C.Bonnot, C.Dolan, L.2022-09-01doi:10.1101/2022.08.31.505973Cold Spring Harbor Laboratory Press2022-09-01
<![CDATA[
Wide Window Acquisition and AI-based data analysis to reach deep proteome coverage for a wide sample range, including single cell proteomic inputs
]]>
https://biorxiv.org/cgi/content/short/2022.09.01.506203v1?rss=1"
Mayer, R. L.Matzinger, M.Schmücker, A.Stejskal, K.Krssakova, G.Berger, F.Mechtler, K.2022-09-02doi:10.1101/2022.09.01.506203Cold Spring Harbor Laboratory Press2022-09-02
<![CDATA[
Enhancers display constrained sequence flexibility and context-specific modulation of motif function
]]>
https://biorxiv.org/cgi/content/short/2022.08.31.506061v1?rss=1"
Reiter, F.de Almeida, B. P.Stark, A.2022-09-01doi:10.1101/2022.08.31.506061Cold Spring Harbor Laboratory Press2022-09-01
<![CDATA[
Distinct features in fish Bouncer proteins determine sperm-egg compatibility
]]>
https://biorxiv.org/cgi/content/short/2022.09.01.506233v1?rss=1"
Gert, K. R. B.Panser, K.Surm, J. M.Steinmetz, B.Schleiffer, A.Moran, Y.Kondrashov, F.Pauli, A.2022-09-02doi:10.1101/2022.09.01.506233Cold Spring Harbor Laboratory Press2022-09-02
<![CDATA[
CTCF is a DNA-tension-dependent barrier to cohesin-mediated DNA loop extrusion
]]>
https://biorxiv.org/cgi/content/short/2022.09.08.507093v1?rss=1"
Davidson, I. F.Barth, R.Zaczek, M.van der Torre, J.Tang, W.Nagasaka, K.Janissen, R.Kerssemakers, J.Wutz, G.Dekker, C.Peters, J.-M.2022-09-09doi:10.1101/2022.09.08.507093Cold Spring Harbor Laboratory Press2022-09-09
<![CDATA[
Post-mating parental behavior trajectories differ across four species of deer mice
]]>
https://biorxiv.org/cgi/content/short/2022.09.18.508265v1?rss=1"
Khadraoui, M.Merritt, J. R.Hoekstra, H. E.Bendesky, A.2022-09-19doi:10.1101/2022.09.18.508265Cold Spring Harbor Laboratory Press2022-09-19
<![CDATA[
The Mouse N-Glycome Atlas - High-resolution N-glycan analysis of 23 mouse tissues.
]]>
https://biorxiv.org/cgi/content/short/2022.09.19.508483v1?rss=1"
Helm, J.Mereiter, S.Oliveira, T.Penninger, J. M.Altmann, F.Stadlmann, J.2022-09-19doi:10.1101/2022.09.19.508483Cold Spring Harbor Laboratory Press2022-09-19
<![CDATA[
Alternative proteoforms and proteoform-dependent assemblies in humans and plants
]]>
https://biorxiv.org/cgi/content/short/2022.09.21.508930v1?rss=1"
McWhite, C. D.Sae-Lee, W.Yuan, Y.Mallam, A.Gort-Frietas, N. A.Ramundo, S.Onishi, M.Marcotte, E. M.2022-09-22doi:10.1101/2022.09.21.508930Cold Spring Harbor Laboratory Press2022-09-22
<![CDATA[
Structural studies of cilia and flagella associated protein 410 (CFAP410) reveal its bimodular organization with an N-terminal LRR motif and a C-terminal tetrameric helical bundle
]]>
https://biorxiv.org/cgi/content/short/2022.09.21.508879v1?rss=1"
Stadler, A.Gabriel, H. B.Alonso-Gil, S.Deng, X.Crickley, R.Korbula, K.Huang, K.Zagrovic, B.Vaughan, S.Sunter, J.Dong, G.2022-09-21doi:10.1101/2022.09.21.508879Cold Spring Harbor Laboratory Press2022-09-21
<![CDATA[
Cohesin mediates DNA loop extrusion and sister chromatid cohesion by distinct mechanisms
]]>
https://biorxiv.org/cgi/content/short/2022.09.23.509019v1?rss=1"
Nagasaka, K.Davidson, I. F.Stocsits, R.Tang, W.Wutz, G.Batty, P.Panarotto, M.Litos, G.Schleiffer, A.Gerlich, D. W.Peters, J. M.2022-09-23doi:10.1101/2022.09.23.509019Cold Spring Harbor Laboratory Press2022-09-23
<![CDATA[
Functionally distinct promoter classes initiate transcription via different mechanisms reflected in focused versus dispersed initiation patterns
]]>
https://biorxiv.org/cgi/content/short/2022.09.30.509643v1?rss=1"
Serebreni, L.Pleyer, L.-M.Haberle, V.Hendy, O.Vlasova, A.Loubiere, V.Nemcko, F.Bergauer, K.Roitinger, E.Mechtler, K.Stark, A.2022-10-01doi:10.1101/2022.09.30.509643Cold Spring Harbor Laboratory Press2022-10-01
<![CDATA[
Robust and easy-to-use one pot workflow for label free single cell proteomics
]]>
https://biorxiv.org/cgi/content/short/2022.10.03.510693v1?rss=1"
Matzinger, M.Mueller, E.Duernberger, G.Pichler, P.Mechtler, K.2022-10-03doi:10.1101/2022.10.03.510693Cold Spring Harbor Laboratory Press2022-10-03
<![CDATA[
A fast and versatile method for simultaneous HCR, immunohistochemistry and EdU labeling (SHInE)
]]>
https://biorxiv.org/cgi/content/short/2022.10.13.512152v1?rss=1"
Coric, A.Stockinger, A. W.Schaffer, P.Rokvic, D.Tessmar-Raible, K.Raible, F.2022-10-14doi:10.1101/2022.10.13.512152Cold Spring Harbor Laboratory Press2022-10-14
<![CDATA[
SORORIN is an evolutionary conserved antagonist of WAPL
]]>
https://biorxiv.org/cgi/content/short/2022.10.24.513534v1?rss=1"
Prusen Mota, I.Galova, M.Schleiffer, A.Nguyentan, T.-t.Kovacikova, I.Nishiyama, T.Gregan, J.Peters, J.-M.Schlogelhofer, P.2022-10-24doi:10.1101/2022.10.24.513534Cold Spring Harbor Laboratory Press2022-10-24
<![CDATA[
Cryo-EM structure of the chain-elongating E3 ligase UBR5
]]>
https://biorxiv.org/cgi/content/short/2022.11.03.515015v1?rss=1"
Hodakova, Z.Grishkovskaya, I.Brunner, H. L.Bolhuis, D. L.Belacic, K.Schleiffer, A.Kotisch, H.Brown, N. G.Haselbach, D.2022-11-04doi:10.1101/2022.11.03.515015Cold Spring Harbor Laboratory Press2022-11-04
<![CDATA[
Widespread regulatory specificities between transcriptional corepressors and enhancers in Drosophila
]]>
https://biorxiv.org/cgi/content/short/2022.11.07.515017v1?rss=1"
Jacobs, J.Pagani, M.Wenzl, C.Stark, A.2022-11-07doi:10.1101/2022.11.07.515017Cold Spring Harbor Laboratory Press2022-11-07
<![CDATA[
Epigenetic variation in the Lombardy poplar along climatic gradients is independent of genetic structure and persists across clonal reproduction
]]>
https://biorxiv.org/cgi/content/short/2022.11.17.516862v1?rss=1"
Diez Rodriguez, B.Galanti, D.Nunn, A.Pena-Ponton, C.Perez-Bello, P.Sammarco, I.Jandrasits, K.Becker, C.De Paoli, E.Verhoeven, K. J. F.Opgenoorth, L.Heer, K.2022-11-17doi:10.1101/2022.11.17.516862Cold Spring Harbor Laboratory Press2022-11-17
<![CDATA[
Chromatin states at homeoprotein loci distinguish axolotl limb segments prior to regeneration
]]>
https://biorxiv.org/cgi/content/short/2022.11.14.516253v1?rss=1"
Kawaguchi, A.Wang, J.Knapp, D.Murawala, P. M.Nowoshilow, S.Masselink, W.Taniguchi-Sugiura, Y.Fei, J.Tanaka, E. M.2022-11-15doi:10.1101/2022.11.14.516253Cold Spring Harbor Laboratory Press2022-11-15
<![CDATA[
Exploration of mechanisms of drug resistance by polyaneuploid cancer cells in a microfluidic device and patient tissues
]]>
https://biorxiv.org/cgi/content/short/2022.11.14.515727v1?rss=1"
Lim, W.Hwang, I.Zhang, J.Chen, Z.Jeonghun, J.Koo, B.-K.Kim, S.Lee, J. E.Pienta, K. j.Amend, S. R.Austin, R. H.Ahn, J.-Y.Park, S.2022-11-16doi:10.1101/2022.11.14.515727Cold Spring Harbor Laboratory Press2022-11-16
<![CDATA[
Integrated transcriptome and proteome analysis in human brain organoids reveals translational regulation of ribosomal proteins.
]]>
https://biorxiv.org/cgi/content/short/2022.10.07.511280v1?rss=1"
Sidhaye, J.Trepte, P.Sepke, N.Novatchkova, M.Schutzbier, M.Duernberger, G.Mechtler, K.Knoblich, J. A.2022-10-07doi:10.1101/2022.10.07.511280Cold Spring Harbor Laboratory Press2022-10-07
<![CDATA[
Precision RNAi using synthetic shRNAmir target sites
]]>
https://biorxiv.org/cgi/content/short/2022.11.24.517802v1?rss=1"
Hoffmann, T.Hörmann, A.Corcokovic, M.Zmajkovic, J.Hinterndorfer, M.Salkanovic, J.Spreitzer, F.Köferle, A.Gitschtaler, K.Popa, A.Oberndorfer, S.Andersch, F.Schaefer, M.Fellner, M.Budano, N.Ruppert, J. G.Chetta, P.Wurm, M.Zuber, J.Neumüller, R. A.2022-11-25doi:10.1101/2022.11.24.517802Cold Spring Harbor Laboratory Press2022-11-25
<![CDATA[
Cross-species analysis identifies conserved transcriptional mechanisms of neutrophil maturation
]]>
https://biorxiv.org/cgi/content/short/2022.11.28.518146v1?rss=1"
View larger version (37K):
org.highwire.dtl.DTLVardef@d46deaorg.highwire.dtl.DTLVardef@7c2647org.highwire.dtl.DTLVardef@b535eeorg.highwire.dtl.DTLVardef@e7dc38_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Kirchberger, S.Shoeb, M. R.Lazic, D.Fischer, K.Shaw, L. E.Nogueira, F.Rifatbegovic, F.Bozsaky, E.Ladenstein, R.Bodenmiller, B.Lion, T.Traver, D.Farlik, M.Taschner-Mandl, S.Halbritter, F.Distel, M.2022-11-28doi:10.1101/2022.11.28.518146Cold Spring Harbor Laboratory Press2022-11-28
<![CDATA[
On the Causes of Gene-Body Methylation Variation in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2022.12.04.519028v1?rss=1"
Pisupati, R.Nizhynska, V.Molla Morales, A.Nordborg, M.2022-12-04doi:10.1101/2022.12.04.519028Cold Spring Harbor Laboratory Press2022-12-04
<![CDATA[
Scavenger receptor endocytosis controls apical membrane morphogenesis in the Drosophila airways
]]>
https://biorxiv.org/cgi/content/short/2022.12.02.518820v1?rss=1"
Pinheiro, A. S.Tsarouhas, V.Senti, K. A.Arefin, B.Samakovlis, C.2022-12-05doi:10.1101/2022.12.02.518820Cold Spring Harbor Laboratory Press2022-12-05
<![CDATA[
Morphogenesis and development of human telencephalic organoids in the absence and presence of exogenous ECM
]]>
https://biorxiv.org/cgi/content/short/2022.12.06.519271v1?rss=1"
Martins-Costa, C.Pham, V.Sidhaye, J.Novatchkova, M.Peer, A.Moeseneder, P.Corsini, N. S.Knoblich, J. A.2022-12-07doi:10.1101/2022.12.06.519271Cold Spring Harbor Laboratory Press2022-12-07
<![CDATA[
A hormone-activated mobile RNAi pathway defends plant stem cells from virus infection
]]>
https://biorxiv.org/cgi/content/short/2022.12.18.520928v1?rss=1"
Incarbone, M.Bradamante, G.Pruckner, F.Wegscheider, T.Rozhon, W.Nguyen, V.Gutzat, R.Lendl, T.MacFarlane, S.Nodine, M.Scheid, O. M.2022-12-19doi:10.1101/2022.12.18.520928Cold Spring Harbor Laboratory Press2022-12-19
<![CDATA[
A pan-cnidarian microRNA is an ancient biogenesis regulator of stinging cells
]]>
https://biorxiv.org/cgi/content/short/2022.12.15.520629v1?rss=1"
600 million years ago in the phylum Cnidaria (sea anemones, corals, hydroids, and jellyfish). A complex bursting nano-injector of venom, the cnidocyst, is embedded in cnidocytes and enables cnidarians paralyzing prey and predators, contributing to this phylums evolutionary success. In this work, we show that post-transcriptional regulation by a pan-cnidarian microRNA, miR-2022, is essential for biogenesis of these cells. By manipulation of miR-2022 levels in a transgenic reporter line of cnidocytes in the sea anemone Nematostella vectensis, followed by transcriptomics, single-cell data analysis, prey paralysis assays, and cell sorting of transgenic cnidocytes, we reveal that miR-2022 enables cnidocyte biogenesis, while exhibiting a conserved expression domain with its targets in cnidocytes of other cnidarian species. Thus, here we reveal one of natures most ancient microRNA-regulated processes by studying the functional basis for its conservation.
]]>Fridrich, A.Salinas-Saavedra, M.Kozlovski, I.Surm, J. M.Chrysostomou, E.Tripathi, A. M.Frank, U.Moran, Y.2022-12-19doi:10.1101/2022.12.15.520629Cold Spring Harbor Laboratory Press2022-12-19
<![CDATA[
CBFA2T3-GLIS2-dependent pediatric acute megakaryoblastic leukemia is driven by GLIS2 and sensitive to Navitoclax
]]>
https://biorxiv.org/cgi/content/short/2022.12.16.520129v1?rss=1"
Neault, M.Lebert-Ghali, C.-E.Fournier, M.Capdevielle, C.Garfinkle, E. A. R.Obermayer, A.Cotton, A.Boulay, K.Sawchyn, C.Nguyen, K. H.Assaf, B.Mercier, F. E.Delisle, J.-S.Drobetsky, E. A.Hulea, L.Shaw, T. I.Zuber, J.Gruber, T. A.Melichar, H. J.Mallette, F. A.2022-12-19doi:10.1101/2022.12.16.520129Cold Spring Harbor Laboratory Press2022-12-19
<![CDATA[
The molecular clock in long-lived tropical trees is independent of growth rate
]]>
https://biorxiv.org/cgi/content/short/2023.01.26.525665v1?rss=1"
Imai, R.Fujino, T.Tomimoto, S.Ohta, K.Na'iem, M.Indrioko, S.Widiyatno,Purnomo, S.Morales, A. M.Nizhynska, V.Tani, N.Suyama, Y.Sasaki, E.Kasahara, M.Satake, A.2023-01-27doi:10.1101/2023.01.26.525665Cold Spring Harbor Laboratory Press2023-01-27
<![CDATA[
Mast cell-derived BH4 is a critical mediator of postoperative pain
]]>
https://biorxiv.org/cgi/content/short/2023.01.24.525378v1?rss=1"
Starkl, P.Jonsson, G.Artner, T. J.Turnes, B. L.Serhan, N.Oliveira, T.Gail, L.-M.Stejskal, K.Channon, K.Kocher, T.Stary, G.Klang, V.Gaudenzio, N.Knapp, S.Woolf, C. J.Penninger, J. M.Cronin, S. J. F.2023-01-24doi:10.1101/2023.01.24.525378Cold Spring Harbor Laboratory Press2023-01-24
<![CDATA[
A versatile CRISPR-based system for lineage tracing in living plants
]]>
https://biorxiv.org/cgi/content/short/2023.02.09.527713v1?rss=1"
Dona, M.Bradamante, G.Bogojevic, Z.Gutzat, R.Streubel, S.Mosiolek, M.Dolan, L.Mittelsten Scheid, O.2023-02-10doi:10.1101/2023.02.09.527713Cold Spring Harbor Laboratory Press2023-02-10
<![CDATA[
The junctions connecting the endoplasmic reticulum to the nuclear envelope are constricted and remodelled during the cell cycle
]]>
https://biorxiv.org/cgi/content/short/2023.01.31.526419v1?rss=1"
Bragulat-Teixidor, H.Ishihara, K.Szucs, G. M.Otsuka, S.2023-02-01doi:10.1101/2023.01.31.526419Cold Spring Harbor Laboratory Press2023-02-01
<![CDATA[
Interplay between PLEKHG3-regulated actin dynamics and lysosomal trafficking in cell motility
]]>
https://biorxiv.org/cgi/content/short/2023.02.01.526449v1?rss=1"
Ettelt, R.Didusch, S.Vucak, G.Riemelmoser, B.Ehrenreiter, K.Hartl, M.Huber, L.Baccarini, M.2023-02-01doi:10.1101/2023.02.01.526449Cold Spring Harbor Laboratory Press2023-02-01
<![CDATA[
Short structural variation fuelled CAM evolution within an explosive bromeliad radiation
]]>
https://biorxiv.org/cgi/content/short/2023.02.01.526631v1?rss=1"
Groot Crego, C.Hess, J.Yardeni, G.de la Harpe, M.Beclin, F.Cauz-Santos, L. A.Saadain, S.Barbara, T.Temsch, E. M.Weiss-Schneeweiss, H.Barfuss, M. H. J.Till, W.Heyduk, K.Lexer, C.Paun, O.Leroy, T.2023-02-03doi:10.1101/2023.02.01.526631Cold Spring Harbor Laboratory Press2023-02-03
<![CDATA[
Red2Flpe-SCON: A Versatile, Multicolor Strategy for Generating Mosaic Conditional Knockout Mice
]]>
https://biorxiv.org/cgi/content/short/2023.02.09.527641v1?rss=1"
Wu, S.-H. S.Kim, S.Lee, H.Lee, J.-H.Colozza, G.Park, S.-Y.Bakonyi, R.Teriyapirom, I.Hallay, N.Pilat-Carrota, S.Theussl, H.-C.Kim, J.Lee, J.-H.Simons, B. D.Kim, J. K.Koo, B.-K.2023-02-09doi:10.1101/2023.02.09.527641Cold Spring Harbor Laboratory Press2023-02-09
<![CDATA[
A bench-top dark-root device built with LEGO bricks enables a non-invasive plant root development analysis in soil conditions mirroring nature
]]>
https://biorxiv.org/cgi/content/short/2023.02.12.528178v1?rss=1"
Dermendjiev, G.Schnurer, M.Stewart, E.Naegele, T.Marino, G.Leister, D.Thuer, A.Plott, S.Jez, J.Ibl, V.2023-02-13doi:10.1101/2023.02.12.528178Cold Spring Harbor Laboratory Press2023-02-13
<![CDATA[
Pairtools: from sequencing data to chromosome contacts
]]>
https://biorxiv.org/cgi/content/short/2023.02.13.528389v1?rss=1"
Open2C,Abdennur, N.Fudenberg, G.Flyamer, I. M.Galitsyna, A. A.Goloborodko, A.Imakaev, M.Venev, S. V.2023-02-15doi:10.1101/2023.02.13.528389Cold Spring Harbor Laboratory Press2023-02-15
<![CDATA[
Cell-cycle status of male and female gametes during Arabidopsis reproduction
]]>
https://biorxiv.org/cgi/content/short/2023.02.22.529524v1?rss=1"
Voichek, Y.Hurieva, B.Michaud, C.Schmücker, A.Vergara, Z.Desvoyes, B.Gutierrez, C.Nizhynska, V.Jaegle, B.Borg, M.Berger, F.Nordborg, M.Ingouff, M.2023-02-23doi:10.1101/2023.02.22.529524Cold Spring Harbor Laboratory Press2023-02-23
<![CDATA[
Heat stress response and transposon control in plant shoot stem cells
]]>
https://biorxiv.org/cgi/content/short/2023.02.24.529891v1?rss=1"
Nguyen, V. H.Mittelsten Scheid, O.Gutzat, R.2023-02-26doi:10.1101/2023.02.24.529891Cold Spring Harbor Laboratory Press2023-02-26
<![CDATA[
Population-level annotation of lncRNAs in Arabidopsis thaliana reveals extensive expression and epigenetic variability associated with TE-like silencing
]]>
https://biorxiv.org/cgi/content/short/2023.03.14.532599v1?rss=1"
Kornienko, A. E.Nizhynska, V.Molla Morales, A.Pisupati, R.Nordborg, M.2023-03-15doi:10.1101/2023.03.14.532599Cold Spring Harbor Laboratory Press2023-03-15
<![CDATA[
Long non-coding RNAs contribute to DNA damage resistance in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2023.03.20.533408v1?rss=1"
Durut, N.Kornienko, A. E.Schmidt, H. A.Lettner, N.Dona, M.Nordborg, M.Mittelsten Scheid, O.2023-03-20doi:10.1101/2023.03.20.533408Cold Spring Harbor Laboratory Press2023-03-20
<![CDATA[
Acquired epithelial WNT secretion drives niche independence of developing gastric cancer
]]>
https://biorxiv.org/cgi/content/short/2023.02.24.529854v1?rss=1"
Teriyapirom, I.Kim, J.Lee, H.Merker, S. R.Andersson-Rolf, A.Jahn, S. R.Ada, A.-M.Kim, S.-M.Lim, J. Y.Schmaeche, T.Wetterling, N.Stegert, S.Park, J.-Y.Cheong, J.-H.Kim, H.Stange, D. E.Koo, B.-K.2023-02-27doi:10.1101/2023.02.24.529854Cold Spring Harbor Laboratory Press2023-02-27
<![CDATA[
mRNA decapping machinery targets LBD3/ASL9 transcripts to allow developmental changes in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2022.07.06.499076v1?rss=1"
Zuo, Z.Roux, M. E.Chevalier, J.Dagdas, Y.Yamashino, T.Hojgaard, S. D.Knight, E.Ostergaard, L.Rodriguez, E.petersen, m.2022-07-07doi:10.1101/2022.07.06.499076Cold Spring Harbor Laboratory Press2022-07-07
<![CDATA[
Development and Application of Home Cage Monitoring in Laboratory Mice and Rats: a Systematic Review
]]>
https://biorxiv.org/cgi/content/short/2023.03.07.531465v1?rss=1"
Kahnau, P.Mieske, P.Wilzopolski, J.Kalliokoski, O.Mandillo, S.Hölter, S. M.Voikar, V.Amfim, A.Badurek, S.Bartelik, A.Caruso, A.Cater, M.Ey, E.Golini, E.Jaap, A.Hrncic, D.Kiryk, A.Lang, B.Loncarevic-Vasiljkovic, N.Meziane, H.Radzeviciene, A.Rivalan, M.Scattoni, M. L.Torquet, N.Trifkovic, J.Ulfhake, B.Thöne-Reineke, C.Diederich, K.Lewejohann, L.Hohlbaum, K.2023-03-08doi:10.1101/2023.03.07.531465Cold Spring Harbor Laboratory Press2023-03-08
<![CDATA[
The Drug Repurposing Encyclopedia (DRE): a web server for systematic drug repurposing across 20 organisms
]]>
https://biorxiv.org/cgi/content/short/2023.03.10.532084v1?rss=1"
Li, X.Sanchez-Burgos, L.Huhn, D.Fernandez-Capetillo, O.2023-03-12doi:10.1101/2023.03.10.532084Cold Spring Harbor Laboratory Press2023-03-12
<![CDATA[
GSE1 links the HDAC1/CoREST co-repressor complex to DNA damage
]]>
https://biorxiv.org/cgi/content/short/2023.03.13.532402v1?rss=1"
Vcelkova, T.Reiter, W.Zylka, M.Hollenstein, D. M.Schuckert, S.Hartl, M.Seiser, C.2023-03-13doi:10.1101/2023.03.13.532402Cold Spring Harbor Laboratory Press2023-03-13
<![CDATA[
Mechanistic basis for oxidative stress protection of the human tRNA ligase complex by the oxidoreductase PYROXD1
]]>
https://biorxiv.org/cgi/content/short/2023.04.06.535761v1?rss=1"
Loeff, L.Kroupova, A.Asanovic, I.Boneberg, F. M.Pfleiderer, M. M.Ferdigg, A.Ackle, F.Martinez, J.Jinek, M.2023-04-08doi:10.1101/2023.04.06.535761Cold Spring Harbor Laboratory Press2023-04-08
<![CDATA[
TIS7 and SKMc15 Regulate Adipocyte Differentiation and Intestinal Lipid Absorption
]]>
https://biorxiv.org/cgi/content/short/719922v1?rss=1"
View larger version (47K):
org.highwire.dtl.DTLVardef@77d89corg.highwire.dtl.DTLVardef@2e0ad4org.highwire.dtl.DTLVardef@c923fdorg.highwire.dtl.DTLVardef@159d117_HPS_FORMAT_FIGEXP M_FIG C_FIG This study uncovered that IFRD1 (TIS7) and its orthologue IFRD2 (SKMc15) are two essential regulators of adipogenesis. These proteins are highly similar on the sequence level, yet they regulate adipocyte differentiation using different but complementary mechanisms. Our main findings are: O_LIIFRD1 (TIS7) and IFRD2 (SKMc15) knockout mice are resistant against diet-induced obesity
C_LIO_LIIFRD1 (TIS7) and IFRD2 (SKMc15) are critical for proper nutritional fat uptake and adipogenesis
C_LIO_LIIFRD1 (TIS7) controls adipogenesis via Wnt/{beta}-catenin-dependent transcriptional regulation of adipocyte-specific genes
C_LIO_LIIFRD2 (SKMc15) regulates adipocyte-specific genes acting as a novel general translational inhibitor
C_LI
]]>Vietor, I.Cikes, D.Piironen, K.Gstir, R.Tancevski, I.Eller, P.Demetz, E.Hess, M.Kuhn, V.Degenhart, G.Rainer, J.Rozman, J.Klingenspor, M.Hrabe de Angelis, M.Valovka, T.Huber, L. A.2019-07-30doi:10.1101/719922Cold Spring Harbor Laboratory Press2019-07-30
<![CDATA[
RIF1 regulates replication origin activity and early replication timing in B cells
]]>
https://biorxiv.org/cgi/content/short/2023.03.31.535086v1?rss=1"
Malzl, D.Peycheva, M.Rahjouei, A.Gnan, S.Klein, K.Nazarova, M.Schoeberl, U. E.Gilbert, D. M.Buonomo, S.Di Virgilio, M.Neumann, T.Pavri, R.2023-03-31doi:10.1101/2023.03.31.535086Cold Spring Harbor Laboratory Press2023-03-31
<![CDATA[
Targeting the catalytic activity of HDAC1 in T cells protects against experimental autoimmune encephalomyelitis
]]>
https://biorxiv.org/cgi/content/short/2023.04.14.536700v1?rss=1"
Zhu, C.Stolz, V.Simonovic, N.Al-Rubaye, O.Vcelkova, T.Moos, V.Hess, L.Hagelkrueys, A.Madern, M.Reiter, W.Meixner, A.Bock, C.Hartl, M.Ellmeier, W.Seiser, C.2023-04-14doi:10.1101/2023.04.14.536700Cold Spring Harbor Laboratory Press2023-04-14
<![CDATA[
A high-sensitivity low-nanoflow LC-MS configuration for high-throughput sample-limited proteomics
]]>
https://biorxiv.org/cgi/content/short/2023.04.27.538542v1?rss=1"
Zheng, R.Matzinger, M.Mayer, R. L.Valenta, A.Sun, X.Mechtler, K.2023-04-27doi:10.1101/2023.04.27.538542Cold Spring Harbor Laboratory Press2023-04-27
<![CDATA[
BrainTACO: An Explorable Multi-Scale Multi-Modal Brain Transcriptomic And Connectivity Data Resource
]]>
https://biorxiv.org/cgi/content/short/2023.04.18.537294v1?rss=1"
Ganglberger, F. J.Toepfer, M.Kargl, D.Hernandez-Lallement, J.Lawless, N.Fernandez-Albert, F.Haubensak, W.Buehler, K.2023-04-19doi:10.1101/2023.04.18.537294Cold Spring Harbor Laboratory Press2023-04-19
<![CDATA[
Protein compactness and interaction valency define the architecture of a biomolecular condensate across scales
]]>
https://biorxiv.org/cgi/content/short/2022.02.18.481017v1?rss=1"
Polyansky, A. A.Gallego, L. D.Efremov, R. G.Koehler, A.Zagrovic, B.2022-02-19doi:10.1101/2022.02.18.481017Cold Spring Harbor Laboratory Press2022-02-19
<![CDATA[
Simultaneous enhancement of multiple functional properties using evolution-informed protein design
]]>
https://biorxiv.org/cgi/content/short/2023.05.09.539914v1?rss=1"
Fram, B.Truebridge, I.Su, Y.Riesselman, A. J.Ingraham, J. B.Passera, A.Napier, E.Thadani, N. N.Lim, S.Roberts, K.Kaur, G.Stiffler, M.Marks, D. S.Bahl, C. D.Kahn, A. R.Sander, C.Gauthier, N. P.2023-05-09doi:10.1101/2023.05.09.539914Cold Spring Harbor Laboratory Press2023-05-09
<![CDATA[
Pseudorabies virus hijacks DDX3X, initiating an addictive 'mad itch' and immune suppression, to facilitate viral spread.
]]>
https://biorxiv.org/cgi/content/short/2023.05.09.539956v1?rss=1"
Cronin, S. J. F.Tejeda, M. A.Song, R.Laval, K.Cikes, D.Ji, M.Brai, A.Stadlmann, J.Novatchikova, M.Perlot, T.Ali, O. H.Botta, L.Decker, T.Lazovic, J.Hagelkruys, A.Enquist, L.Rao, S.Koyuncu, O. O.Penninger, J. M.2023-05-09doi:10.1101/2023.05.09.539956Cold Spring Harbor Laboratory Press2023-05-09
<![CDATA[
Histone variants shape the chromatin states in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2023.03.08.531698v1?rss=1"
Jamge, B.Lorkovic, Z. J.Axelsson, E.Osakabe, A.Shukla, V.Yelagandula, R.Akimcheva, S.Khuen, A. L.Berger, F.2023-03-10doi:10.1101/2023.03.08.531698Cold Spring Harbor Laboratory Press2023-03-10
<![CDATA[
Epigenetic reprogramming of imprinting at meiosis
]]>
https://biorxiv.org/cgi/content/short/2023.05.17.541143v1?rss=1"
Montgomery, S. A.Berger, F.2023-05-17doi:10.1101/2023.05.17.541143Cold Spring Harbor Laboratory Press2023-05-17
<![CDATA[
Co-evolution of functional motifs and H2A.X in the context of DNA damage response identifies the plant Mediator of DNA Damage Checkpoint 1
]]>
https://biorxiv.org/cgi/content/short/2023.05.19.541430v1?rss=1"
Lorkovic, Z. J.Klingenbrunner, M.Cho, C. H.Berger, F.2023-05-19doi:10.1101/2023.05.19.541430Cold Spring Harbor Laboratory Press2023-05-19
<![CDATA[
ROP GTPase regulates polarised cell growth and cell division orientation during tissue development and organogenesis in Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2023.05.23.541913v1?rss=1"
Mulvey, H.Dolan, L.2023-05-23doi:10.1101/2023.05.23.541913Cold Spring Harbor Laboratory Press2023-05-23
<![CDATA[
Tip of the iceberg? Three novel TOPLESS interacting effectors of the gall-inducing fungus Ustilago maydis
]]>
https://biorxiv.org/cgi/content/short/2023.06.12.544640v1?rss=1"
Khan, M.Uhse, S.Bindics, J.Kogelmann, B.Nagarajan, N.Ingole, K. D.Djamei, A.2023-06-13doi:10.1101/2023.06.12.544640Cold Spring Harbor Laboratory Press2023-06-13
<![CDATA[
ATP binding cassette transporters and uridine diphosphate glycosyltransferases are ancient protein families that evolved roles in herbicide resistance through exaptation
]]>
https://biorxiv.org/cgi/content/short/2023.06.06.543864v1?rss=1"
Caygill, S.Dolan, L.2023-06-07doi:10.1101/2023.06.06.543864Cold Spring Harbor Laboratory Press2023-06-07
<![CDATA[
Somatic hypermutation spectra are independent of the local transcriptional and epigenetic landscape
]]>
https://biorxiv.org/cgi/content/short/2022.05.21.492925v1?rss=1"
Schoeberl, U. E.Fitz, J.Froussios, K.Valieris, R.Makharova, M.Ourailidis, I.Bauer, B.Neumann, T.Wiedemann, E.-M.Steininger, M.Garcia, A. C.Mastrovito, M.Mouquet, H.Silva, I.Pavri, R.2022-05-21doi:10.1101/2022.05.21.492925Cold Spring Harbor Laboratory Press2022-05-21
<![CDATA[
Evolutionary conservation of embryonic DNA methylome remodelling in distantly related teleost species
]]>
https://biorxiv.org/cgi/content/short/2023.05.24.542066v1?rss=1"
Ross, S. E.Vazquez-Marin, J.Gert, K. R. B.Gonzalez-Rajal, A.Dinger, M. E.Pauli, A.Martinez-Morales, J. R.Bogdanovic, O.2023-05-24doi:10.1101/2023.05.24.542066Cold Spring Harbor Laboratory Press2023-05-24
<![CDATA[
Thioredoxin regulates the redox state and the activity of the human tRNA ligase complex
]]>
https://biorxiv.org/cgi/content/short/2023.05.26.542437v1?rss=1"
Jaksch, D.Irnstorfer, J.Kalman, P.-F.Martinez, J. A.2023-05-26doi:10.1101/2023.05.26.542437Cold Spring Harbor Laboratory Press2023-05-26
<![CDATA[
Structural evidence for elastic tethers connecting separating chromosomes in crane-fly spermatocytes
]]>
https://biorxiv.org/cgi/content/short/2023.05.28.541924v1?rss=1"
Forer, A.Otsuka, S.2023-05-28doi:10.1101/2023.05.28.541924Cold Spring Harbor Laboratory Press2023-05-28
<![CDATA[
Delay of human early development via in vitro diapause
]]>
https://biorxiv.org/cgi/content/short/2023.05.29.541316v1?rss=1"
Bulut-Karslioglu, A.Iyer, D.van der Weijden, V.Heidari Khoei, H.McCarthy, A.Rayon, T.Simon, C.Dunkel, I.Wamaitha, S.Schulz, E.Niakan, K.Rivron, N. C.2023-05-29doi:10.1101/2023.05.29.541316Cold Spring Harbor Laboratory Press2023-05-29
<![CDATA[
eIF4E1b is a non-canonical eIF4E required for maternal mRNA dormancy
]]>
https://biorxiv.org/cgi/content/short/2023.06.10.544440v1?rss=1"
Lorenzo-Orts, L.Strobl, M.Steinmetz, B.Leesch, F.Pribitzer, C.Schutzbier, M.Duernberger, G.Pauli, A.2023-06-10doi:10.1101/2023.06.10.544440Cold Spring Harbor Laboratory Press2023-06-10
<![CDATA[
Sea anemone genomes reveal ancestral metazoan chromosomal macrosynteny
]]>
https://biorxiv.org/cgi/content/short/2020.10.30.359448v1?rss=1"
Zimmermann, B.Robb, S. M. C.Genikhovich, G.Fropf, W. J.Weilguny, L.He, S.Chen, S.Lovegrove-Walsh, J.Hill, E. M.Ragkousi, K.Praher, D.Fredman, D.Moran, Y.Gibson, M. C.Technau, U.2020-10-30doi:10.1101/2020.10.30.359448Cold Spring Harbor Laboratory Press2020-10-30
<![CDATA[
AI-guided pipeline for protein-protein interaction drug discovery identifies a SARS-CoV-2 inhibitor
]]>
https://biorxiv.org/cgi/content/short/2023.06.14.544560v1?rss=1"
Trepte, P.Secker, C.Kostova, S.Maseko, S. B.Choi, S. G.Blavier, J.Minia, I.Silva Ramos, E.Cassonnet, P.Golusik, S.Zenkner, M.Beetz, S.Liebich, M. J.Scharek, N.Schuetz, A.Sperling, M.Lisurek, M.Wang, Y.Spirohn, K.Hao, T.Calderwood, M. A.Hill, D. E.Landthaler, M.Olivet, J.Twizere, J.-C.Vidal, M.Wanker, E. E.2023-06-14doi:10.1101/2023.06.14.544560Cold Spring Harbor Laboratory Press2023-06-14
<![CDATA[
The chromatin landscape of bryophytes
]]>
https://biorxiv.org/cgi/content/short/2022.10.21.513199v1?rss=1"
Hisanaga, T.Wu, S.Axelsson, E.Akimcheva, S.Dolan, L.Berger, F.2022-10-21doi:10.1101/2022.10.21.513199Cold Spring Harbor Laboratory Press2022-10-21
<![CDATA[
A RabGAP-Rab GTPase pair regulates plant autophagy and immunity
]]>
https://biorxiv.org/cgi/content/short/2023.07.03.547386v1?rss=1"
Yuen, E. L. H.Leary, A. Y.Clavel, M.Tumtas, Y.Mohseni, A.Picchianti, L.Jamshidiha, M.Pandey, P.Duggan, C.Cota, E.Dagdas, Y.Bozkurt, T. O.2023-07-03doi:10.1101/2023.07.03.547386Cold Spring Harbor Laboratory Press2023-07-03
<![CDATA[
Molecular and structural basis of the heterochromatin-specific chromatin remodeling activity by Arabidopsis DDM1
]]>
https://biorxiv.org/cgi/content/short/2023.07.10.548306v1?rss=1"
Osakabe, A.Takizawa, Y.Horikoshi, N.Hatazawa, S.Negishi, L.Berger, F.Kakutani, T.Kurumizaka, H.2023-07-10doi:10.1101/2023.07.10.548306Cold Spring Harbor Laboratory Press2023-07-10
<![CDATA[
Clonal neural tube organoids self-organise floorplate through BMP-mediated cluster competition
]]>
https://biorxiv.org/cgi/content/short/2023.06.25.546258v1?rss=1"
Krammer, T.Stuart, H. T.Gromberg, E.Ishihara, K.Melchionda, M.Wang, J.Costantini, E.Lehr, S.Cislo, D.Arbanas, L.Hoermann, A.Neumueller, R. A.Elvassore, N.Siggia, E.Briscoe, J.Kicheva, A.Tanaka, E. M.2023-06-26doi:10.1101/2023.06.25.546258Cold Spring Harbor Laboratory Press2023-06-26
<![CDATA[
A method for deep and quantitative protein profiling of urine sediment, soluble and exosome fractions for biomarker research
]]>
https://biorxiv.org/cgi/content/short/2023.06.26.546632v1?rss=1"
Pichler, P.Kurnikowski, A.Matzinger, M.Mechtler, K.2023-06-28doi:10.1101/2023.06.26.546632Cold Spring Harbor Laboratory Press2023-06-28
<![CDATA[
Dynamic control of gene expression by ISGF3 and IRF1 duringIFNbeta and IFNgamma signaling
]]>
https://biorxiv.org/cgi/content/short/2023.06.28.546875v1?rss=1"
Ravi Sundar Jose Geetha, A.Fischer, K.Smesnik, G.Vogt, A.Platanitis, E.Muller, M.Farlik, M.Decker, T.2023-07-03doi:10.1101/2023.06.28.546875Cold Spring Harbor Laboratory Press2023-07-03
<![CDATA[
NOTCH3 signalling controls human trophoblast stem cell expansion and differentiation
]]>
https://biorxiv.org/cgi/content/short/2023.07.03.547490v1?rss=1"
Dietrich, B.Victoria, K.Lackner, A. I.Meinhardt, G.Koo, B.-K.Pollheimer, J.Haider, S.Knoefler, M.2023-07-03doi:10.1101/2023.07.03.547490Cold Spring Harbor Laboratory Press2023-07-03
<![CDATA[
In vivo single-cell CRISPR uncovers distinct TNF-alphaprograms in clonal expansion and tumorigenesis
]]>
https://biorxiv.org/cgi/content/short/2023.07.13.548697v1?rss=1"
Renz, P. F.Ghoshdastider, U.Baghai Sain, S.Valdivia-Francia, F.Khandekar, A.Ormiston, M.Bernasconi, M.Kretz, J. A.Lee, M.Hyams, K.Forny, M.Pohly, M.Ficht, X.Ellis, S. J.Moor, A. E.Sendoel, A.2023-07-14doi:10.1101/2023.07.13.548697Cold Spring Harbor Laboratory Press2023-07-14
<![CDATA[
Autophagy restricts fungal accommodation in the roots ofArabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2023.07.21.550010v1?rss=1"
Zecua-Ramirez, P.Llamas, E.Charura, N.Dunken, N.De Quattro, C.Mandel, A.Langen, G.Dagdas, Y.Zuccaro, A.2023-07-21doi:10.1101/2023.07.21.550010Cold Spring Harbor Laboratory Press2023-07-21
<![CDATA[
Oryza genera-specific novel Histone H4 variant predisposes H4 Lysine5 Acetylation marks to modulate salt stress responses
]]>
https://biorxiv.org/cgi/content/short/2023.07.31.551207v1?rss=1"
View larger version (53K):
org.highwire.dtl.DTLVardef@101fa0forg.highwire.dtl.DTLVardef@c7fda9org.highwire.dtl.DTLVardef@1de9a0aorg.highwire.dtl.DTLVardef@1532641_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>G, V. H. S.Sotelo-Parrilla, P.Raju, S.Jha, S.Gireesh, A.Gut, F.Kutti, V. R.Berger, F.Jeyaprakash, A. A.Shivaprasad, P. V.2023-08-01doi:10.1101/2023.07.31.551207Cold Spring Harbor Laboratory Press2023-08-01
<![CDATA[
RIF1 acts as a gatekeeper of B cell identity during late differentiation
]]>
https://biorxiv.org/cgi/content/short/2023.07.18.549543v1?rss=1"
Rahjouei, A.Kabrani, E.Berruezo-Llacuna, M.Altwasser, R.Delgado-Benito, V.Pavri, R.Di Virgilio, M.2023-07-19doi:10.1101/2023.07.18.549543Cold Spring Harbor Laboratory Press2023-07-19
<![CDATA[
A conserved fertilization complex of Izumo1, Spaca6, and Tmem81 mediates sperm-egg interaction in vertebrates
]]>
https://biorxiv.org/cgi/content/short/2023.07.27.550750v1?rss=1"
Deneke, V. E.Blaha, A.Lu, Y.Draper, J. M.Phan, C. S.Panser, K.Schleiffer, A.Jacob, L.Humer, T.Stejskal, K.Krssakova, G.Handler, D.Kamoshita, M.Vance, T. D. R.Roitinger, E.Lee, J. E.Ikawa, M.Pauli, A.2023-07-28doi:10.1101/2023.07.27.550750Cold Spring Harbor Laboratory Press2023-07-28
<![CDATA[
Modeling Kinetics of RNA RNA Interactions on Direct Paths
]]>
https://biorxiv.org/cgi/content/short/2023.07.28.548983v1?rss=1"
Waldl, M.Beckmann, I. K.Will, S.Hofacker, I. L.2023-07-29doi:10.1101/2023.07.28.548983Cold Spring Harbor Laboratory Press2023-07-29
<![CDATA[
Functional Adaptations of Endogenous Retroviruses to the Drosophila Host Underlie their Evolutionary Diversification
]]>
https://biorxiv.org/cgi/content/short/2023.08.03.551782v1?rss=1"
Senti, K.-A.Handler, D.Rafanel, B.Kosiol, C.Schloetterer, C.Brennecke, J.2023-08-04doi:10.1101/2023.08.03.551782Cold Spring Harbor Laboratory Press2023-08-04
<![CDATA[
Nucleolar stress caused by arginine-rich peptides triggers a ribosomopathy and accelerates ageing in mice
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https://biorxiv.org/cgi/content/short/2023.08.10.552792v1?rss=1"
Sirozh, O.Jung, B.Sanchez-Burgos, L.Ventoso, I.Lafarga, V.Fernandez-Capetillo, O.2023-08-11doi:10.1101/2023.08.10.552792Cold Spring Harbor Laboratory Press2023-08-11
<![CDATA[
PRDM16 co-operates with LHX2 to shape the human brain
]]>
https://biorxiv.org/cgi/content/short/2023.08.12.553065v1?rss=1"
Suresh, V.Bhattacharya, B.Tshuva, R. Y.Danan Gotthold, M.Olender, T.Bose, M.Ben Zeev, B.Smith, R. S.Pradhan, S. J.Tole, S.Galande, S.Harwell, C.Baizabal, M.Reiner, O.2023-08-12doi:10.1101/2023.08.12.553065Cold Spring Harbor Laboratory Press2023-08-12
<![CDATA[
BBSome-deficient cells activate intraciliary CDC42 to trigger actin-dependent ciliary ectocytosis
]]>
https://biorxiv.org/cgi/content/short/2023.08.13.553141v1?rss=1"
Prasai, A.Ivashchenko, O.Maskova, K.Cernohorska, M. S.Stepanek, O.Huranova, M.2023-08-14doi:10.1101/2023.08.13.553141Cold Spring Harbor Laboratory Press2023-08-14
<![CDATA[
Single-cell profiling uncovers regulatory programs of pathogenic Th2 cells in allergic asthma
]]>
https://biorxiv.org/cgi/content/short/2023.08.10.552772v1?rss=1"
Khan, M.Alteneder, M.Reiter, W.Krausgruber, T.Dobnikar, L.Madern, M.Waldherr, M.Bock, C.Hartl, M.Ellmeier, W.Henriksson, J.Boucheron, N.2023-08-14doi:10.1101/2023.08.10.552772Cold Spring Harbor Laboratory Press2023-08-14
<![CDATA[
Bacterial degradation of ctenophore Mnemiopsis leidyi organic matter
]]>
https://biorxiv.org/cgi/content/short/2023.08.14.553244v1?rss=1"
99%) to the MAG previously reconstructed in our A. aurita microcosm study. Taken together our data suggest that blooms of different gelatinous zooplankton are likely triggering a consistent response from natural bacterial communities, with specific bacterial lineages driving the remineralization of the gelatinous OM.
ImportanceJellyfish blooms are increasingly becoming a recurring seasonal event in marine ecosystems, characterised by a rapid build-up of gelatinous biomass that collapses rapidly. Although these blooms have the potential to cause major perturbations, their impact on marine microbial communities is largely unknown. We conducted an incubation experiment simulating a bloom of the ctenophore Mnemiopsis leidyi in the Northern Adriatic, where we investigated the bacterial response to the gelatinous biomass. We found that the bacterial communities actively degraded the gelatinous organic matter, and overall showed a striking similarity to the dynamics previously observed after a simulated bloom of the jellyfish Aurelia aurita s.l. In both cases we found that a single bacterial species, Pseudoalteromonas phenolica, was responsible for most of the degradation activity. This suggests that blooms of different jellyfish are likely to trigger a consistent response from natural bacterial communities, with specific bacterial species driving the remineralisation of gelatinous biomass.
]]>Fadeev, E.Hennenfeind, J. H.Amano-Sato, C.Zhao, Z.Klun, K.Herndl, G. J.Tinta, T.2023-08-14doi:10.1101/2023.08.14.553244Cold Spring Harbor Laboratory Press2023-08-14
<![CDATA[
Mutual homeostasis of charged proteins
]]>
https://biorxiv.org/cgi/content/short/2023.08.21.554177v1?rss=1"
Faraway, R.Heaven, N. C.Digby, H.Wilkins, O. G.Chakrabarti, A. M.Iosub, I. A.Knez, L.Ameres, S. L.Plaschka, C.Ule, J.2023-08-21doi:10.1101/2023.08.21.554177Cold Spring Harbor Laboratory Press2023-08-21
<![CDATA[
A cell-type atlas from a scyphozoan jellyfish Aurelia coerulea (formerly sp.1) provides insights into changes of cell-type diversity in the transition from polyps to medusae
]]>
https://biorxiv.org/cgi/content/short/2023.08.24.554571v1?rss=1"
Link, O.Jahnel, S. M.Janicek, K.Kraus, J.Montenegro, J. D.Zimmerman, B.Cole, A. G.Technau, U.2023-08-26doi:10.1101/2023.08.24.554571Cold Spring Harbor Laboratory Press2023-08-26
<![CDATA[
Repair of DNA double-strand breaks leaves heritable impairment to genome function
]]>
https://biorxiv.org/cgi/content/short/2023.08.29.555258v1?rss=1"
Bantele, S. C.Mordini, I.Biran, A.Alcaraz, N.Wenger, A.Krietenstein, N.Groth, A.Lukas, J.2023-08-29doi:10.1101/2023.08.29.555258Cold Spring Harbor Laboratory Press2023-08-29
<![CDATA[
Control of cell fate specification and patterning by an ancestral microRNA
]]>
https://biorxiv.org/cgi/content/short/2023.09.09.556951v1?rss=1"
Aguilar-Cruz, A.Flores-Sandoval, E.Gutierrez-Ramos, X.Oltehua-Lopez, O.Dorantes-Acosta, A. E.Trujillo, J. T.Kato, H.Ishizaki, K.Mosher, R. A.Dolan, L.Grimanelli, D.Haseloff, J.Bowman, J. L.Arteaga-Vazquez, M. A.2023-09-11doi:10.1101/2023.09.09.556951Cold Spring Harbor Laboratory Press2023-09-11
<![CDATA[
Widespread transcriptional regulation from within transcribed regions in plants
]]>
https://biorxiv.org/cgi/content/short/2023.09.15.557872v1?rss=1"
Voichek, Y.Hristova, G.Molla-Morales, A.Weigel, D.Nordborg, M.2023-09-17doi:10.1101/2023.09.15.557872Cold Spring Harbor Laboratory Press2023-09-17
<![CDATA[
The asynchrony in the exit from naive pluripotency cannot be explained by differences in the cell cycle phase
]]>
https://biorxiv.org/cgi/content/short/2023.09.15.557731v1?rss=1"
Jayaram, S.Romeike, M.Buecker, C.2023-09-15doi:10.1101/2023.09.15.557731Cold Spring Harbor Laboratory Press2023-09-15
<![CDATA[
Tumor sialylation is a barrier against CD8 T cell-mediated anti-tumor responses and anti-PD-1 resistance in breast cancer
]]>
https://biorxiv.org/cgi/content/short/2023.09.20.558571v1?rss=1"
Mereiter, S.Jonsson, G.Oliveira, T.Helm, J.Hoffmann, D.Abeln, M.Jochum, A.-K.Jochum, W.Kellner, M. J.Feith, M.Tkalec, V.Wasilewska, K.Jiao, J.Emsenhuber, L.Holstein, F.Obenauf, A.Lordello, L.Scoazec, J.-Y.Kroemer, G.Zitvogel, L.Ali, O. H.Flatz, L.Gerardy-Schahn, R.Muenster-Kuehnel, A.Stadlmann, J.Penninger, J. M.2023-09-22doi:10.1101/2023.09.20.558571Cold Spring Harbor Laboratory Press2023-09-22
<![CDATA[
Control of mitophagy initiation and progression by the TBK1 adaptors NAP1 and SINTBAD
]]>
https://biorxiv.org/cgi/content/short/2023.09.25.559255v1?rss=1"
Adriaenssens, E.Nguyen, T. N.Sawa-Makarska, J.Khuu, G.Schuschnig, M.Shoebridge, S.Watts, E. M.Csalyi, K. D.Padman, B. S.Lazarou, M.Martens, S.2023-09-25doi:10.1101/2023.09.25.559255Cold Spring Harbor Laboratory Press2023-09-25
<![CDATA[
Evolutionary adaptation of the chromodomain of the HP1-protein Rhino allows the integration of chromatin and DNA sequence signals
]]>
https://biorxiv.org/cgi/content/short/2023.09.29.560096v1?rss=1"
Baumgartner, L.Ipsaro, J. J.Hohmann, U.Handler, D.Schleiffer, A.Duchek, P.Brennecke, J.2023-09-29doi:10.1101/2023.09.29.560096Cold Spring Harbor Laboratory Press2023-09-29
<![CDATA[
A conserved ESCRT-II-like protein participates in the biogenesis and maintenance of thylakoid membranes
]]>
https://biorxiv.org/cgi/content/short/2023.10.10.561251v1?rss=1"
Yilmazer, I.Vetrano, P.Eicke, S.Abt, M. R.Traverso, E.Morosinotto, T.Zeeman, S. C.Ramundo, S.Sharma, M.2023-10-10doi:10.1101/2023.10.10.561251Cold Spring Harbor Laboratory Press2023-10-10
<![CDATA[
The Chaperone NASP Contributes to De Novo Deposition of the Centromeric Histone Variant CENH3 in Arabidopsis Early Embryogenesis
]]>
https://biorxiv.org/cgi/content/short/2023.10.05.560999v1?rss=1"
Takeuchi, H.Nagahara, S.Higashiyama, T.Berger, F.2023-10-06doi:10.1101/2023.10.05.560999Cold Spring Harbor Laboratory Press2023-10-06
<![CDATA[
Developmental and housekeeping transcriptional programs display distinct modes of enhancer-enhancer cooperativity in Drosophila
]]>
https://biorxiv.org/cgi/content/short/2023.10.10.561770v1?rss=1"
LOUBIERE, V.de Almeida, B. P.Pagani, M.Stark, A.2023-10-12doi:10.1101/2023.10.10.561770Cold Spring Harbor Laboratory Press2023-10-12
<![CDATA[
Mechanistic insights into the function of 14-3-3 proteins as negative regulators of brassinosteroid signaling in Arabidopsis.
]]>
https://biorxiv.org/cgi/content/short/2023.10.13.562204v1?rss=1"
Obergfell, E.Hohmann, U.Moretti, A.Hothorn, M.2023-10-14doi:10.1101/2023.10.13.562204Cold Spring Harbor Laboratory Press2023-10-14
<![CDATA[
Zinc-finger (ZiF) fold secreted effectors form a functionally diverse family across lineages of the blast fungus Magnaporthe oryzae.
]]>
https://biorxiv.org/cgi/content/short/2023.10.18.562914v1?rss=1"
Concepcion, J. C. D. l.Langner, T.Fujisaki, K.Were, V.Yan, X.Lam, A. H. C.Saado, I.Brabham, H.Win, J.Yoshida, K.Talbot, N. J.Terauchi, R.Kamoun, S.Banfield, M. J.2023-10-20doi:10.1101/2023.10.18.562914Cold Spring Harbor Laboratory Press2023-10-20
<![CDATA[
ATG8 delipidation is dispensable for plant autophagy
]]>
https://biorxiv.org/cgi/content/short/2023.08.23.554513v1?rss=1"
Holla, S.Zou, Y.Sabljic, I.Ohlsson, J. A.Leong, J. X.Ballhaus, F.Krebs, M.Schumacher, K.Bozhkov, P.Minina, E. A.2023-08-24doi:10.1101/2023.08.23.554513Cold Spring Harbor Laboratory Press2023-08-24
<![CDATA[
Spatially resolved proteomics of the stomatal lineage: polarity complexes for cell divisions and stomatal pores
]]>
https://biorxiv.org/cgi/content/short/2023.11.03.564551v1?rss=1"
Wallner, E.-S.Mair, A.Handler, D.McWhite, C. D.Xu, S.-L.Dolan, L.Bergmann, D.2023-11-03doi:10.1101/2023.11.03.564551Cold Spring Harbor Laboratory Press2023-11-03
<![CDATA[
Automated 3D multi-color single-molecule localization microscopy
]]>
https://biorxiv.org/cgi/content/short/2023.10.23.563122v1?rss=1"
Power, R. M.Tschanz, A.Zimmermann, T.Ries, J.2023-10-24doi:10.1101/2023.10.23.563122Cold Spring Harbor Laboratory Press2023-10-24
<![CDATA[
Universal inverse modelling of point spread functions for SMLM localization and microscope characterization
]]>
https://biorxiv.org/cgi/content/short/2023.10.26.564064v1?rss=1"
Liu, S.Chen, J.Hellgoth, J.Mueller, L.-R.Ferdman, B.Karras, C.Xiao, D.Lidke, K. A.Heintzmann, R.Shechtman, Y.Li, Y.Ries, J.2023-10-26doi:10.1101/2023.10.26.564064Cold Spring Harbor Laboratory Press2023-10-26
<![CDATA[
Neuro-Cognitive Multilevel Causal Modeling: A Framework that Bridges the Explanatory Gap between Neuronal Activity and Cognition
]]>
https://biorxiv.org/cgi/content/short/2023.10.27.564404v1?rss=1"
Grosse-Wentrup, M.Kumar, A.Meunier, A.Zimmer, M.2023-10-27doi:10.1101/2023.10.27.564404Cold Spring Harbor Laboratory Press2023-10-27
<![CDATA[
Molecular basis for positional memory and its reprogrammability in limb regeneration
]]>
https://biorxiv.org/cgi/content/short/2023.10.27.564423v1?rss=1"
Otsuki, L.Plattner, S. A.Taniguchi-Sugiura, Y.Tanaka, E. M.2023-10-28doi:10.1101/2023.10.27.564423Cold Spring Harbor Laboratory Press2023-10-28
<![CDATA[
Chromosome-level genome assemblies of two hemichordates provide new insights into deuterostome origin and chromosome evolution
]]>
https://biorxiv.org/cgi/content/short/2023.11.01.564642v1?rss=1"
Lin, C.-Y.Marletaz, F.Perez-Posada, A.Martinez Garcia, P. M.Schloissnig, S.Peluso, P.Conception, G. T.Bump, P.Chen, Y.-C.Chou, C.Lin, C.-Y.Fan, T.-P.Tsai, C.-T.Gomez Skarmeta, J. L.Tena, J. J.Lowe, C. J.Rank, D. R.Rokhsar, D. S.Yu, J.-K.Su, Y.-H.2023-11-02doi:10.1101/2023.11.01.564642Cold Spring Harbor Laboratory Press2023-11-02
<![CDATA[
Mime-seq 2.0: a method to sequence microRNAs from specific mouse cell types
]]>
https://biorxiv.org/cgi/content/short/2023.11.06.565867v1?rss=1"
Mandlbauer, A.Sun, Q.Popitsch, N.Schwickert, T.Spanova, M.Wang, J.Ameres, S. L.Busslinger, M.Cochella, L.2023-11-06doi:10.1101/2023.11.06.565867Cold Spring Harbor Laboratory Press2023-11-06
<![CDATA[
PP2A-B55alpha,delta phosphatase counteracts Ki67-dependent chromosome individualization during mitosis
]]>
https://biorxiv.org/cgi/content/short/2023.11.30.569375v1?rss=1"
Sanz-Flores, M.Ruiz-Torres, M.Aguirre-Portoles, C.El-Bakkali, A.Salvador-Barbero, B.Villarroya-Beltri, C.Ortega, S.Megias, D.Gerlich, D. W.Alvarez-Fernandez, M.Malumbres, M.2023-11-30doi:10.1101/2023.11.30.569375Cold Spring Harbor Laboratory Press2023-11-30
<![CDATA[
Pre-mRNA fate decision safeguards the fidelity of the inflammatory response
]]>
https://biorxiv.org/cgi/content/short/2023.11.30.569392v1?rss=1"
Bestehorn, A. M.Fesselet, J. A. M.Didusch, S.Zeiler, C.Doppelmayer, K.Borroni, M.Le Heron, A.Pfanzagl, V.Chen, W.Scinicariello, S.Baccarini, M.Versteeg, G. A.Hartl, M.Kovarik, P.2023-11-30doi:10.1101/2023.11.30.569392Cold Spring Harbor Laboratory Press2023-11-30
<![CDATA[
The C-terminus of CFAP410 forms a tetrameric helical bundle that is essential for its localization to the basal body
]]>
https://biorxiv.org/cgi/content/short/2023.11.30.569397v1?rss=1"
Stadler, A.Alonso-Gil, S.Zagrovic, B.Vaughan, S.Sunter, J.Dong, G.2023-11-30doi:10.1101/2023.11.30.569397Cold Spring Harbor Laboratory Press2023-11-30
<![CDATA[
IGF2BP1 phosphorylation regulates ribonucleoprotein condensate formation by impairing low-affinity protein and RNA interactions
]]>
https://biorxiv.org/cgi/content/short/2023.12.05.570121v1?rss=1"
Hornegger, H.Muratovic, A.Anisimova, A. S.Burgeois, B. R.Spinetti, E.Covino, R.Madl, T.Karagoz, G. E.2023-12-05doi:10.1101/2023.12.05.570121Cold Spring Harbor Laboratory Press2023-12-05
<![CDATA[
Enhancer cooperativity can compensate for loss of activity over large genomic distances
]]>
https://biorxiv.org/cgi/content/short/2023.12.06.570399v1?rss=1"
Thomas, H. F.Feng, S.Huber, M.LOUBIERE, V.Vanina, D.Pitasi, M.Stark, A.Buecker, C.2023-12-07doi:10.1101/2023.12.06.570399Cold Spring Harbor Laboratory Press2023-12-07
<![CDATA[
The dimorphic diaspore model Aethionema arabicum (Brassicaceae): Distinct molecular and morphological control of responses to parental and germination temperatures
]]>
https://biorxiv.org/cgi/content/short/2023.12.14.571707v1?rss=1"
Chandler, J. O.Wilhelmsson, P. K. I.Fernandez-Pozo, N.Graeber, K.Arshad, W.Perez, M.Steinbrecher, T.Ullrich, K. K.Nguyen, T.-P.Merai, Z.Mummenhoff, K.Theissen, G.Strnad, M.Mittelsten Scheid, O.Schranz, M. E.Petrik, I.Tarkowska, D.Novak, O.Rensing, S. A.Leubner-Metzger, G.2023-12-16doi:10.1101/2023.12.14.571707Cold Spring Harbor Laboratory Press2023-12-16
<![CDATA[
MUT-7 exoribonuclease activity and localisation are mediated by an ancient domain
]]>
https://biorxiv.org/cgi/content/short/2023.12.20.572533v1?rss=1"
Busetto, V.Pshanichnaya, L.Lichtenberger, R.Hann, S.Ketting, R. F.Falk, S.2023-12-20doi:10.1101/2023.12.20.572533Cold Spring Harbor Laboratory Press2023-12-20
<![CDATA[
Joint estimation of paternity, sibships and pollen dispersal in a snapdragon hybrid zone
]]>
https://biorxiv.org/cgi/content/short/2024.01.05.574354v1?rss=1"
Ellis, T. J.Field, D. L.Barton, N. H.2024-01-05doi:10.1101/2024.01.05.574354Cold Spring Harbor Laboratory Press2024-01-05
<![CDATA[
KATANIN-mediated microtubule severing is required for MTOC formation and function in Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2024.01.04.574198v1?rss=1"
Attrill, S. T.Dolan, L.2024-01-04doi:10.1101/2024.01.04.574198Cold Spring Harbor Laboratory Press2024-01-04
<![CDATA[
Long days induce adaptive secondary dormancy in seed of the Mediterranean plant Aethionema arabicum
]]>
https://biorxiv.org/cgi/content/short/2024.01.08.574645v1?rss=1"
Merai, Z.Graeber, K.Xu, F.Dona, M.Lalatovic, K.Wilhelmsson, P. K. I.Fernandez-Pozo, N.Rensing, S. A.Leubner-Metzger, G.Mittelsten Scheid, O.Dolan, L.2024-01-08doi:10.1101/2024.01.08.574645Cold Spring Harbor Laboratory Press2024-01-08
<![CDATA[
SMC motor proteins extrude DNA asymmetrically and contain a direction switch
]]>
https://biorxiv.org/cgi/content/short/2023.12.21.572892v1?rss=1"
Barth, R.Davidson, I.van der Torre, J.Taschner, M.Gruber, S.Peters, J.-M.Dekker, C.2023-12-22doi:10.1101/2023.12.21.572892Cold Spring Harbor Laboratory Press2023-12-22
<![CDATA[
Single-cell transcriptional dynamics in a living vertebrate
]]>
https://biorxiv.org/cgi/content/short/2024.01.03.574108v1?rss=1"
Eck, E.Moretti, B.Schlomann, B. H.Bragantini, J.Lange, M.Zhao, X.VijayKumar, S.Valentin, G.Loureiro, C.Soroldoni, D.Royer, L. A.Oates, A. C.Garcia, H. H.2024-01-05doi:10.1101/2024.01.03.574108Cold Spring Harbor Laboratory Press2024-01-05
<![CDATA[
Bioengineering a plant NLR immune receptor with a robust binding interface towards a conserved fungal pathogen effector
]]>
https://biorxiv.org/cgi/content/short/2024.01.20.576400v1?rss=1"
Zdrzalek, R.Xi, Y.Langner, T.Bentham, A. R.Petit-Houdenot, Y.De la Concepcion, J. C.Harant, A.Shimizu, M.Were, V.Talbot, N. J.Terauchi, R. J.Kamoun, S.Banfield, M. J.2024-01-23doi:10.1101/2024.01.20.576400Cold Spring Harbor Laboratory Press2024-01-23
<![CDATA[
Microtubules and actin filaments direct nuclear movement during the polarisation of Marchantia spore cells
]]>
https://biorxiv.org/cgi/content/short/2024.02.23.581750v1?rss=1"
Dolan, L.Attrill, S. T.2024-02-23doi:10.1101/2024.02.23.581750Cold Spring Harbor Laboratory Press2024-02-23
<![CDATA[
tRNA expression and modification landscapes, and their dynamics during zebrafish embryo development
]]>
https://biorxiv.org/cgi/content/short/2024.01.30.575011v1?rss=1"
Rappol, T.Waldl, M.Chugunova, A.Hofacker, I. L.Pauli, A.Vilardo, E.2024-01-30doi:10.1101/2024.01.30.575011Cold Spring Harbor Laboratory Press2024-01-30
<![CDATA[
Challenging the Astral mass analyzer - going beyond 5200 proteins per single-cell at unseen quantitative accuracy to study cellular heterogeneity.
]]>
https://biorxiv.org/cgi/content/short/2024.02.01.578358v1?rss=1"
Bubis, J. A.Arrey, T. N.Damoc, E.Delanghe, B.Slovakova, J.Sommer, T. M.Kagawa, H.Pichler, P.Rivron, N. C.Mechtler, K.Matzinger, M.2024-02-01doi:10.1101/2024.02.01.578358Cold Spring Harbor Laboratory Press2024-02-01
<![CDATA[
Somite-independent regeneration of the axolotl primary body axis
]]>
https://biorxiv.org/cgi/content/short/2024.01.31.577464v1?rss=1"
Masselink, W.Gerber, T.Falcon, F.Deshayes, T.Papadopoulos, S.-C.Pende, M.Singh Jamwal, V.Taniguchi-Sugiura, Y.Lin, T.-Y.Kurth, T.Wang, J.Arendt, D.Fei, J.-F.Treutlein, B.Tanaka, E. M.Murawala, P.2024-02-02doi:10.1101/2024.01.31.577464Cold Spring Harbor Laboratory Press2024-02-02
<![CDATA[
The domesticated transposon protein L1TD1 associates with its ancestor L1 ORF1p to promote LINE-1 retrotransposition
]]>
https://biorxiv.org/cgi/content/short/2024.02.01.577722v1?rss=1"
Kavaklioglu, G.Podhornik, A.Vcelkova, T.Marjanovic, J.Beck, M. A.Mair, T.Miccolo, C.Drino, A.Egger, G.Chiocca, S.Modic, M.Seiser, C.2024-02-01doi:10.1101/2024.02.01.577722Cold Spring Harbor Laboratory Press2024-02-01
<![CDATA[
Liquid footprinting: A novel approach for DNA footprinting using short double-stranded cell-free DNA from plasma
]]>
https://biorxiv.org/cgi/content/short/2024.02.09.579588v1?rss=1"
Mueller, J.Hartwig, C.Mirko, S.Lisa, B.Christopher, A.Yevhen, V.Karolina, G.Sebastian, D. O.Thorsten, B.Georg, W. F.Arndt, v. H.Kai, S.2024-02-12doi:10.1101/2024.02.09.579588Cold Spring Harbor Laboratory Press2024-02-12
<![CDATA[
Adeno-associated viruses for efficient gene expression in the axolotl nervous system
]]>
https://biorxiv.org/cgi/content/short/2024.02.15.580426v1?rss=1"
Lust, K.Tanaka, E. M.2024-02-15doi:10.1101/2024.02.15.580426Cold Spring Harbor Laboratory Press2024-02-15
<![CDATA[
A Fast Interferometric Beam Shaper for Multi-Emitter 3D MINFLUX
]]>
https://biorxiv.org/cgi/content/short/2023.12.09.570565v1?rss=1"
Geismann, M. K.Gomez-Segalas, A.Passera, A.Shirzadian, M.Balzarotti, F.2023-12-10doi:10.1101/2023.12.09.570565Cold Spring Harbor Laboratory Press2023-12-10
<![CDATA[
In-cell structure and snapshots of copia retrotransposons in intact tissue by cryo-electron tomography
]]>
https://biorxiv.org/cgi/content/short/2024.02.21.581285v1?rss=1"
Klumpe, S.Senti, K. A.Beck, F.Sachweh, J.Hampoelz, B.Ronchi, P.Yeroslaviz, A.Briggs, J.Brennecke, J.Beck, M.Plitzko, J. M.2024-02-22doi:10.1101/2024.02.21.581285Cold Spring Harbor Laboratory Press2024-02-22
<![CDATA[
Centriolar satellites are sites of translation of centrosomal and ciliary proteins
]]>
https://biorxiv.org/cgi/content/short/2024.02.22.581531v1?rss=1"
Pachinger, C.Dobbelaere, J.Rumpf-Kienzl, C.Raina, S.Garcia-Baucells, J.Sarantseva, M.Brauneis, A.Dammermann, A.2024-02-22doi:10.1101/2024.02.22.581531Cold Spring Harbor Laboratory Press2024-02-22
<![CDATA[
Alternative silencing states of Transposable Elements in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2024.03.16.585326v1?rss=1"
Hure, V.Piron-Prunier, F.Yehouessi, T.Vitte, C.Kornienko, A. E.Adam, G.Nordborg, M.Deleris, A.2024-03-16doi:10.1101/2024.03.16.585326Cold Spring Harbor Laboratory Press2024-03-16
<![CDATA[
Distinct intersecting pathways link homolog pairing to initiation of meiotic chromosome synapsis
]]>
https://biorxiv.org/cgi/content/short/2024.03.11.584447v1?rss=1"
Blazickova, J.Trivedi, S.Bowman, R.Geetha, S. S.Subah, S.Smolikove, S.Jantsch, V.Zetka, M.Silva, N.2024-03-12doi:10.1101/2024.03.11.584447Cold Spring Harbor Laboratory Press2024-03-12
<![CDATA[
The dynamic genomes of Hydra and the anciently active repeat complement of animal chromosomes
]]>
https://biorxiv.org/cgi/content/short/2024.03.13.584568v1?rss=1"
Kon-Nanjo, K.Kon, T.Koubkova Yu, T. C.-T.Rodriguez-Terrones, D.Falcon, F.Martinez, D. E.Steele, R. E.Tanaka, E. M.Holstein, T. W.Simakov, O.2024-03-14doi:10.1101/2024.03.13.584568Cold Spring Harbor Laboratory Press2024-03-14
<![CDATA[
Elongation capacity of polyunsaturated fatty acids in the annelid Platynereis dumerilii
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https://biorxiv.org/cgi/content/short/2024.03.15.584978v1?rss=1"
Ramos-Llorens, M.Bainour, K.Adelmann, L.Hontoria, F.Navarro, J. C.Raible, F.Monroig, O.2024-03-16doi:10.1101/2024.03.15.584978Cold Spring Harbor Laboratory Press2024-03-16
<![CDATA[
Targeted metagenomics using probe capture detects a larger diversity of nitrogen and methane cycling genes in complex microbial communities than traditional metagenomics
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https://biorxiv.org/cgi/content/short/2022.11.04.515048v1?rss=1"
Siljanen, H. M. P.Manoharan, L.Hilts, A. S.Bagnoud, A.Alves, R. J. E.Jones, C. M.Sousa, F.Hallin, S.Biasi, C.Schleper, C.2022-11-04doi:10.1101/2022.11.04.515048Cold Spring Harbor Laboratory Press2022-11-04
<![CDATA[
All eukaryotic SMC proteins induce a twist of -0.6 at each DNA-loop-extrusion step
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https://biorxiv.org/cgi/content/short/2024.03.22.586328v1?rss=1"
Janissen, R.Barth, R.Davidson, I. F.Taschner, M.Gruber, S.Peters, J.-M.Dekker, C.2024-03-23doi:10.1101/2024.03.22.586328Cold Spring Harbor Laboratory Press2024-03-23
<![CDATA[
Atypical epigenetic and small RNA control of transposons in clonally reproducing Spirodela polyrhiza.
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https://biorxiv.org/cgi/content/short/2024.04.03.587901v1?rss=1"
Dombey, R.Barragan-Borrero, V.Buendia-Avila, D.Ponce-Mane, A.Vargas-Guerrero, J. M.Elias, R.Mari-Ordonez, A.2024-04-05doi:10.1101/2024.04.03.587901Cold Spring Harbor Laboratory Press2024-04-05
<![CDATA[
A molecular switch orchestrates the nuclear export of human messenger RNA
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https://biorxiv.org/cgi/content/short/2024.03.24.586400v1?rss=1"
Hohmann, U.Graf, M.Schellhaas, U.Pacheco-Fiallos, B.Fin, L.Riabov-Bassat, D.Pühringer, T.Szalay, M.-F.Tirian, L.Handler, D.Brennecke, J.Plaschka, C.2024-03-27doi:10.1101/2024.03.24.586400Cold Spring Harbor Laboratory Press2024-03-27
<![CDATA[
Reconstructing bat antiviral immunity using epithelial organoids
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https://biorxiv.org/cgi/content/short/2024.04.05.588241v1?rss=1"
Kellner, M. J.Zelger, P.Monteil, V.Pei, G.Onji, M.Nayak, K.Zilbauer, M.Balkema-Buschmann, A.Dorhoi, A.Mirazimi, A.Penninger, J. M.2024-04-10doi:10.1101/2024.04.05.588241Cold Spring Harbor Laboratory Press2024-04-10
<![CDATA[
Profiling microRNA expression during senescence and aging: mining for a diagnostic tool of senescent-cell burden
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https://biorxiv.org/cgi/content/short/2024.04.10.588794v1?rss=1"
Weigl, M.Krammer, T. L.Pultar, M.Wieser, M.Chaib, S.Suda, M.Diendorfer, A.Khamina, K.Giorgadze, N.Pirtskhalava, T.Johnson, K. O.Inman, C. L.Ailing, X.Laemmermann, I.Meixner, B.Wang, L.Xu, M.Grillari, R.Ogrodnik, M. B.Tchkonia, T.Hackl, M.Kirkland, J. L.Grillari, J.2024-04-10doi:10.1101/2024.04.10.588794Cold Spring Harbor Laboratory Press2024-04-10
<![CDATA[
Snorkel-tag Based Affinity Chromatography for Recombinant Extracellular Vesicle Purification
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https://biorxiv.org/cgi/content/short/2024.04.12.589209v1?rss=1"
Bobbili, M. R.Gorgens, A.Yan, Y.Vogt, S.Gupta, D.Corso, G.Barbaria, S.Patrioli, C.Weilner, S.Pultar, M.Jacak, J.Hackl, M.Schosserer, M.Grillari, R.Kjems, J.EL Andaloussi, S.Grillari, J.2024-04-15doi:10.1101/2024.04.12.589209Cold Spring Harbor Laboratory Press2024-04-15
<![CDATA[
Multiscale simulations of molecular recognition by phase separated MUT-16: A scaffolding protein of Mutator foci
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https://biorxiv.org/cgi/content/short/2024.04.13.589337v1?rss=1"
Gaurav, K.Busetto, V.Moscoso, D. J. P.Changiarath, A.Hanson, S. M.Falk, S.Ketting, R. F.Stelzl, L. S.2024-04-15doi:10.1101/2024.04.13.589337Cold Spring Harbor Laboratory Press2024-04-15
<![CDATA[
Carbon Dioxide Controls Fungal Fitness and Skin Tropism of Candida auris
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https://biorxiv.org/cgi/content/short/2024.04.12.589292v1?rss=1"
Trinh, P.-C.Penninger, P.Seiser, S.Khunweeraphong, N.Moser, D.Bitencourt, T.Arzani, H.Chen, W.Zenz, L.-M.Knarr, A.Cerbu, D.Jenull, S.Muller, C.Lackner, M.Ianiri, G.Chowdhary, A.Hartl, M.Elbe-Burger, A.Kuchler, K.2024-04-15doi:10.1101/2024.04.12.589292Cold Spring Harbor Laboratory Press2024-04-15
<![CDATA[
ATG8ylation of vacuolar membrane protects plants against cell wall damage
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https://biorxiv.org/cgi/content/short/2024.04.21.590262v1?rss=1"
Julian, J.Gao, P.Del Chiaro, A.De La Concepcion, J. C.Armengot, L.Somssich, M.Duverge, H.Clavel, M.Grujic, N.Kobylinska, R.Polivka, I.Besten, M.Dank, C.Korbei, B.Bachmair, A.Coll, N. S.Sprakel, J.Dagdas, Y.2024-04-23doi:10.1101/2024.04.21.590262Cold Spring Harbor Laboratory Press2024-04-23
<![CDATA[
Multiple ubiquitin ligases protect human genome integrity by targeting cancer-associated APOBEC3 deaminases for degradation.
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https://biorxiv.org/cgi/content/short/2024.04.23.590688v1?rss=1"
Schwartz, I.Budroni, V.Meyenberg, M.Hornegger, H.Hacker, K.Schwartz, S.Hodakova, Z.Grabarczyk, D. B.Ehrmann, J.Scinicariello, S.Haselbach, D.Menche, J.Clausen, T.Karagoez, E.Versteeg, G. A.2024-04-26doi:10.1101/2024.04.23.590688Cold Spring Harbor Laboratory Press2024-04-26
<![CDATA[
Adaptation to soil type contributes little to local adaptation in an Italian and a Swedish population of Arabidopsis thaliana growing on contrasting soils
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https://biorxiv.org/cgi/content/short/2024.04.24.590956v1?rss=1"
Ellis, T. J.Agren, J.2024-04-28doi:10.1101/2024.04.24.590956Cold Spring Harbor Laboratory Press2024-04-28
<![CDATA[
Screening great ape museum specimens for DNA viruses
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https://biorxiv.org/cgi/content/short/2024.04.25.591107v1?rss=1"
18-fold) hepatitis B virus genomes from one gorilla and two chimpanzee individuals, which are phylogenetically placed within clades infecting the respective host species.
]]>Haemmerle, M.Guellil, M.Cheronet, O.Sawyer, S.Ruiz-Gartzia, I.Lizano, E.Rymbekova, A.Gelabert, P.Bernardi, P.Han, S.Trgovec-Greif, L.Rattei, T.Schuenemann, V. J.Marques-Bonet, T.Guschanski, K.Calvignac-Spencer, S.Pinhasi, R.Kuhlwilm, M.2024-04-28doi:10.1101/2024.04.25.591107Cold Spring Harbor Laboratory Press2024-04-28
<![CDATA[
Rules of engagement for condensins and cohesins guide mitotic chromosome formation
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https://biorxiv.org/cgi/content/short/2024.04.18.590027v1?rss=1"
Samejima, K.Gibcus, J. H.Abraham, S.Cisneros-Soberanis, F.Samejima, I.Beckett, A. J.Pucekova, N.Abad, M. A.Medina-Pritchard, B.Paulson, J. R.Xie, L.Jeyaprakash, A. A.Prior, I. A.Mirny, L. A.Dekker, J.Goloborodko, A.Earnshaw, W. C.2024-04-18doi:10.1101/2024.04.18.590027Cold Spring Harbor Laboratory Press2024-04-18
<![CDATA[
H2A.Z and elongation factor Spt6 form an ancient bridge shaping transcription in eukaryotes
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https://biorxiv.org/cgi/content/short/2024.05.10.593535v1?rss=1"
Harvey, Z. H.Stevens, K. M.Warnecke, T.Berger, F. H.2024-05-10doi:10.1101/2024.05.10.593535Cold Spring Harbor Laboratory Press2024-05-10
<![CDATA[
Metabolic enzymes moonlight as selective autophagy receptors to protect plants against viral-induced cellular damage
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https://biorxiv.org/cgi/content/short/2024.05.06.590709v1?rss=1"
Clavel, M.Bianchi, A.Kobylinska, R.Groh, R.Ma, J.Papareddy, R. K.Grujic, N.Picchianti, L.Stewart, E.Schutzbier, M.Stejskal, K.de la Concepcion, J. C.Hernandez, V. S. d. M.Voichek, Y.Clauw, P.Gunis, J.Durnberger, G.Muelders, J. C.Grimm, A.Sedivy, A.Erhardt, M.Vyboishchikov, V.Gao, P.Lechner, E.Vantard, E.Jez, J.Roitinger, E.Genschik, P.Kang, B.-H.Dagdas, Y.2024-05-06doi:10.1101/2024.05.06.590709Cold Spring Harbor Laboratory Press2024-05-06
<![CDATA[
Unveiling Gene Perturbation Effects through Gene Regulatory Networks Inference from single-cell transcriptomic data
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https://biorxiv.org/cgi/content/short/2024.05.10.593314v1?rss=1"
Corridori, C.Romeike, M.Nicoletti, G.Buecker, C.Suweis, S.Azaele, S.Martello, G.2024-05-10doi:10.1101/2024.05.10.593314Cold Spring Harbor Laboratory Press2024-05-10
<![CDATA[
A multi-year longitudinal harmonization of quality controls in mass spectrometry proteomics core facilities
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https://biorxiv.org/cgi/content/short/2024.05.19.594517v1?rss=1"
Chiva, C.Olivella, R.Staes, A.Maia, T. M.Panse, C.Stejskal, K.Douche, T.Lombard, B.Schuhmann, A.Loew, D.Mechtler, K.Matondo, M.Rettel, M.Helm, D.Impens, F.Devos, S.Shevchenko, A.Nanni, P.Sabido, E.2024-05-19doi:10.1101/2024.05.19.594517Cold Spring Harbor Laboratory Press2024-05-19
<![CDATA[
PTGS is dispensable for the initiation of epigenetic silencing of an active transposon in Arabidopsis
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https://biorxiv.org/cgi/content/short/2024.05.27.596030v1?rss=1"
Trasser, M.Bohl-Viallefond, G.Barragan-Borrero, V.Diezma-Navas, L.Loncsek, L.Nordborg, M.Mari-Ordonez, A.2024-05-31doi:10.1101/2024.05.27.596030Cold Spring Harbor Laboratory Press2024-05-31
<![CDATA[
Reproducibly oriented cell divisions pattern the first flat body structures to set up dorsoventrality and de novo meristem formation in Marchantia polymorpha
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https://biorxiv.org/cgi/content/short/2024.07.08.602509v1?rss=1"
Wallner, E.-S.Dolan, L.2024-07-10doi:10.1101/2024.07.08.602509Cold Spring Harbor Laboratory Press2024-07-10
<![CDATA[
Neural tube organoid generation: a robust and reproducible protocol from single mouse embryonic stem cells
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https://biorxiv.org/cgi/content/short/2024.06.20.599764v1?rss=1"
Krammer, T.Tanaka, E. M.2024-06-22doi:10.1101/2024.06.20.599764Cold Spring Harbor Laboratory Press2024-06-22
<![CDATA[
Proteomic and Metabolomic Profiling of Archaeal Extracellular Vesicles from the Human Gut
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https://biorxiv.org/cgi/content/short/2024.06.22.600174v1?rss=1"
Weinberger, V.Darnhofer, B.Mertelj, P.Stentz, R.Thapa, H. B.Jones, E.Grabmann, G.Mohammadzadeh, R.Shinde, T.Juodeikis, R.Pernitsch, D.Hingerl, K.Zurabishvili, T.Kumpitsch, C.Kuehnast, T.Kolb, D.Gotts, K.Weihhart, T.Köcher, T.Koefeler, H.Carding, S.Schild, S.Moissl-Eichinger, C.2024-06-22doi:10.1101/2024.06.22.600174Cold Spring Harbor Laboratory Press2024-06-22
<![CDATA[
GTestimate: Improving relative gene expression estimation in scRNA-seq using the Good-Turing estimator
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https://biorxiv.org/cgi/content/short/2024.07.02.601501v1?rss=1"
Fahrenberger, M.Esk, C.von Haeseler, A.2024-07-03doi:10.1101/2024.07.02.601501Cold Spring Harbor Laboratory Press2024-07-03
<![CDATA[
CLEC18A interacts with sulfated GAGs and controls clear cell renal cell carcinoma progression
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https://biorxiv.org/cgi/content/short/2024.07.08.602586v1?rss=1"
Jonsson, G.Hofmann, M.Mereiter, S.Hartley-Tassell, L.Sakic, I.Oliveira, T.Hoffmann, D.Novatchkova, M.Schleiffer, A.Penninger, J. M.2024-07-10doi:10.1101/2024.07.08.602586Cold Spring Harbor Laboratory Press2024-07-10
<![CDATA[
STK19 drives Transcription-Coupled Repair by stimulating repair complex stability, Pol II ubiquitylation and TFIIH recruitment
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https://biorxiv.org/cgi/content/short/2024.07.22.604556v1?rss=1"
Ramadhin, A. R.Lee, S.-H.Zhou, D.Salmazo, A.Gonzalo-Hansen, C.van Sluis, M.Blom, C. M. A.Janssens, R. C.Raams, A.Dekkers, D. H. W.Bezstarosti, K.Slade, D.Vermeulen, W.Pines, A.Demmers, J. A.Bernecky, C.Sixma, T. K.Marteijn, J. A.2024-07-22doi:10.1101/2024.07.22.604556Cold Spring Harbor Laboratory Press2024-07-22
<![CDATA[
Genome-wide profiling of DNA repair identifies higher-order coordination in single cells
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https://biorxiv.org/cgi/content/short/2023.05.10.540169v1?rss=1"
de Luca, K. L.Rullens, P. M.Legube, G.Kind, J.2023-05-11doi:10.1101/2023.05.10.540169Cold Spring Harbor Laboratory Press2023-05-11
<![CDATA[
Cellular N-myristoyl transferases Are Required for Mammarenavirus Multiplication
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https://biorxiv.org/cgi/content/short/2024.08.01.606235v1?rss=1"
Witwit, H.Betancourt, C.Cubitt, B.Khafaji, R.Kowalski, H.Jackson, N.Ye, C.Martinez-Sobrido, L.de la Torre, J. C.2024-08-01doi:10.1101/2024.08.01.606235Cold Spring Harbor Laboratory Press2024-08-01
<![CDATA[
Electrostatic changes enabled the diversification of an exocyst subunit via protein complex escape
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https://biorxiv.org/cgi/content/short/2024.08.26.609756v1?rss=1"
De la Concepcion, J. C.Duverge, H.Kim, Y.Julian, J.Xu, D.Ikene, S. A.Bianchi, A.Grujic, N.Papareddy, R.Grishkovskaya, I.Haselbach, D.Murray, D.Clavel, M.Irwin, N.Dagdas, Y.2024-08-26doi:10.1101/2024.08.26.609756Cold Spring Harbor Laboratory Press2024-08-26
<![CDATA[
Cross-species interactome analysis uncovers a conserved selective autophagy mechanism for protein quality control in plants
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https://biorxiv.org/cgi/content/short/2024.09.08.611708v1?rss=1"
Hernandez, V. S. d. M.Garcia, M. M. N.Clavel, M.Papareddy, R. K.Andreev, V. I.Gao, P.De la Concepcion, J. C.Mathur, V.Picchianti, L.Grujic, N.Kobylinska, R.Abdrakhmanov, A.Duverge, H.Anand, G.Leibrock, N.Bianchi, A.Crawford, T.Argiro, L.Mohseni, A.Leon, M. G.Matuszkiewickz, M.Raffeiner, M.Wun, C.-L.Kanne, J. V.Meinhart, A.Roitinger, E.Baurle, I.Kang, B.-H.Petersen, M.Ustun, S.Kulathu, Y.Clausen, T.Ramundo, S.Dagdas, Y.2024-09-09doi:10.1101/2024.09.08.611708Cold Spring Harbor Laboratory Press2024-09-09
<![CDATA[
The three-dimensional anatomy and dorsoventral asymmetry of the mature Marchantia polymorpha meristem develops from a symmetrical gemma meristem
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https://biorxiv.org/cgi/content/short/2024.08.23.609409v1?rss=1"
Spencer, V.Wallner, E.-S.Jandrasits, K.Edelbacher, N.Mosiolek, M.Dolan, L.2024-08-25doi:10.1101/2024.08.23.609409Cold Spring Harbor Laboratory Press2024-08-25
<![CDATA[
Identification and functional categorization of the most stably and most variably expressed genes and retained introns in Arabidopsis thaliana seedlings
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https://biorxiv.org/cgi/content/short/2024.08.26.608733v1?rss=1"
Lin, W.-D.Kanno, T.Matzke, A. J. M.Matzke, M.2024-08-27doi:10.1101/2024.08.26.608733Cold Spring Harbor Laboratory Press2024-08-27
<![CDATA[
Reconstitution of BNIP3/NIX-mediated autophagy reveals two pathways and hierarchical flexibility of the initiation machinery
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https://biorxiv.org/cgi/content/short/2024.08.28.609967v1?rss=1"
Adriaenssens, E.Schaar, S.Cooke, A. S. I.Stuke, J. F. M.Sawa-Makarska, J.Nguyen, T. N.Ren, X.Schuschnig, M.Romanov, J.Khuu, G.Lazarou, M.Hummer, G.Hurley, J. H.Martens, S.2024-08-28doi:10.1101/2024.08.28.609967Cold Spring Harbor Laboratory Press2024-08-28
<![CDATA[
A dual ribosomal system in the zebrafish soma and germline
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https://biorxiv.org/cgi/content/short/2024.08.29.610041v1?rss=1"
Shah, A. N.Leesch, F.Lorenzo-Orts, L.Grundmann, L.Novatchkova, M.Haselbach, D.Calo, E.Pauli, A.2024-08-30doi:10.1101/2024.08.29.610041Cold Spring Harbor Laboratory Press2024-08-30
<![CDATA[
The type III-B CRISPR-Cas System Affects Energy Metabolism and Adaptation in the Archaeon Saccharolobus solfataricus
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https://biorxiv.org/cgi/content/short/2024.09.02.610847v1?rss=1"
Wimmer, E.Zink, I. A.Hodgskiss, L. H.Kerou, M.Schleper, C.2024-09-02doi:10.1101/2024.09.02.610847Cold Spring Harbor Laboratory Press2024-09-02
<![CDATA[
Differential splice isoforms of mouse CDK2 play functionally redundant roles during mitotic and meiotic division
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https://biorxiv.org/cgi/content/short/2024.09.03.610967v1?rss=1"
Palmer, N.Talib, S. Z. A.Ow, J. R.Tabaglio, T.Goh, C. M. F.Zhao, L. N.Guccione, E.Liu, K.Kaldis, P.2024-09-04doi:10.1101/2024.09.03.610967Cold Spring Harbor Laboratory Press2024-09-04
<![CDATA[
Multi-tissue proteomics identifies a link between satellite DNA organization and transgenerational transposon repression in Drosophila
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https://biorxiv.org/cgi/content/short/2023.07.11.548599v1?rss=1"
Chavan, A.Skrutl, L.Uliana, F.Pfister, M.Burke, D. F.Braendle, F.Beltrao, P.Jagannathan, M.2023-07-12doi:10.1101/2023.07.11.548599Cold Spring Harbor Laboratory Press2023-07-12
<![CDATA[
Urinary multi-omics reveal non-invasive diagnostic biomarkers in clear cell renal cell carcinoma
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https://biorxiv.org/cgi/content/short/2024.08.12.607453v1?rss=1"
Jonsson, G.Hofmann, M.Oliveira, T.Lemberger, U.Stejskal, K.Krssakova, G.Sakic, I.Novatchkova, M.Mereiter, S.Grabmann, G.Koecher, T.Kikic, Z.Rechberger, G. N.Zuellig, T.Englinger, B.Schmidinger, M.Penninger, J. M.2024-08-13doi:10.1101/2024.08.12.607453Cold Spring Harbor Laboratory Press2024-08-13
<![CDATA[
A genome-wide association screen for genes affecting leaf trichome development and epidermal metal accumulation in Arabidopsis
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https://biorxiv.org/cgi/content/short/2024.09.10.612273v1?rss=1"
Bezvoda, R.Landeo-Rios, Y. M.Kubatova, Z.Kollarova, E.Kulich, I.Busch, W.Zarsky, V.Cvrckova, F.2024-09-13doi:10.1101/2024.09.10.612273Cold Spring Harbor Laboratory Press2024-09-13
<![CDATA[
The expansion and diversification of epigenetic regulatory networks underpins major transitions in the evolution of land plants
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https://biorxiv.org/cgi/content/short/2024.09.22.614159v1?rss=1"
Petroll, R.Papareddy, R. K.Krela, R.Laigle, A.Riviere, Q.Bisova, K.Mozgova, I.Borg, M.2024-09-22doi:10.1101/2024.09.22.614159Cold Spring Harbor Laboratory Press2024-09-22
<![CDATA[
Bisulphite sequencing in the presence of cytosine-conversion errors
]]>
https://biorxiv.org/cgi/content/short/2024.09.16.613193v1?rss=1"
Ellis, T. J.Nizhynska, V.Pisupati, R.Molla-Morales, A.Nordborg, M.2024-09-19doi:10.1101/2024.09.16.613193Cold Spring Harbor Laboratory Press2024-09-19
<![CDATA[
A regulatory module driving the recurrent evolution of irreducible molecular complexes.
]]>
https://biorxiv.org/cgi/content/short/2024.09.16.613340v1?rss=1"
Tikanova, P.Ross, J. J.Hagmueller, A.Puehringer, F.Pliota, P.Krogull, D.Stefania, V.Hunold, M.Koreshova, A.Koller, A.Ostapchuk, I.Okweri, J.Gokcezade, J.Duchek, P.Dong, G.Ben-David, E.Burga, A.2024-09-18doi:10.1101/2024.09.16.613340Cold Spring Harbor Laboratory Press2024-09-18
<![CDATA[
The evolution and developmental dynamics of histone-based chromatin regulation in Annelida
]]>
https://biorxiv.org/cgi/content/short/2024.09.20.614060v1?rss=1"
Martin-Zamora, F. M.Cole, J.Donnellan, R. D.Guynes, K.Carrillo-Baltodano, A. M.Dickman, M. J.Hurd, P. J.Martin-Duran, J. M.2024-09-23doi:10.1101/2024.09.20.614060Cold Spring Harbor Laboratory Press2024-09-23
<![CDATA[
GuaCAMOLE: GC-bias aware estimation improves the accuracy of metagenomic species abundances
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https://biorxiv.org/cgi/content/short/2024.09.20.614100v1?rss=1"
Holcik, L.von Haeseler, A.Pflug, F. G.2024-09-23doi:10.1101/2024.09.20.614100Cold Spring Harbor Laboratory Press2024-09-23
<![CDATA[
k-mer-based GWAS in a wheat collection reveals novel and diverse sources of powdery mildew resistance
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https://biorxiv.org/cgi/content/short/2024.10.03.616421v1?rss=1"
Jaegle, B.Voichek, Y.Haupt, M.Sotiropoulos, A. G.Gauthier, K.Heuberger, M.Jung, E.Herren, G.Widrig, V.Leber, R.Li, Y.Schierscher, B.Serex, S.Boczkowska, M.Puchta, M.Bolc, P.Chalhoub, B.Stein, N.Keller, B.Sanchez-Martin, J.2024-10-04doi:10.1101/2024.10.03.616421Cold Spring Harbor Laboratory Press2024-10-04
<![CDATA[
Convergence of orphan quality control pathways at a ubiquitin chain-elongating ligase
]]>
https://biorxiv.org/cgi/content/short/2024.08.07.607117v1?rss=1"
Roas, S. C.Yagita, Y.Murphy, P.Kurzbauer, R.Clausen, T.Zavodszky, E.Hegde, R. S.2024-08-08doi:10.1101/2024.08.07.607117Cold Spring Harbor Laboratory Press2024-08-08
<![CDATA[
Quantitative imaging of loop extruders rebuilding interphase genome architecture after mitosis
]]>
https://biorxiv.org/cgi/content/short/2024.05.29.596439v1?rss=1"
Brunner, A.Morero, N. R.Zhang, W.Hossain, M. J.Lampe, M.Pflaumer, H.Halavatyi, A.Peters, J.-M.Beckwith, K. S.Ellenberg, J.2024-05-30doi:10.1101/2024.05.29.596439Cold Spring Harbor Laboratory Press2024-05-30
<![CDATA[
A journey towards developing a new cleavable crosslinker reagent for in-cell crosslinking
]]>
https://biorxiv.org/cgi/content/short/2024.11.05.621843v1?rss=1"
View larger version (13K):
org.highwire.dtl.DTLVardef@1821ed4org.highwire.dtl.DTLVardef@1b6180dorg.highwire.dtl.DTLVardef@1e50aaborg.highwire.dtl.DTLVardef@1f6185_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Mueller, F.Brutiu, B. R.Saridakis, I.Leischner, T.Birklbauer, M. J.Matzinger, M.Madalinski, M.Lendl, T.Shaaban, S.Dorfer, V.Maulide, N.Mechtler, K.2024-11-06doi:10.1101/2024.11.05.621843Cold Spring Harbor Laboratory Press2024-11-06
<![CDATA[
In silico analysis of the evolution of root phenotypes during maize domestication in Neolithic soils of Tehuacan
]]>
https://biorxiv.org/cgi/content/short/2024.11.18.623787v1?rss=1"
Lopez-Valdivia, I.Vallebueno-Estrada, M.Rangarajan, H.Swarts, K.Benz, B.Blake, M.Sidhu, J. S.Perez-Limon, S.Sawers, R. J.Schneider, H.Lynch, J.2024-11-19doi:10.1101/2024.11.18.623787Cold Spring Harbor Laboratory Press2024-11-19
<![CDATA[
PHLPP2 is a pseudophosphatase that lost activity in the metazoan ancestor
]]>
https://biorxiv.org/cgi/content/short/2024.12.03.625870v1?rss=1"
Husremovic, T.Siess, K. M.Antonioli, S.Piech, L.Meier, V.Grishkovskaya, I.Kircheva, N.Angelova, S. E.Brandstaetter, A.Veis, J.Miocic-Stosic, F.Anrather, D.Hartl, M.Truebestein, L.Zagrovic, B.Hann, S.Bock, C.Ogris, E.Dudev, T.Irwin, N. A. T.Haselbach, D.Leonard, T. A.2024-12-04doi:10.1101/2024.12.03.625870Cold Spring Harbor Laboratory Press2024-12-04
<![CDATA[
Biofilm lifestyle as a common trait of ammonia-oxidizing archaea
]]>
https://biorxiv.org/cgi/content/short/2024.11.18.624116v1?rss=1"
Dreer, M.Pribasnig, T.Hodgskiss, L. H.Luo, Z.-H.Pozaric, F.Schleper, C.2024-11-18doi:10.1101/2024.11.18.624116Cold Spring Harbor Laboratory Press2024-11-18
<![CDATA[
Reconstitution of Human Brain Cell Diversity in Organoids via Four Protocols
]]>
https://biorxiv.org/cgi/content/short/2024.11.15.623576v1?rss=1"
Naas, J.Balmana, M.Holcik, L.Novatchkova, M.Dobnikar, L.Krausgruber, T.Ladstatter, S.Bock, C.von Haeseler, A.Esk, C.Knoblich, J. A.2024-11-17doi:10.1101/2024.11.15.623576Cold Spring Harbor Laboratory Press2024-11-17
<![CDATA[
Notch Signaling Drives Pro-Regenerative and Migratory Traits in Glandular Stem/Progenitor Cells
]]>
https://biorxiv.org/cgi/content/short/2024.11.27.625738v1?rss=1"
Cinat, D.Maturi, R.Gunawan, J. P.Jellema-de Bruin, A. L.Kracht, L.Martinez, P. S.Wu, Y.Soto-Gamez, A.van Goethem, M.-J.Holtman, I. R.Pringle, S.Barazzuol, L.Coppes, R. P.2024-11-28doi:10.1101/2024.11.27.625738Cold Spring Harbor Laboratory Press2024-11-28
<![CDATA[
The adaptation of chlamydiae to facultative host multicellularity
]]>
https://biorxiv.org/cgi/content/short/2024.11.28.625222v1?rss=1"
Helmlinger, L.Arthofer, P.Cyran, N.Collingro, A.Horn, M.2024-11-28doi:10.1101/2024.11.28.625222Cold Spring Harbor Laboratory Press2024-11-28
<![CDATA[
At-RS31 orchestrates hierarchical cross-regulation of splicing factors and integrates alternative splicing with TOR-ABA pathways
]]>
https://biorxiv.org/cgi/content/short/2024.12.04.626797v1?rss=1"
Koster, T.Venhuizen, P.Lewinski, M.Petrillo, E.Marquez, Y.Fuchs, A.Ray, D.Nimeth, B. A.Riegler, S.Franzmeier, S.Zhong, H.Hudges, T.Morris, Q.Barta, A.Staiger, D.Kalyna, M.2024-12-07doi:10.1101/2024.12.04.626797Cold Spring Harbor Laboratory Press2024-12-07
<![CDATA[
Nonuple atg8 mutant provides genetic evidence for functional specialization of ATG8 isoforms in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2024.12.10.627464v1?rss=1"
Del Chiaro, A.Grujic, N.Zhao, J.Papareddy, R. K.Gao, P.Ma, J.Loefke, C.Bhattacharya, A.Gruetzner, R.Bourguet, P.Berger, F.Kang, B.-H.Marillonnet, S.Dagdas, Y.2024-12-10doi:10.1101/2024.12.10.627464Cold Spring Harbor Laboratory Press2024-12-10
<![CDATA[
Architecture of the UBR4 complex, a giant E4 ligase central to eukaryotic protein quality control
]]>
https://biorxiv.org/cgi/content/short/2024.12.18.629163v1?rss=1"
Grabarczyk, D. B.Ehrmann, J. F.Murphy, P.Kurzbauer, R.Bell, L. E.Deszcz, L.Neuhold, J.Schleiffer, A.Shulkina, A.Versteeg, G. A.Meinhart, A.Zavodszky, E.Hegde, R. S.Clausen, T.2024-12-20doi:10.1101/2024.12.18.629163Cold Spring Harbor Laboratory Press2024-12-20
<![CDATA[
Engineering an Exo70 integrated domain of a barley NLR for improved blast resistance
]]>
https://biorxiv.org/cgi/content/short/2024.12.24.630226v1?rss=1"
Saado, I.Brabham, H.Bennett, J. W.Lam, A. H. C.Hernandez-Pinzon, I.Moscou, M. J.Concepcion, J. C. D. l.Banfield, M. J.2024-12-24doi:10.1101/2024.12.24.630226Cold Spring Harbor Laboratory Press2024-12-24
<![CDATA[
The coordinated action of UFMylation and ribosome-associated quality control pathway clears arrested nascent chains at the endoplasmic reticulum
]]>
https://biorxiv.org/cgi/content/short/2025.01.17.633636v1?rss=1"
Mihailovic, M.Anisimova, A. S.Erte, B.Styliara, I.Zhan, N.Dagdas, Y.Karagoz, G. E.2025-01-18doi:10.1101/2025.01.17.633636Cold Spring Harbor Laboratory Press2025-01-18
<![CDATA[
Effector-triggered processing body formation attenuates host translation via ER stress responses and autophagy upon bacterial infection
]]>
https://biorxiv.org/cgi/content/short/2025.01.09.632196v1?rss=1"
Gonzalez-Fuente, M.Schulz, N.Abdrakhmanov, A.Izzati, G.Zhu, S.Langin, G.Gouguet, P.Franz-Wachtel, M.Macek, B.Hafren, A.Dagdas, Y.Üstün, S.2025-01-14doi:10.1101/2025.01.09.632196Cold Spring Harbor Laboratory Press2025-01-14
<![CDATA[
Feeder-free culture of naive human pluripotent stem cells retaining embryonic, extraembryonic and blastoid generation potential
]]>
https://biorxiv.org/cgi/content/short/2025.01.17.633522v1?rss=1"
Rossignoli, G.Oberhuemer, M.Brun, I. S.Zorzan, I.Osnato, A.Wenzel, A.van Genderen, E.Drusin, A.Panebianco, G.Magri, N.Solis, M. A.Colantuono, C.van Knippenberg, S. S. F. A.Pham, T. X. A.Khodeer, S.Grumati, P.Cacchiarelli, D.Martini, P.Rivron, N. C.Pasque, V.Zylicz, J. J.Leeb, M.Martello, G.2025-01-20doi:10.1101/2025.01.17.633522Cold Spring Harbor Laboratory Press2025-01-20
<![CDATA[
Two CTCF motifs impede cohesin-mediated DNA loop extrusion
]]>
https://biorxiv.org/cgi/content/short/2025.01.26.634934v1?rss=1"
Barth, R.Janissen, R.Muras, L.van der Torre, J.Litos, G.van der Sluis, E.van der Graaf, A.Davidson, I. F.Peters, J.-M.Dekker, C.2025-01-26doi:10.1101/2025.01.26.634934Cold Spring Harbor Laboratory Press2025-01-26
<![CDATA[
The SP140-RESIST pathway regulates interferon mRNA stability and antiviral immunity
]]>
https://biorxiv.org/cgi/content/short/2024.08.28.610186v1?rss=1"
Witt, K. C.Dziulko, A.An, J.Lee, O. V.Liu, G.Lari, A. C.Chavez, R.Turner, D. J.Cheng, A.Kotov, D. I.Abraham, P.Lee, A. Y.Dhaliwal, H.Coscoy, L.Glaunsinger, B.Chuong, E.Vance, R.2024-08-29doi:10.1101/2024.08.28.610186Cold Spring Harbor Laboratory Press2024-08-29
<![CDATA[
High-Throughput Glycan Array Screening Reveals Rhamnogalacturonan-I as a Ligand for Arabidopsis Leucine-Rich Repeat Receptor Kinases
]]>
https://biorxiv.org/cgi/content/short/2025.01.29.635407v1?rss=1"
350 extracellular domains (ECDs) of receptor kinases and receptor like proteins in Arabidopsis, resulting in the screening of >40,000 interactions. We discovered a group of leucine-rich repeat receptor kinases named ARMs (AWARENESS of RG-I MAINTENANCES) that interact with rhamnogalacturonan-I (RG-I), a major component of pectin. RG-I treatment induced pattern-triggered immunity responses, with distinct kinetics compared to oligogalacturonide responses. We identified RG-I oligosaccharide structures required for interaction with ARM receptors and immune activation, and found that ARM receptors are redundantly involved in plant immunity. Collectively, our approach provides a powerful platform for discovering glycan-receptor pairs in plants, facilitating a more comprehensive understanding of cell wall surveillance mechanisms in plant immunity.
]]>LEE, D.Ruprecht, C.Lee, J.-M.Choi, M.-S.Hrovat, T.Heo, G.Edelbacher, N.Enugutti, B.Blaukopf, M.Cho, C. H.Lee, H.-S.Belkhadir, Y.Smakowska-Luzan, E.Pfrengle, F.2025-01-31doi:10.1101/2025.01.29.635407Cold Spring Harbor Laboratory Press2025-01-31
<![CDATA[
Insights into adhesive and neuronal cell populations of the chaetognath Spadella cephaloptera using a single-nuclei transcriptomic atlas and genomic resources
]]>
https://biorxiv.org/cgi/content/short/2025.01.31.635879v1?rss=1"
Barrera Grijalba, C. C.Ordonez, J. F.Montenegro, J.Wollesen, T.2025-01-31doi:10.1101/2025.01.31.635879Cold Spring Harbor Laboratory Press2025-01-31
<![CDATA[
Improving American chestnut resistance to two invasive pathogens through genome-enabled breeding
]]>
https://biorxiv.org/cgi/content/short/2025.01.30.635736v1?rss=1"
Westbrook, J. W.Malukiewicz, J.Sreedasyam, A.Jenkins, J. W.Zhang, Q.Lakoba, V.Fitzsimmons, S. F.Van Clief, J.Collins, K.Hoy, S.Stark, C.Grabowski, L.Jenkins, E.Saielli, T.Jarrett, B. T.Wigfield, L.Kerwien, L. M.Wilbur, C.Sandercock, A.Craddock, J. H.Zannini, P.Kerio, S.Zhebentyayeva, T.Fan, S.Thomas, A.Abbott, A.Nelson, C. D.Xia, X.Williams, M.Boston, L.Plott, C.Carle, F.Swatt, J.Ostroff, J.Jeffers, S.Mckeever, K.Smith, E.Ellis, T. J.James, J. B.Sisco, P.Newhouse, A. E.Carlson, E.Powell, W. A.Hebard, F. V.S2025-02-01doi:10.1101/2025.01.30.635736Cold Spring Harbor Laboratory Press2025-02-01
<![CDATA[
A maize near-isogenic line population designed for gene discovery and characterization of allelic effects
]]>
https://biorxiv.org/cgi/content/short/2025.01.29.635337v1?rss=1"
Zhong, T.Mullens, A.Morales, L.Swarts, K.Stafstrom, W.He, Y.Sermons, S.Yang, Q.Lopez-Zuniga, L. O.Rucker, E.Thomason, W.Nelson, R.Jamann, T. M.Balint-Kurti, P.Holland, J. B.2025-02-02doi:10.1101/2025.01.29.635337Cold Spring Harbor Laboratory Press2025-02-02
<![CDATA[
Pannagram: unbiased pangenome alignment and the Mobilome calling
]]>
https://biorxiv.org/cgi/content/short/2025.02.07.637071v1?rss=1"
Igolkina, A. A.Bezlepsky, A. D.Nordborg, M.2025-02-08doi:10.1101/2025.02.07.637071Cold Spring Harbor Laboratory Press2025-02-08
<![CDATA[
A fluorescent folding reporter uncovers myosin misfolding as a driver of Hypertrophic Cardiomyopathy
]]>
https://biorxiv.org/cgi/content/short/2025.02.10.636595v1?rss=1"
Arnese, R.Dexheimer, P. J.Escobar Doncel, B.Krueger, L.Adhikari, G.Krpan, N.Sehr, D.Kley, J.Deszcz, L.Meinhart, A.Kirstein, J.Clausen, T.2025-02-11doi:10.1101/2025.02.10.636595Cold Spring Harbor Laboratory Press2025-02-11
<![CDATA[
Cohesin guides homology search during DNA repairvia loops and sister chromatid linkages
]]>
https://biorxiv.org/cgi/content/short/2025.02.10.637359v1?rss=1"
Teloni, F.Takacs, Z.Mitter, M.Langer, C. C. H.Prlesi, I.Steinacker, T. L.Reuter, V. P.Mylarshchikov, D.Gerlich, D. W.2025-02-10doi:10.1101/2025.02.10.637359Cold Spring Harbor Laboratory Press2025-02-10
<![CDATA[
A functional map of phosphoprotein phosphatase regulation identifies an evolutionary conserved reductase for the catalytic metal ions
]]>
https://biorxiv.org/cgi/content/short/2025.02.12.637884v1?rss=1"
Meeusen, B.Ambjoern, S.Veis, J.Riley, R.Vit, G.Brauer, B.Moeller, M.Greiner, E. C.Chan, C.Weisser, M.Garvanska, D.Zhu, H.Davey, N. E.Kettenbach, A.Ogris, E.Nilsson, J.2025-02-16doi:10.1101/2025.02.12.637884Cold Spring Harbor Laboratory Press2025-02-16
<![CDATA[
Static morphogen scaling enables proportional growth in tissue growth model inspired by axolotl limb regeneration
]]>
https://biorxiv.org/cgi/content/short/2025.02.14.638295v1?rss=1"
Lyubaykina, N.Knapp, D.Tardivo, P.Sandoval-Guzman, T.Friedrich, B. M.2025-02-17doi:10.1101/2025.02.14.638295Cold Spring Harbor Laboratory Press2025-02-17
<![CDATA[
Specific origin selection and excess functional MCM2-7 loading in ORC-deficient cells.
]]>
https://biorxiv.org/cgi/content/short/2024.10.30.621095v1?rss=1"
Shibata, Y.Peycheva, M.Shibata, E.Malzl, D.Pavri, R.Dutta, A.2024-10-30doi:10.1101/2024.10.30.621095Cold Spring Harbor Laboratory Press2024-10-30
<![CDATA[
Phytochrome A is required for light-inhibited germination of Aethionema arabicum seed
]]>
https://biorxiv.org/cgi/content/short/2025.02.26.640300v1?rss=1"
Merai, Z.Xu, F.Hajdu, A.Kozma-Bognar, L.Dolan, L.2025-02-28doi:10.1101/2025.02.26.640300Cold Spring Harbor Laboratory Press2025-02-28
<![CDATA[
In vivo crosslinking and effective 2D enrichment for interactome studies of the nucleosome.
]]>
https://biorxiv.org/cgi/content/short/2025.02.25.640081v1?rss=1"
Braeuer, P.Tirian, L.Mueller, F.Mechtler, K.Matzinger, M.2025-02-28doi:10.1101/2025.02.25.640081Cold Spring Harbor Laboratory Press2025-02-28
<![CDATA[
Breaking Barriers in Crosslinking Mass Spectrometry: Enhanced Throughput and Sensitivity with the Orbitrap Astral Mass Analyzer
]]>
https://biorxiv.org/cgi/content/short/2024.12.21.629875v1?rss=1"
Mueller, F.Stejskal, K.Mechtler, K.2024-12-21doi:10.1101/2024.12.21.629875Cold Spring Harbor Laboratory Press2024-12-21
<![CDATA[
A TNL receptor mediates microbiome feedbacks in Arabidopsis
]]>
https://biorxiv.org/cgi/content/short/2025.02.25.640125v1?rss=1"
Janse van Rensburg, H.Schandry, N.Waelchli, J.Stengele, K.Cadot, S.Jandrasits, K.Becker, C.Schlaeppi, K.2025-02-25doi:10.1101/2025.02.25.640125Cold Spring Harbor Laboratory Press2025-02-25
<![CDATA[
The Structural Dynamics of IRE1 and its Interaction with Unfolded Peptides
]]>
https://biorxiv.org/cgi/content/short/2025.02.28.640832v1?rss=1"
Spinetti, E.Karagöz, G. E.Covino, R.2025-03-03doi:10.1101/2025.02.28.640832Cold Spring Harbor Laboratory Press2025-03-03
<![CDATA[
Fluorescence Lifetime Unmixing: A New Workflow for FLIM Live-Cell Imaging
]]>
https://biorxiv.org/cgi/content/short/2025.03.05.641717v1?rss=1"
Wetzker, C.Zoccoler, M. L.Iarovenko, S.Okafornta, C. W.Nobst, A.Hartmann, H.Mueller-Reichert, T.Haase, R.Fabig, G.2025-03-06doi:10.1101/2025.03.05.641717Cold Spring Harbor Laboratory Press2025-03-06
<![CDATA[
Constitutively active RAS prolongs Cdc42 signalling while attenuating MAPK signalling during fission yeast mating
]]>
https://biorxiv.org/cgi/content/short/2025.03.06.641927v1?rss=1"
Kelsall, E. J.Kimura, A.Vertesy, A.Straatman, K.Tariq, M.Gadea, R.Parmar, C.Schreiber, G.Randhawa, S.Ida, T. Y.Dominguez, C.Klipp, E.Tanaka, K.2025-03-06doi:10.1101/2025.03.06.641927Cold Spring Harbor Laboratory Press2025-03-06
<![CDATA[
MarpolBase: Genome database for Marchantia polymorpha featuring high quality reference genome sequences
]]>
https://biorxiv.org/cgi/content/short/2025.03.30.646155v1?rss=1"
Tanizawa, Y.Mochizuki, T.Yagura, M.Sakamoto, M.Fujisawa, T.Kawamura, S.Shimokawa, E.Yamaoka, S.Nishihama, R.Bowman, J. L.Berger, F.Yamato, K.Kohchi, T.Nakamura, Y.2025-04-03doi:10.1101/2025.03.30.646155Cold Spring Harbor Laboratory Press2025-04-03
<![CDATA[
Plant genetic and root-associated microbial diversity modulate Lactuca sativa responsiveness to a soil inoculum under phosphate deficiency
]]>
https://biorxiv.org/cgi/content/short/2025.04.02.646582v1?rss=1"
Capparotto, A.Salvucci, P.Ciampanelli, A.Sello, S.Sudiro, C.Clauw, P.Altissimo, A.Vuolo, F.Giovannetti, M.2025-04-02doi:10.1101/2025.04.02.646582Cold Spring Harbor Laboratory Press2025-04-02
<![CDATA[
Root hair lifespan is antagonistically controlled by autophagy and programmed cell death
]]>
https://biorxiv.org/cgi/content/short/2025.03.18.643910v1?rss=1"
View larger version (80K):
org.highwire.dtl.DTLVardef@1bd570borg.highwire.dtl.DTLVardef@19db5eborg.highwire.dtl.DTLVardef@11279fborg.highwire.dtl.DTLVardef@661c7_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Feng, Q.Zhu, S.Wang, X.Liu, Y.Zhao, J.Dagdas, Y.Nowack, M. K.2025-03-19doi:10.1101/2025.03.18.643910Cold Spring Harbor Laboratory Press2025-03-19
<![CDATA[
Cell-type specific autophagy in root hair forming cells is essential for salt stress tolerance in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2025.03.18.643786v1?rss=1"
Zhao, J.Loefke, C.Yeung, K. C.Chen, Y.Dagdas, Y.2025-03-18doi:10.1101/2025.03.18.643786Cold Spring Harbor Laboratory Press2025-03-18
<![CDATA[
The Stmn1-lineage contributes to acinar regeneration but not to neoplasia upon oncogenic Kras expression
]]>
https://biorxiv.org/cgi/content/short/2025.03.18.643944v1?rss=1"
Dahiya, S.Reyes Arbujas, J.Hajihassani, A.Amini, S.Wageley, M.Gurbuz, K.Ma, Z.Copeland, C.Saleh, M.Gittes, G. K.Koo, B.-K.DelGiorno, K. E.Esni, F.2025-03-19doi:10.1101/2025.03.18.643944Cold Spring Harbor Laboratory Press2025-03-19
<![CDATA[
In vitro approaches to study centriole and cilium function in early mouse embryogenesis
]]>
https://biorxiv.org/cgi/content/short/2025.03.21.644416v1?rss=1"
Voelkl, I.Civetta, T.Egg, M.Huber, M.Feng, S.Dammermann, A.Buecker, C.2025-03-21doi:10.1101/2025.03.21.644416Cold Spring Harbor Laboratory Press2025-03-21
<![CDATA[
Flagellar pocket collar biogenesis: Cytoskeletal organization and novel structures in a unicellular parasite
]]>
https://biorxiv.org/cgi/content/short/2025.03.23.644790v1?rss=1"
Zelena, M.Casas, E.Lambert, C.Landrein, N.Dacheux, D.Abesamis, K. I.Dong, G.Varga, V.Robinson, D. R.BONHIVERS, M.2025-03-23doi:10.1101/2025.03.23.644790Cold Spring Harbor Laboratory Press2025-03-23
<![CDATA[
Effects of base temperature, immersion medium, and EM grid material on devitrification thresholds in cryogenic optical super-resolution microscopy
]]>
https://biorxiv.org/cgi/content/short/2025.03.28.645948v1?rss=1"
Mojiri, S.Dobbs, J. M.Faul, N.Burg, T. P.Mahamid, J.Ries, J.2025-03-28doi:10.1101/2025.03.28.645948Cold Spring Harbor Laboratory Press2025-03-28
<![CDATA[
Dual regulation of the unfolded protein response by IGF2BP3 during ER stress
]]>
https://biorxiv.org/cgi/content/short/2025.03.29.646117v1?rss=1"
Anisimova, A. S.Hornegger, H.Fischer, I.Versteeg, G. A.Ameres, S. L.Karagoz, G. E.2025-03-31doi:10.1101/2025.03.29.646117Cold Spring Harbor Laboratory Press2025-03-31
<![CDATA[
Direct cell-to-cell transmission of retrotransposons
]]>
https://biorxiv.org/cgi/content/short/2025.03.14.642691v1?rss=1"
Voichek, M.Bernhard, A.Novatchkova, M.Handler, D.Möseneder, P.Rafanel, B.Duchek, P.Senti, K.-A.Brennecke, J.2025-03-15doi:10.1101/2025.03.14.642691Cold Spring Harbor Laboratory Press2025-03-15
<![CDATA[
Loss-of-Function genetic Screen Unveils Synergistic Efficacy of PARG Inhibition with Combined 5-Fluorouracil and Irinotecan Treatment in Colorectal Cancer
]]>
https://biorxiv.org/cgi/content/short/2025.03.29.644889v1?rss=1"
Queralt, C.Moreta-Moraleda, C.Costa, M.Grau-Leal, F.Diesch, J.Vendrell-Ayats, C.Musulen, E.Buges, C.Manzano, J. L.Cabrero, S.Zuber, J.Buschbeck, M.Forcales, S.-V.Martinez-Balibrea, E.2025-04-02doi:10.1101/2025.03.29.644889Cold Spring Harbor Laboratory Press2025-04-02
<![CDATA[
The essential role of connective-tissue cells during axolotl limb regeneration
]]>
https://biorxiv.org/cgi/content/short/2025.03.30.645595v1?rss=1"
Garcia-Garcia, D.Knapp, D.Kim, M.Jamwal, K.Fuqua, H.Seaman, R. P.Grindle, R. E.Nowoshilow, S.Novatchkova, M.Kolling, F. W.Graber, J. H.Murawala, P.2025-04-02doi:10.1101/2025.03.30.645595Cold Spring Harbor Laboratory Press2025-04-02
<![CDATA[
Immune surveillance and pruning of neuronal stem cells in the medaka retina
]]>
https://biorxiv.org/cgi/content/short/2025.04.01.646524v1?rss=1"
Agarwal, R.Benjaminsen, J.Lust, K.Becker, C.Fuchs, N.Hasel de Carvalho, E.Eggeler, F.El Said Ibrahim, O.Aghaallaei, N.Bajoghli, B.Wittbrodt, J.2025-04-03doi:10.1101/2025.04.01.646524Cold Spring Harbor Laboratory Press2025-04-03
<![CDATA[
CIP2A is required for mitotic recruitment of the SLX1/XPF/MUS81 tri-nuclease complex to replication stress-induced DNA lesions to maintain genome integrity
]]>
https://biorxiv.org/cgi/content/short/2025.04.03.647079v1?rss=1"
de Haan, L.Dijt, S.Lopez, A. G.Ruan, D.Bakker, F.Everts, M.Warner, H.Mol, F. N.de Boer, R.Huis in 't Veld, P.van de Kooij, B.Vlijm, R.van Vugt, M.2025-04-04doi:10.1101/2025.04.03.647079Cold Spring Harbor Laboratory Press2025-04-04
<![CDATA[
Structural basis for the ubiquitin chain recognition of the human 26S proteasome
]]>
https://biorxiv.org/cgi/content/short/2025.04.07.647569v1?rss=1"
Amann, S. J.Kalis, R.Fottner, M.Knaudt, H.Grishkovskaya, I.Kotisch, H.Zuber, J.Lang, K.Brown, N. G.Haselbach, D.2025-04-08doi:10.1101/2025.04.07.647569Cold Spring Harbor Laboratory Press2025-04-08
<![CDATA[
A moss N-Acetyltransferase-MAPK protein controls 2D to 3D developmental transition via acetylation and phosphorylation changes
]]>
https://biorxiv.org/cgi/content/short/2025.05.02.650421v1?rss=1"
de Luxan Hernandez, C.Ammitsoe, T. J.Kanne, J. V.Stanimirovic, S.Roux, M.Weeks, Z.Schutzbier, M.Dürnberger, G.Roitinger, E.Zhang, L.Spadiut, O.Ishikawa, M.Hasebe, M.Moody, L.Dagdas, Y.Rodriguez, E.Petersen, M.2025-05-03doi:10.1101/2025.05.02.650421Cold Spring Harbor Laboratory Press2025-05-03
<![CDATA[
The cytochrome P450 enzyme MpCYP78E1 inhibits meristem initiation and activity in Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2025.04.28.651025v1?rss=1"
Spencer, V.Casey, C.Mosiolek, M.Jandrasits, K.Edelbacher, N.Dolan, L.2025-04-30doi:10.1101/2025.04.28.651025Cold Spring Harbor Laboratory Press2025-04-30
<![CDATA[
Transposable elements are prevalent vectors of transgenerational epigenetic inheritance in nature
]]>
https://biorxiv.org/cgi/content/short/2024.09.20.614076v1?rss=1"
700 strains collected worldwide, we uncover natural hypomethylation at hundreds of the same TE loci, often situated near stress-responsive genes. Like their experimental counterparts, most natural epivariants we tested can be inherited without DNA sequence changes and are therefore bona fide epialleles, although genetic factors modulate their recurrence or persistence. Crucially, we demonstrate that TE-mediated epiallelic variation associated with differential gene expression is generally causal and may be target of selection in specific environments, thus establishing its importance in nature.
]]>Baduel, P.De Oliveira, L.Caillieux, E.Bohl-Viallefond, G.El Messaoudi, M.Xu, C.Barois, M.Singh, V.Sarazin, A.Boccara, M.Gilbault, E.de France, A.Quadrana, L.Loudet, O.Colot, V.2024-09-24doi:10.1101/2024.09.20.614076Cold Spring Harbor Laboratory Press2024-09-24
<![CDATA[
Life-history trade-offs explain local adaptation in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2025.05.18.654693v1?rss=1"
Brachi, B.Filiault, D.Pisupati, R.Dahan, T.Igolkina, A.Anastasio, A.Box, M. S.Duncan, S.Karasov, T.Kerdaffrec, E.Merwin, L.Morton, T.Nizhynska, V.Novikova, P. Y.Rabanal, F. A.Tsuchimatsu, T.Sall, T.Dean, C.Holm, S.Bergelson, J.Nordborg, M.2025-05-23doi:10.1101/2025.05.18.654693Cold Spring Harbor Laboratory Press2025-05-23
<![CDATA[
Mechanism of activation of an ancestral Tec kinase by PIP3
]]>
https://biorxiv.org/cgi/content/short/2025.05.22.653117v1?rss=1"
Krötenheerdt, E.von Raussendorf, F.Reinhardt, R.Piëch, L.Wedige, N.Nyvall, H. G.Burke, J. E.Leonard, T. A.2025-05-27doi:10.1101/2025.05.22.653117Cold Spring Harbor Laboratory Press2025-05-27
<![CDATA[
Tomtom-lite: Accelerating Tomtom enables large-scale and real-time motif similarity scoring
]]>
https://biorxiv.org/cgi/content/short/2025.05.27.656386v1?rss=1"
Schreiber, J.2025-05-31doi:10.1101/2025.05.27.656386Cold Spring Harbor Laboratory Press2025-05-31
<![CDATA[
Caffeine-regulated molecular switches for functional control of CAR T cells in vivo
]]>
https://biorxiv.org/cgi/content/short/2025.06.13.659487v1?rss=1"
Sylvander, E.Salzer, B.Emminger, D.Baik, H.D'Accardio, G.Schaefer, M.Mouratidis, K.Buri, M. C.Maresch, D.Urbanetz, A.Seigner, J.Marchiori, E.Munoz-Lopez, A.Engert, F.Engels, B.Mittelstaet, J.van der Veeken, J.Rosato, A.Zuber, J.Putz, E. M.Zajc, C. U.Lehner, M.Traxlmayr, M. W.2025-06-13doi:10.1101/2025.06.13.659487Cold Spring Harbor Laboratory Press2025-06-13
<![CDATA[
Mechanisms of resistance to VHL loss-induced genetic and pharmacological vulnerabilities
]]>
https://biorxiv.org/cgi/content/short/2025.06.14.659649v1?rss=1"
Ge, J.Hirosue, S.Patel, S. A.Wesolowski, L.Dyas, A.Yong, C.Castillon, L.de Haan, S.Drost, J.Stewart, G. D.Obenauf, A.Munoz-Espin, D.Vanharanta, S.2025-06-20doi:10.1101/2025.06.14.659649Cold Spring Harbor Laboratory Press2025-06-20
<![CDATA[
Nutrient landscape shapes the genetic diversification of the human gut commensal Bacteroides thetaiotaomicron
]]>
https://biorxiv.org/cgi/content/short/2025.06.24.661248v1?rss=1"
Lang, M.Zioutis, C.Heberlein, A.Ivanovova, N.Schwarz, J.Koestlbacher, S.Bochkareva, O.Flanagan, K. J.Pereira, F. C.Berry, D.2025-06-24doi:10.1101/2025.06.24.661248Cold Spring Harbor Laboratory Press2025-06-24
<![CDATA[
Rapid genetic diversification of Bacteroides thetaiotaomicron in mono-associated mice revealed through deep population-level sequencing
]]>
https://biorxiv.org/cgi/content/short/2025.06.24.661302v1?rss=1"
Zioutis, C.Lang, M.Pereira, F. C.Bochkareva, O. O.Kolodyazhnaya, E.Osvatic, J.McCoy, K.Künzel, S.Fokt, H.Baines, J. F.Berry, D.2025-06-26doi:10.1101/2025.06.24.661302Cold Spring Harbor Laboratory Press2025-06-26
<![CDATA[
Nucleosome Positioning Shapes Cryptic Antisense Transcription
]]>
https://biorxiv.org/cgi/content/short/2025.07.14.664753v1?rss=1"
Kok, J. Y.Harvey, Z. H.Axelsson, E.Berger, F.2025-07-18doi:10.1101/2025.07.14.664753Cold Spring Harbor Laboratory Press2025-07-18
<![CDATA[
Conservation and divergence of UVR8-COP1/SPA-HY5 signaling in UV-B responses of Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2025.07.16.665153v1?rss=1"
Liang, Y.Podolec, R.Chappuis, R.Defossez, E.Glauser, G.Rötzer, J.Stolze, S. C.Dolan, L.Nakagami, H.Demarsy, E.Ulm, R.2025-07-17doi:10.1101/2025.07.16.665153Cold Spring Harbor Laboratory Press2025-07-17
<![CDATA[
Conservation of chromatin states and their association with transcription factors in land plants
]]>
https://biorxiv.org/cgi/content/short/2025.07.12.664529v1?rss=1"
Shukla, V.Axelsson, E.Hisanaga, T.Haseloff, J.Romani, F.Berger, F.2025-07-17doi:10.1101/2025.07.12.664529Cold Spring Harbor Laboratory Press2025-07-17
<![CDATA[
De novo meristem development in Marchantia requires light and an apical auxin minimum
]]>
https://biorxiv.org/cgi/content/short/2025.07.17.665278v1?rss=1"
View larger version (51K):
org.highwire.dtl.DTLVardef@c3c93org.highwire.dtl.DTLVardef@15d061borg.highwire.dtl.DTLVardef@3beacdorg.highwire.dtl.DTLVardef@1b45fd4_HPS_FORMAT_FIGEXP M_FIG C_FIG
]]>Wallner, E.-S.Edelbacher, N.Dolan, L.2025-07-21doi:10.1101/2025.07.17.665278Cold Spring Harbor Laboratory Press2025-07-21
<![CDATA[
Single cell proteomic analysis defines discrete neutrophil functional states in human glioblastoma
]]>
https://biorxiv.org/cgi/content/short/2025.07.23.666094v1?rss=1"
1,100 proteins from a single TAN providing a detailed characterization of neutrophil subsets in glioblastoma. Our approach shows evidence of pathogenic and anti-tumorigenic clusters and discovers cell states invisible to scRNAseq, opening new opportunities to selectively target pro-tumoural neutrophil states.
]]>Sadiku, P.Brenes, A. J.Mayer, R. L.Reyes, L.Coelho, P.van Stralen, G.Zhang, A.Sanchez-Garcia, M. A.Watts, E. R.Liaquat, I.Howden, A. J. M.Adekoya, I.Boldbaatar, A.MacRaild, A.Risbridger, S.Morrison, G. M.MacPherson, H.Bruce, C.Johnston, S.Grecian, R.Murphy, F. A.Pollard, S. M.Brennan, P. M.Mechtler, K.Walmsley, S. R.2025-07-27doi:10.1101/2025.07.23.666094Cold Spring Harbor Laboratory Press2025-07-27
<![CDATA[
Phagocytosis repurposed: infection strategies in a globalmarine diatom-parasite interaction
]]>
https://biorxiv.org/cgi/content/short/2025.07.29.667418v1?rss=1"
Mathur, V.Irwin, N.Galindo, L. J.Alacid, E.Cunliffe, M.Kim, S.Technau, U.Richards, T.2025-07-30doi:10.1101/2025.07.29.667418Cold Spring Harbor Laboratory Press2025-07-30
<![CDATA[
Microtubule end stabilisation by cooperative oligomers of Ska and Ndc80 complexes
]]>
https://biorxiv.org/cgi/content/short/2025.07.06.663352v1?rss=1"
Radhakrishnan, R. M.Stokes, L.Day, M.Huis in 't Veld, P. J.Volkov, V. A.2025-07-06doi:10.1101/2025.07.06.663352Cold Spring Harbor Laboratory Press2025-07-06
<![CDATA[
An effector from the potato late blight pathogen bridges ENTH-domain protein TOL9a to an activated helper NLR to suppress immunity
]]>
https://biorxiv.org/cgi/content/short/2025.07.06.663370v1?rss=1"
Madhuprakash, J.Toghani, A.Pai, H.Harvey, M.Bentham, A. R.Seager, B. A.Yuen, E. L. H.De la Concepcion, J. C.Lawson, D. M.Stevenson, C. E. M.Vergara-Cruces, A.Derevnina, L.Bozkurt, T. O.Banfield, M. J.Kamoun, S.Contreras, M. P.2025-07-08doi:10.1101/2025.07.06.663370Cold Spring Harbor Laboratory Press2025-07-08
<![CDATA[
Conformational asymmetry of replicated human chromosomes
]]>
https://biorxiv.org/cgi/content/short/2025.07.09.663929v1?rss=1"
Corsi, F.Kolesnikova, S.Steinacker, T. L.Takacs, Z.Batty, P.Mitter, M.Gerlich, D. W.Goloborodko, A.2025-07-14doi:10.1101/2025.07.09.663929Cold Spring Harbor Laboratory Press2025-07-14
<![CDATA[
Dynamic, yet well-defined organization of the FUS RGG3 dense phase
]]>
https://biorxiv.org/cgi/content/short/2025.07.09.663981v1?rss=1"
Polyansky, A. A.Fruehbauer, B.Zagrovic, B.2025-07-15doi:10.1101/2025.07.09.663981Cold Spring Harbor Laboratory Press2025-07-15
<![CDATA[
Rethinking scRNA-seq Trajectories in Phylogenetic Paradigms: Overcoming Challenges of Missing Ancestral Information
]]>
https://biorxiv.org/cgi/content/short/2025.07.22.664676v1?rss=1"
Naas, J.von Haeseler, A.Elgert, C.2025-07-25doi:10.1101/2025.07.22.664676Cold Spring Harbor Laboratory Press2025-07-25
<![CDATA[
Antisense transposon insertions into host genes trigger piRNA mediated immunity
]]>
https://biorxiv.org/cgi/content/short/2025.07.28.667215v1?rss=1"
Rafanel, B.Protsenko, L.Handler, D.Brennecke, J.Senti, K.-A.2025-07-31doi:10.1101/2025.07.28.667215Cold Spring Harbor Laboratory Press2025-07-31
<![CDATA[
A dual component system instructs membrane hydrolysis during the final stages of plant autophagy
]]>
https://biorxiv.org/cgi/content/short/2025.08.01.668046v1?rss=1"
Castets, J.Buridan, M.Toboso Moreno, I.Sanchez de Medina Hernandez, V.Gomez, R. E.Dittrich-Domergue, F.Lupette, J.Chambaud, C.Pascal, S.Ibrahim, T.Bozkurt, T. O.Dagdas, Y.Domergue, F.Joubes, J.Minina, A. E. A.Bernard, A.2025-08-02doi:10.1101/2025.08.01.668046Cold Spring Harbor Laboratory Press2025-08-02
<![CDATA[
Cryopreservation of Platynereis dumerilii larvae
]]>
https://biorxiv.org/cgi/content/short/2025.07.31.667934v1?rss=1"
Paredes, E.Getachew, B.Bezares-Calderon, L. A.Campos, S.Belokurov, A.Tessmar-Raible, K.2025-08-02doi:10.1101/2025.07.31.667934Cold Spring Harbor Laboratory Press2025-08-02
<![CDATA[
Structural framework for the assembly of the human tRNA ligase complex
]]>
https://biorxiv.org/cgi/content/short/2025.08.01.668197v1?rss=1"
Pfleiderer, M. M.Leitner, M.Nievergelt, A.Kroupova, A.Martinez, J.Jinek, M.2025-08-02doi:10.1101/2025.08.01.668197Cold Spring Harbor Laboratory Press2025-08-02
<![CDATA[
RPA directly stimulates Mer3/HFM1 helicase processivity to ensure normal crossover formation in meiosis
]]>
https://biorxiv.org/cgi/content/short/2025.08.02.668043v1?rss=1"
Altmannova, V.Orlic, L.Carrasco, C.Adam, C.Aicart-Ramos, C.Guerini, D.Borde, V.Matos, J.Moreno-Herrero, F.Weir, J. R.2025-08-02doi:10.1101/2025.08.02.668043Cold Spring Harbor Laboratory Press2025-08-02
<![CDATA[
Ashwin and FAM98 paralogs define nuclear and cytoplasmic RNA ligase complexes for tRNA biogenesis and the unfolded protein response
]]>
https://biorxiv.org/cgi/content/short/2025.08.01.668163v1?rss=1"
Leitner, M.Moser, M.Raynaud, N.Pfleiderer, M. M.Jinek, M.Martinez, J.2025-08-02doi:10.1101/2025.08.01.668163Cold Spring Harbor Laboratory Press2025-08-02
<![CDATA[
GHIST 2024: The 1st Genomic History Inference Strategies Tournament
]]>
https://biorxiv.org/cgi/content/short/2025.08.05.668560v1?rss=1"
Struck, T. J.Vaughn, A. H.Daigle, A.Ray, D. D.Noskova, E.Sequeira, J. J.Antonets, S.Alekseevskaya, E.Grigoreva, E.Raines, E.McMaster, E. S.Kovacs, T. G. L.Ragsdale, A. P.Moreno-Estrada, A.Lotterhos, K. E.Siepel, A.Gutenkunst, R. N.2025-08-11doi:10.1101/2025.08.05.668560Cold Spring Harbor Laboratory Press2025-08-11
<![CDATA[
Ancestral P-body proteins rewired for autophagic recyclingin the early land plant Marchantia polymorpha
]]>
https://biorxiv.org/cgi/content/short/2025.08.09.669463v1?rss=1"
Abdrakhmanov, A.Anisimova, A. S.Papareddy, R. K.Grujic, N.Ethier, E.Clavel, M.Karagoz, G. E.Hallacli, E.Dagdas, Y.2025-08-09doi:10.1101/2025.08.09.669463Cold Spring Harbor Laboratory Press2025-08-09
<![CDATA[
Riboflavin metabolism shapes FSP1-driven ferroptosis resistance
]]>
https://biorxiv.org/cgi/content/short/2025.08.05.668651v1?rss=1"
Skafar, V.de Souza, I.Ferreira dos Santos, A.Porto Freitas, F.Chen, Z.Donate, M.Nepachalovich, P.Ghosh, B.Tschuck, J.Mathur, A.Nunes Alves, A.Buhr, J.Aponte-Santamaria, C.Schmitz, W.Eilers, M.Ubellacker, J. M.Elling, U.Augustin, H. G.Hadian, K.Meierjohann, S.Proneth, B.Conrad, M.Fedorova, M.Alborzinia, H.Friedmann Angeli, J. P.2025-08-06doi:10.1101/2025.08.05.668651Cold Spring Harbor Laboratory Press2025-08-06
<![CDATA[
Synthetic engineering demonstrates that synergy among enhancers involves an increase in transcriptionally productive enhancer-gene contacts
]]>
https://biorxiv.org/cgi/content/short/2025.08.08.669284v1?rss=1"
Haro, E.Iliadou, M.Ramasamy, S.Ealo, T.Campa, V. M.Pachano, T.Oudelaar, A. M.Rada-Iglesias, A.2025-08-08doi:10.1101/2025.08.08.669284Cold Spring Harbor Laboratory Press2025-08-08
<![CDATA[
tangermeme: A toolkit for understanding cis-regulatory logic using deep learning models
]]>
https://biorxiv.org/cgi/content/short/2025.08.08.669296v1?rss=1"
Schreiber, J.2025-08-12doi:10.1101/2025.08.08.669296Cold Spring Harbor Laboratory Press2025-08-12
<![CDATA[
Temporal control of sgRNA library activation unlocks large-scale in vivo CRISPR screens
]]>
https://biorxiv.org/cgi/content/short/2025.08.14.670372v1?rss=1"
Fenoglio, S.Yu, Y.Tepper, J.Grove, L.Bejnood, A.Meier, S. R.Choi, A. H.Wu, H.-J.Devault, A.Liu, S.Shen, B.Khendu, T.Stowe, H.Uijttewaal, E. C.Zhang, M.Haines, B. B.Wilker, E.Huang, A.Schramek, D.Elling, U.Pan, X.Andersen, J. N.Teng, T.2025-08-14doi:10.1101/2025.08.14.670372Cold Spring Harbor Laboratory Press2025-08-14
<![CDATA[
Purine nucleobases enhance CD8+ T cell effector function
]]>
https://biorxiv.org/cgi/content/short/2025.08.14.669899v1?rss=1"
View larger version (65K):
org.highwire.dtl.DTLVardef@17b4b15org.highwire.dtl.DTLVardef@17e57a3org.highwire.dtl.DTLVardef@1abc36aorg.highwire.dtl.DTLVardef@1aa704a_HPS_FORMAT_FIGEXP M_FIG C_FIG Instead of producing nucleotides via purine de novo synthesis, CD8+ T cells can import and utilize purine nucleobases via the purine salvage pathway to divert bioenergetic and biosynthetic resources towards effector function. By shifting from purine de novo synthesis to the purine salvage pathway, cells save significant resources: 5 moles of the key bioenergetic metabolite ATP, and biosynthetic metabolites including 2 moles of glutamine, 1 mole each of serine or glycine, and 1 mole of aspartate.
]]>Genger, J.-W.Haladik, B.Lercher, A.Agerer, B.Mangana, C.Amman, F.Viczenczova, C.Hohl, T.Hofmann, A.Koblischke, M.Kratzer, B.Li, W.Zinober, K.Kartnig, F.Schueller, C.Koren, A.Lin, J.-M. G.Maier, B. B.Bock, C.Kralovics, R.Arguello, R. J.Aberle, J. H.Reiberger, T.Pickl, W. F.Superti-Furga, G.Klavins, K.Hannich, J. T.Kubicek, S.Bergthaler, A.2025-08-17doi:10.1101/2025.08.14.669899Cold Spring Harbor Laboratory Press2025-08-17
<![CDATA[
A lipid transfer-dependent feedback loop activates ATG9A compartments in autophagy initiation
]]>
https://biorxiv.org/cgi/content/short/2025.08.16.670665v1?rss=1"
Holzer, E.Sawa-Makarska, J.Bernklau, D.Romanov, J.Schuschnig, M.Martens, S.2025-08-18doi:10.1101/2025.08.16.670665Cold Spring Harbor Laboratory Press2025-08-18
<![CDATA[
Low-resolution FAIMS for increased peptide coverage in low-load and single-cell proteomics
]]>
https://biorxiv.org/cgi/content/short/2025.08.22.671812v1?rss=1"
Hoch, D. G.Matzinger, M.Mechtler, K.2025-08-27doi:10.1101/2025.08.22.671812Cold Spring Harbor Laboratory Press2025-08-27
<![CDATA[
Post-transcriptional regulation of meiotic transcripts by the RNA binding protein CDM1 is associated with cytoplasmic condensate assemblies
]]>
https://biorxiv.org/cgi/content/short/2025.08.17.670746v1?rss=1"
Saddala, S.Shukla, N.Fulnecek, J.Cairo, A.Brolik, J.Mikulkova, P.Pecinkova, J.Vargova, A.Valuchova, S. B.Capitao, C.Mandakova, T.Riha, K.2025-08-20doi:10.1101/2025.08.17.670746Cold Spring Harbor Laboratory Press2025-08-20
<![CDATA[
Major alleles of CDCA7α shape CG-methylation in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2025.09.03.673934v1?rss=1"
Bourguet, P.Lorkovic, Z. J.Casado, D. K.Bapteste, V.Cho, C. H.Igolkina, A.Lee, C.-R.Nordborg, M.Berger, F.Sasaki, E.2025-09-07doi:10.1101/2025.09.03.673934Cold Spring Harbor Laboratory Press2025-09-07
<![CDATA[
Cerebral Organoids Uncover Mechanisms of Neural Activity Changes in Epileptogenesis
]]>
https://biorxiv.org/cgi/content/short/2025.08.26.672285v1?rss=1"
Nagumo Wong, S.Zabolocki, M.Eichmüller, O. L.Klooster, M. A. v.Priouret, M. M.Krauditsch, C.Krautberger, S.Chu, J.Gonzalez-Granero, S.Barea Moya, L.Fieseler, C.Guzman, S. J.Reumann, D.Najm, R.Garcia-Verdugo, J. M.Paredes, M. F.Zimmer, M.Ziljmans, M.Jonas, P.Bardy, C.Corsini, N.Knoblich, J. A.2025-08-26doi:10.1101/2025.08.26.672285Cold Spring Harbor Laboratory Press2025-08-26
<![CDATA[
Evaluating MINFLUX experimental performance in silico
]]>
https://biorxiv.org/cgi/content/short/2025.04.08.647786v1?rss=1"
Marin, Z.Ries, J.2025-04-08doi:10.1101/2025.04.08.647786Cold Spring Harbor Laboratory Press2025-04-08
<![CDATA[
Structural basis of NSD2 degradation via targeted recruitment of SCF-FBXO22
]]>
https://biorxiv.org/cgi/content/short/2025.08.29.673087v1?rss=1"
Robertson, K. C.Amann, S. J.Liu, T.Funk, A. V.Wang, X.Grishkovskaya, I.Tabor, J. R.Norris-Drouin, J. L.Arrowsmith, C. H.Collins, J. L.Emanuele, M. J.Haselbach, D.James, L. I.Brown, N. G.2025-08-30doi:10.1101/2025.08.29.673087Cold Spring Harbor Laboratory Press2025-08-30
<![CDATA[
PDS5 proteins control genome architecture by limiting the lifetime of cohesin-NIPBL complexes
]]>
https://biorxiv.org/cgi/content/short/2025.08.30.673243v1?rss=1"
Peters, J. M.Wutz, G.Davidson, I. F.Banigan, E. J.Kawasumi, R.Stocsits, R. R.Tang, W.Nagasaka, K.Costantino, L.Jansen, R.Hirota, K.Branzei, D.Mirny, L.2025-08-30doi:10.1101/2025.08.30.673243Cold Spring Harbor Laboratory Press2025-08-30
<![CDATA[
Strain, procedures, and tools for reproducible genetic transformation and genome editing of Spirodela polyrhiza (L.) Schleid.
]]>
https://biorxiv.org/cgi/content/short/2025.08.28.672806v1?rss=1"
Barragan-Borrero, V.de Santana Lopes, A.Rodrigues-Batista, E. D.Hofer, M.Elias, R.Chakraborty, A.Ponce-Mane, A.Descombes, C.Diezma-Navas, L.Petraki, L.Huber, M.Xu, S.Mari-Ordonez, A.2025-09-01doi:10.1101/2025.08.28.672806Cold Spring Harbor Laboratory Press2025-09-01
<![CDATA[
The functional divergence of plant ESCRT components TOL3, SNF7.1, and VPS4 during salt stress response
]]>
https://biorxiv.org/cgi/content/short/2025.09.06.674610v1?rss=1"
Schnurer, M.Schweighofer, A.Hilscher, J.Kapusi, E.Korbei, B.Naegele, T.Kang, L.Fuhrmann, P.Danninger, S.Scharl, L.Bock, A.Marino, G.Leister, D.Ibl, V.2025-09-07doi:10.1101/2025.09.06.674610Cold Spring Harbor Laboratory Press2025-09-07
<![CDATA[
Notch coordinates self-organization of germ layers and axial polarity in cnidarian gastruloids
]]>
https://biorxiv.org/cgi/content/short/2025.09.09.675057v1?rss=1"
Narayanaswamy, S.Haas, F.Haillot, E.Tanaka, E.Technau, U.2025-09-09doi:10.1101/2025.09.09.675057Cold Spring Harbor Laboratory Press2025-09-09
<![CDATA[
Separable roles for Microprocessor and its cofactors ERH and SAFB1/2 during microRNA cluster assistance
]]>
https://biorxiv.org/cgi/content/short/2025.09.09.675111v1?rss=1"
Shang, R.Popitsch, N.Lee, S.Ameres, S.Lai, E.2025-09-10doi:10.1101/2025.09.09.675111Cold Spring Harbor Laboratory Press2025-09-10
<![CDATA[
Centrosome Softening As A Mechanical Adaptation For Mitosis
]]>
https://biorxiv.org/cgi/content/short/2025.09.09.675178v1?rss=1"
Garcia-Baucells, J.Bevilacqua, C.Rufin, M.Rumpf-Kienzl, C.Zampetaki, A.Andriotis, O. G.Thurner, P. J.Prevedel, R.Fürthauer, S.Dammermann, A.2025-09-10doi:10.1101/2025.09.09.675178Cold Spring Harbor Laboratory Press2025-09-10
<![CDATA[
Genome dynamics across the radiation of a mega-diverse genus
]]>
https://biorxiv.org/cgi/content/short/2025.09.17.676772v1?rss=1"
Campos-Dominguez, L.Kongsted, T. E.Cure, L.Downie, M.Martinez-Martinez, A.Fan, C.Dong, L. N.Tseng, Y. H.Hu, A. Q.Chung, K. F.Pellicer, J.Leitch, I. J.Bombarely, A.Twyford, A. D.Kidner, C. A.2025-09-20doi:10.1101/2025.09.17.676772Cold Spring Harbor Laboratory Press2025-09-20
<![CDATA[
Combinatorial effects of multiple genes contribute to beneficial aneuploidy phenotypes
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https://biorxiv.org/cgi/content/short/2025.03.05.641640v1?rss=1"
Koller, M. S.Himmelbauer, C.Fink, S.Ravichandran, M. C.Campbell, C.2025-03-11doi:10.1101/2025.03.05.641640Cold Spring Harbor Laboratory Press2025-03-11
<![CDATA[
Single-cell multiomics reveals archetypal regulatory programs shared across CD4 and CD8 T cell subsets in viral infection
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https://biorxiv.org/cgi/content/short/2025.09.08.675014v1?rss=1"
Walker, S. K.van der Veeken, J.Rudensky, A.Pritykin, Y.2025-09-13doi:10.1101/2025.09.08.675014Cold Spring Harbor Laboratory Press2025-09-13
<![CDATA[
An electrostatic repulsion model of centromere organisation
]]>
https://biorxiv.org/cgi/content/short/2025.09.01.673455v1?rss=1"
Bell, C.Chen, L.Maristany, M. J.Blaukopf, C.Zhou, H.Huertas, J.Perez Lopez, J. I.Langer, C. C. H.Steinacker, T. L.Schuette, N.Doolittle, L.Espinosa, J. R.Redding, S.Collepardo-Guevara, R.Rosen, M. K.Gerlich, D. W.2025-09-02doi:10.1101/2025.09.01.673455Cold Spring Harbor Laboratory Press2025-09-02
<![CDATA[
Molecular basis of polyadenylated RNA fate determination in the nucleus
]]>
https://biorxiv.org/cgi/content/short/2025.09.16.676470v1?rss=1"
Bugai, A.Hohmann, U.Lorenzo, A.Graf, M.Fin, L.Rouviere, J. O.Tirian, L.Dou, Y.Polak, P.Johnsen, D.Jakobsen, L.Andersen, J. S.Brennecke, J.Plaschka, C.Jensen, T. H.2025-09-16doi:10.1101/2025.09.16.676470Cold Spring Harbor Laboratory Press2025-09-16
<![CDATA[
Ubiquitination of secretory granules promotes crinophagic degradation in Drosophila
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https://biorxiv.org/cgi/content/short/2025.09.24.678350v1?rss=1"
Csizmadia, T.Dosa, A.Maddali, A. K.Jipa, A.Laczko-Dobos, H.Low, P.Juhasz, G.2025-09-25doi:10.1101/2025.09.24.678350Cold Spring Harbor Laboratory Press2025-09-25
<![CDATA[
ArchVelo: Archetypal Velocity Modeling for Single-cell Multi-omic Trajectories
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https://biorxiv.org/cgi/content/short/2025.09.14.676182v1?rss=1"
Avdeeva, M.Walker, S.van der Veeken, J.Rudensky, A.Pritykin, Y.2025-09-17doi:10.1101/2025.09.14.676182Cold Spring Harbor Laboratory Press2025-09-17
<![CDATA[
Opposing CTCF and GATA4 activities set the pace of chromatin topology remodeling during cardiomyogenesis
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https://biorxiv.org/cgi/content/short/2025.10.07.680441v1?rss=1"
Becca, S.Bianchi, S.Hahn, E. M.Snijders, K. E.Truszkowski, L.Krepelova, A.Neri, F.Cacchiarelli, D.Mendjan, S.Balmas, E.Bertero, A.2025-10-07doi:10.1101/2025.10.07.680441Cold Spring Harbor Laboratory Press2025-10-07
<![CDATA[
WNK kinase regulates plasma membrane levels of the WNT inhibitor RNF43
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https://biorxiv.org/cgi/content/short/2025.10.08.681128v1?rss=1"
Colozza, G.Jordens, I.Sosa, E. A.Ha, j.Wu, S.Tavernini, K.Catala, A.Farnhammer, F.Urban Avellaneda, N.Maurice, M.Koo, B.-K.2025-10-08doi:10.1101/2025.10.08.681128Cold Spring Harbor Laboratory Press2025-10-08
<![CDATA[
Peripheral tissues of deep-sea mussels exhibit autonomous circadian timing via an atypical mechanism
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https://biorxiv.org/cgi/content/short/2025.10.08.681125v1?rss=1"
Mat, A. M.Scaramuzza, F.Klopp, C.Matabos, M.Tessmar-Raible, K.2025-10-08doi:10.1101/2025.10.08.681125Cold Spring Harbor Laboratory Press2025-10-08
<![CDATA[
Innovations in spinal cord cell type heterogeneity across vertebrate evolution
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https://biorxiv.org/cgi/content/short/2025.10.09.680955v1?rss=1"
Ignatyev, Y.Papadopoulos, S.Soretic, M.Yeung, J.Lin, T.-Y.Tanaka, E.Peshkin, L.Levine, A.Gabitto, M. I.Sweeney, L. B.2025-10-10doi:10.1101/2025.10.09.680955Cold Spring Harbor Laboratory Press2025-10-10
<![CDATA[
The Drosophila OSC Genome: A Resource for Studies of Transposon and piRNA Biology
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https://biorxiv.org/cgi/content/short/2025.10.09.681131v1?rss=1"
Handler, D.Brennecke, J.2025-10-10doi:10.1101/2025.10.09.681131Cold Spring Harbor Laboratory Press2025-10-10
<![CDATA[
Antagonistic histone H2A variants and autonomous heterochromatin formation shape epigenomic patterns in Arabidopsis
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https://biorxiv.org/cgi/content/short/2025.10.19.683276v1?rss=1"
Oda, S.Tominaga, S.Takeuchi, S.Osakabe, A.Kawabe, A.Berger, F.Kakutani, T.To, T. K.2025-10-20doi:10.1101/2025.10.19.683276Cold Spring Harbor Laboratory Press2025-10-20
<![CDATA[
Genome reorganisation and expansion shape 3D genome architecture and define a distinct regulatory landscape in coleoid cephalopods
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https://biorxiv.org/cgi/content/short/2025.08.29.672809v1?rss=1"
Rogers, T. F.Stock, J.Schulz, N. G.Yalcin, G.Rencken, S. D.Weissenbacher, A.Clarence, T.Schultz, D. T.Ragsdale, C. W.Albertin, C. B.Simakov, O.2025-08-29doi:10.1101/2025.08.29.672809Cold Spring Harbor Laboratory Press2025-08-29
<![CDATA[
Engineering human protein switches for functional control of CARs and transcription factors via oral drug administration
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https://biorxiv.org/cgi/content/short/2025.10.17.683068v1?rss=1"
Sylvander, E.Munoz-Lopez, A.D Accardio, G.Emminger, D.Mouratidis, K.Engert, F.Baik, H.Balaji, S.Michls, T.Buri, M. C.Maresch, D.Urbanetz, A.Schaefer, M.Mittelstaet, J.Zuber, J.Rosato, A.Engels, B.Zajc, C. U.Traxlmayr, M.Lehner, M.2025-10-17doi:10.1101/2025.10.17.683068Cold Spring Harbor Laboratory Press2025-10-17
<![CDATA[
The nascent RNA labelling compound 5-ethynyl uridine (EU) integrates into DNA in the sea anemone Nematostella vectensis
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https://biorxiv.org/cgi/content/short/2024.10.22.619599v1?rss=1"
Kjosavik, M. A.Garschall, K.Steinmetz, P. R. H.2024-10-22doi:10.1101/2024.10.22.619599Cold Spring Harbor Laboratory Press2024-10-22
<![CDATA[
Unravelling the intraspecific variation in drought responses in seedlings of European black pine (Pinus nigra J.F. Arnold)
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https://biorxiv.org/cgi/content/short/2025.10.20.683360v1?rss=1"
Ahmad, M.Hammerbacher, A.Priemer, C.Ciceu, A.Karolak, M.Mader, S.Olsson, S.Schinnerl, J.Seitner, S.Schoendorfer, S.Helfenbein, P.Jakub, J.Breuer, M.Espinosa, A.Caballero, T.Ganthaler, A.Mayr, S.Grosskinsky, D. K.Wienkoop, S.Schueler, S.Trujillo-Moya, C.van Loo, M.2025-10-21doi:10.1101/2025.10.20.683360Cold Spring Harbor Laboratory Press2025-10-21
<![CDATA[
Cell-stereotyped DNA repair outcomes are widespread during genome editing
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https://biorxiv.org/cgi/content/short/2025.10.23.684114v1?rss=1"
Schlapansky, M. F.Schröder, M.Santinha, A.Rothgangl, T.Ioannidi, E.Cullot, G.Lewkow, B.Ortega, G. C.Nouraiz, A.Mailänder, D.Selbert, L.Lam, S.Egea, A.Shin, J. J.Bordi, M.DeWitt, M.Gvozdenovic, A.Jackson, S. P.Schroeder, T.Gehart, H.Schwank, G.Platt, R.Corn, J. E.2025-10-23doi:10.1101/2025.10.23.684114Cold Spring Harbor Laboratory Press2025-10-23
<![CDATA[
Antagonism between blue and red light-signalling controls thallus flatness in Marchantia polymorpha
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https://biorxiv.org/cgi/content/short/2025.11.10.687525v1?rss=1"
Roetzer, J.Asper, B.Meir, Z.Edelbacher, N.Merai, Z.Datta, S.Dolan, L.2025-11-11doi:10.1101/2025.11.10.687525Cold Spring Harbor Laboratory Press2025-11-11
<![CDATA[
Nicotinamide N-Methyltransferase drives fibroblast activation and skin fibrosis in systemic sclerosis
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https://biorxiv.org/cgi/content/short/2025.10.27.684733v1?rss=1"
Tosevska, A.von Dalwigk, K.Heil, P.Kartnig, F.Korosec, A.Niederreiter, B.Sacnun, J. M.Koecher, T.Aletaha, D.Kiener, H. P.Lichtenberger, B. M.Heinz, L. X.Karonitsch, T.2025-10-27doi:10.1101/2025.10.27.684733Cold Spring Harbor Laboratory Press2025-10-27
<![CDATA[
Cohesin Acetylation and ATPase Activity Control Cohesion and Loop Architecture through Distinct Mechanisms
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https://biorxiv.org/cgi/content/short/2025.10.30.685539v1?rss=1"
Costantino, L.Ye, T.Boardman, K.Xiang, S.Luo, J.Mu, Y.Ma, W.Koshland, D.2025-10-31doi:10.1101/2025.10.30.685539Cold Spring Harbor Laboratory Press2025-10-31
<![CDATA[
Genetic insights into Iron Age Saka culture: Ancient DNA analysis of the Boz-Barmak burial ground, Kyrgyzstan
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https://biorxiv.org/cgi/content/short/2025.11.03.686206v1?rss=1"
Rymbekova, A.Gelabert, P.Llanos-Lizcano, A.Balakrishnan, K.Hämmerle, M.Cheronet, O.Abdykanova, A.Kasymkulov, K.Hrivnyak, M.T. Eng, J.Pinhasi, R.Kuhlwilm, M.2025-11-04doi:10.1101/2025.11.03.686206Cold Spring Harbor Laboratory Press2025-11-04
<![CDATA[
Nuclear auxin signalling induces autophagy for developmental reprogramming
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https://biorxiv.org/cgi/content/short/2025.11.04.686542v1?rss=1"
Giannini, C.Loefke, C.Brunoud, G.Bertran Garcia de Ollala, E.Guan, B.Riegler, S.Teplova, A.Perez Gonzalez, A.Nava Garcia, M. M.Benkova, E.VERNOUX, T.Dagdas, Y.Friml, J.2025-11-05doi:10.1101/2025.11.04.686542Cold Spring Harbor Laboratory Press2025-11-05
<![CDATA[
Reconstitution of multistep recruitment of ULK1 to membranes in autophagy
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https://biorxiv.org/cgi/content/short/2025.11.07.687251v1?rss=1"
Duan, Y.Lu, Y.Paul, S.Betz, J.Wilhelm, L. P.Cook, A. S. I.Ren, X.Adriaenssens, E.Martens, S.Ganley, I.Hummer, G.Hurley, J. H.2025-11-09doi:10.1101/2025.11.07.687251Cold Spring Harbor Laboratory Press2025-11-09
<![CDATA[
BarlowTrack: A Self-Supervised Framework for Zero-Shot Multi-Object Cell Tracking
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https://biorxiv.org/cgi/content/short/2025.11.10.687595v1?rss=1"
Fieseler, C.Lev, I.Madhusudhanan, J.Zhai, Z.Schwartz, S.Zimmer, M.2025-11-12doi:10.1101/2025.11.10.687595Cold Spring Harbor Laboratory Press2025-11-12
<![CDATA[
Multi-step implementation of meiotic crossover patterning
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https://biorxiv.org/cgi/content/short/2025.11.12.687980v1?rss=1"
Cavka, I.Woglar, A.Wu, Y.-L.Durmus, E. B.Sloat, L.Gros, A.Pineiro Lopez, C.Hecht, F.Villeneuve, A. M.Ries, J.Koehler, S.2025-11-13doi:10.1101/2025.11.12.687980Cold Spring Harbor Laboratory Press2025-11-13
<![CDATA[
Pathway and gates for ATG2A-mediated lipid transport in autophagy
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https://biorxiv.org/cgi/content/short/2025.11.16.688672v1?rss=1"
Cabezudo, A. C.Holzer, E.Martens, S.Hummer, G.2025-11-16doi:10.1101/2025.11.16.688672Cold Spring Harbor Laboratory Press2025-11-16
<![CDATA[
Systematic Discovery of Pathogen Effector Functions across Human Pathogens and Pathways
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https://biorxiv.org/cgi/content/short/2025.11.17.687821v1?rss=1"
Pachano, T.Leng, H.Dugied, G.Tribble, T.Loubiere, V.Rauh, F.Lee, Y.Schleiffer, A.Weller, B.Lyons, E. A.Hass, M. R.Kottyan, L. C.Weirauch, M. T.Fuxman Bass, J.Newton, H. J.Ensminger, A. W.Falter-Braun, P.Schramek, D.Stark, A.Taipale, M.2025-11-17doi:10.1101/2025.11.17.687821Cold Spring Harbor Laboratory Press2025-11-17
<![CDATA[
AGO5 restricts virus vertical transmission in plant gametophytes
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https://biorxiv.org/cgi/content/short/2025.11.28.691182v1?rss=1"
Hoffmann, G.Sadhu, S. P.Bradamante, G.Diez Marulanda, J. C.Proschwitz, A.Wegscheider, T.Turhan, I.Bente, H.Gutzat, R.Incarbone, M.2025-11-29doi:10.1101/2025.11.28.691182Cold Spring Harbor Laboratory Press2025-11-29
<![CDATA[
Inferring and Evaluating Network Medicine-Based Disease Modules with Nextflow
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https://biorxiv.org/cgi/content/short/2025.11.20.687681v1?rss=1"
Kersting, J.Spindler, L. M.Bucheron, C.Aguirre-Plans, J.Manz, Q.Pock, T.Tan, M.Delgado-Chaves, F. M.Nogales, C.Schmidt, H. H. H. W.Menche, J.Maier, A.Baumbach, J.Guney, E.List, M.2025-11-20doi:10.1101/2025.11.20.687681Cold Spring Harbor Laboratory Press2025-11-20
<![CDATA[
Ddx3x regulates B-cell development and light chain recombination in mice
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https://biorxiv.org/cgi/content/short/452086v1?rss=1"
Liu, K.Tuazon, J.Karmele, E.Krishnamurthy, D.Perlot, T.Foong-Sobis, M.Karns, R.Mandal, M.Reynaud, D.Scofield, R. H.Penninger, J.Harley, J.Waggoner, S.2018-10-25doi:10.1101/452086Cold Spring Harbor Laboratory Press2018-10-25
<![CDATA[
Ultrafast CTCF dynamics control cohesin barrier function
]]>
https://biorxiv.org/cgi/content/short/2025.11.25.690553v1?rss=1"
Rudnizky, S.Murray, P. J.Sorensen, E. W.Koenig, T. J. R.Pangeni, S.Merino-Urteaga, R.Chhabra, H.Caccianini, L.Davidson, I. F.Osorio-Valeriano, M.Hook, P. W.Meneses, P.Hao, J.Zarb, J. S.Hatzakis, N. S.Timp, W.Farnung, L.Vos, S. M.Peters, J.-M.Aksimentiev, A.Ha, T.2025-11-29doi:10.1101/2025.11.25.690553Cold Spring Harbor Laboratory Press2025-11-29
<![CDATA[
Oxygen production as an electron overflow pathway in ammonia-oxidizing archaea
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https://biorxiv.org/cgi/content/short/2025.12.03.692013v1?rss=1"
Pribasnig, T.Schleper, C.Hodgskiss, L. H.2025-12-03doi:10.64898/2025.12.03.692013Cold Spring Harbor Laboratory Press2025-12-03
<![CDATA[
Structure of cytoplasmic RNA polymerase II
]]>
https://biorxiv.org/cgi/content/short/2025.12.10.692585v1?rss=1"
Hlavata, A.Neuditschko, B.Schellhaas, U.Plaschka, C.Herzog, F.Bernecky, C.2025-12-10doi:10.64898/2025.12.10.692585Cold Spring Harbor Laboratory Press2025-12-10
<![CDATA[
Tonic interferons defend against respiratory viruses in primary human lung organoid-derived air-liquid interface cultures
]]>
https://biorxiv.org/cgi/content/short/2025.12.10.693424v1?rss=1"
Sivarajan, R.Kirchgatterer, P. C.Lawrenz, J.Tanner-Matiz, E.Lindenmayer, J.Renz, V.Joshi, T.Oberwinkler, H.Walles, T.Fois, G.Kleger, A.Frick, M.Münch, J.Gaidt, M. M.Steinke, M.Sparrer, K. M.2025-12-11doi:10.64898/2025.12.10.693424Cold Spring Harbor Laboratory Press2025-12-11
<![CDATA[
ProteoBench: the community-curated platform for comparing proteomics data analysis workflows
]]>
https://biorxiv.org/cgi/content/short/2025.12.09.692895v1?rss=1"
Devreese, R.Jachmann, C.Van Puyvelde, B.Anagho-Mattanovich, H. A.Wolski, W. E.Webel, H.Anagho-Mattanovich, M.Bittremieux, W.Chaoui, K.Chiva, C.Claeys, T.Castaneda Cortes, H. M.Devos, S.Dhaenens, M.Doncheva, N. T.Dorfer, V.Eisenacher, M.Gabriels, R.Giai Gianetto, Q.Hollenstein, D. M.Jensen, L. J.Kasalica, V.Langella, O.Lennartsson, C.Lux, D.Martens, L.Matondo, M.Mendes Maia, T.Mouton-Barbosa, E.Nameni, A.Nielsen, M. L.Olsen, J. V.Palmblad, M.Panse, C.Perez-Riverol, Y.Pominova, M.Rykaer, M.Sabido, E.Schessner, J.Schnei2025-12-11doi:10.64898/2025.12.09.692895Cold Spring Harbor Laboratory Press2025-12-11
<![CDATA[
Functional rescue of critical-size bone defect using molecular network analysis of axolotl limb regeneration.
]]>
https://biorxiv.org/cgi/content/short/2025.12.10.692203v1?rss=1"
Polikarpova, A.Rivero-Garcia, I.Gerber, T.Wang, J.Novatchkova, M.Fischer, A.Torres, M.Sanchez-Cabo, F.Tanaka, E.2025-12-13doi:10.64898/2025.12.10.692203Cold Spring Harbor Laboratory Press2025-12-13
<![CDATA[
RNA decay via the nuclear exosome is essential for piwi-mediated transposon silencing
]]>
https://biorxiv.org/cgi/content/short/2025.12.16.694471v1?rss=1"
Yu, C.Manolova, T.Tirian, L.Handler, D.Hohmann, U.Nemcko, F.Portell, J.Collet, G.Schnabl-Baumgartner, J.Blake, E.Duchek, P.Novatchkova, M.Roitinger, E.Karam Teixeira, F.Falk, S.Brennecke, J.2025-12-16doi:10.64898/2025.12.16.694471Cold Spring Harbor Laboratory Press2025-12-16
<![CDATA[
LysM Receptor Proteins are Required for Ectomycorrhizal Symbiosis in Poplar
]]>
https://biorxiv.org/cgi/content/short/2025.12.17.694584v1?rss=1"
Omenge, K.Werner, S.Deecke, K.Irving, T.Rush, T. A.Wallner, E.-S.Keilwagen, J.Tiwari, M.Nagalla, S.Fort, S.Hallmann, C.Fladung, M.Ane, J.-M.2025-12-17doi:10.64898/2025.12.17.694584Cold Spring Harbor Laboratory Press2025-12-17
<![CDATA[
Unified down-stream analysis of crosslinking mass spectrometry results with pyXLMS
]]>
https://biorxiv.org/cgi/content/short/2025.12.18.695169v1?rss=1"
Birklbauer, M. J.Buur, L. M.Kaser, S.Müller, F.Matzinger, M.Mechtler, K.Winkler, S.Dorfer, V.2025-12-22doi:10.64898/2025.12.18.695169Cold Spring Harbor Laboratory Press2025-12-22
<![CDATA[
Proteolytic Control of an Auto-inhibitory Intrinsically Disordered Region Governs Small RNA Selectivity in Argonaute Proteins
]]>
https://biorxiv.org/cgi/content/short/2025.12.19.695459v1?rss=1"
Isolehto, I.Pshanichnaya, L.Paez Moscoso, D.Mager, M.Seistrup, A.-S.Schreier, J.Hellmann, S.Gaurav, K.Kielisch, F.Chen, J.Stelzl, L.Ketting, R. F.2025-12-21doi:10.64898/2025.12.19.695459Cold Spring Harbor Laboratory Press2025-12-21
<![CDATA[
AXL governs axolotl cardiac regeneration and directs mammalian cardiomyocyte dedifferentiation
]]>
https://biorxiv.org/cgi/content/short/2025.12.21.695613v1?rss=1"
Basst, E.Wang, J.Pena Pena, J.Rivero-Garcia, I.Piszczek, A.Falcon, F.Taniguchi-Sugiura, Y.Yang, J.Fernandez-Montes, P.Lendl, T.Dominguez, L.Lust, K.Enriquez, J. A.Sanchez Cabo, F.Torres, M.Tanaka, E. M.2025-12-22doi:10.64898/2025.12.21.695613Cold Spring Harbor Laboratory Press2025-12-22
<![CDATA[
Predictive design of tissue-specific mammalian enhancers that function in vivo in the mouse embryo
]]>
https://biorxiv.org/cgi/content/short/2025.12.22.695948v1?rss=1"
CHEN, S.Loubiere, V.Hollingsworth, E. W.Jacinto, S. H.Dizehchi, A.Schreiber, J.Kvon, E. Z.Stark, A.2025-12-24doi:10.64898/2025.12.22.695948Cold Spring Harbor Laboratory Press2025-12-24
<![CDATA[
Human embryo implantation involves Syncytin-2/MFSD2A-mediated heterokaryon formation with maternal endometrium
]]>
https://biorxiv.org/cgi/content/short/2025.12.22.695952v1?rss=1"
Noordzij, T.Celotti, M.van Esch, R.Sackmann, L.Martinez Silgado, A.de Jong, F.Eto, H.Beghtel, H.Korving, J.Sommer, T.Steba, G.Rivron, N. C.Baart, E.van Es, J.Clevers, H.Sonnen, K.2025-12-24doi:10.64898/2025.12.22.695952Cold Spring Harbor Laboratory Press2025-12-24
<![CDATA[
An Evolutionarily Conserved N-terminal Domain of RRF-3 Governs GTSF-1 Binding in Nematodes
]]>
https://biorxiv.org/cgi/content/short/2025.12.23.696163v1?rss=1"
Govind, S.Ruppert, S.Kirangwa, J.Busetto, V.Nischwitz, E.Almeida, M. V.Hellmann, S.Witte, H.Sommer, R.Butter, F.Falk, S.Sarkies, P.Ketting, R. F.2025-12-25doi:10.64898/2025.12.23.696163Cold Spring Harbor Laboratory Press2025-12-25
<![CDATA[
A foundational model for joint sequence-function multi-species modeling at scale for long-range genomic prediction
]]>
https://biorxiv.org/cgi/content/short/2025.12.22.695963v1?rss=1"
Boshar, S.Evans, B.Tang, Z.Picard, A.Adel, Y.Lorbeer, F. K.Rajesh, C.Karch, T.Sidbon, S.Emms, D.Mendoza-Revilla, J.Al-Ani, F.Seitz, E.Schiff, Y.Bornachot, Y.Hernandez, A.Lopez, M.Laterre, A.Beguir, K.Koo, P.Kuleshov, V.Stark, A.de Almeida, B. P.Pierrot, T.2025-12-25doi:10.64898/2025.12.22.695963Cold Spring Harbor Laboratory Press2025-12-25
<![CDATA[
PISA: a versatile interpretation tool for visualizing cis-regulatory rules in genomic data
]]>
https://biorxiv.org/cgi/content/short/2025.04.07.647613v1?rss=1"
Zeitlinger, J.McAnany, C. E.Weilert, M.Kamulegeya, F.Mehta, G.Gardner, J. M.Kundaje, A.2025-04-08doi:10.1101/2025.04.07.647613Cold Spring Harbor Laboratory Press2025-04-08
<![CDATA[
SLBP-independent control of maternal histone mRNA
]]>
https://biorxiv.org/cgi/content/short/2026.01.06.697898v1?rss=1"
Ketting, R. F.Falk, S.Koenig, J.Steiner, F.Delaney, K.Seistrup, A.-S.Podvalnaya, N.Busch, A.Govind, S.Brehm, M.Pereirinha, J.2026-01-06doi:10.64898/2026.01.06.697898Cold Spring Harbor Laboratory Press2026-01-06
<![CDATA[
How and why to quantify pairwise pleiotropy and genotype-by-environment interactions
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https://biorxiv.org/cgi/content/short/2026.01.09.698568v1?rss=1"
Ellis, T. J.2026-01-12doi:10.64898/2026.01.09.698568Cold Spring Harbor Laboratory Press2026-01-12
<![CDATA[
Candida auris can acquire antifungal resistance without selection pressure
]]>
https://biorxiv.org/cgi/content/short/2026.01.07.695227v1?rss=1"
Phan-Canh, T.Nguyen-Le, D.-M.Chauhan, M.Luu, P.-L.Chowdhary, A.Chauhan, N.Kuchler, K.2026-01-08doi:10.64898/2026.01.07.695227Cold Spring Harbor Laboratory Press2026-01-08
<![CDATA[
In vivo kinetics of protein degradation by individual proteasomes
]]>
https://biorxiv.org/cgi/content/short/2026.01.19.700426v1?rss=1"
Madern, M. F.Haselbach, D.Tanenbaum, M. E.2026-01-19doi:10.64898/2026.01.19.700426Cold Spring Harbor Laboratory Press2026-01-19
<![CDATA[
Super-resolved imaging of mRNA ultrastructure in cells
]]>
https://biorxiv.org/cgi/content/short/2026.01.23.701081v1?rss=1"
Passera, A.Welzl, P.Gomez-Segalas, A.Plaschka, C.Balzarotti, F.2026-01-23doi:10.64898/2026.01.23.701081Cold Spring Harbor Laboratory Press2026-01-23
<![CDATA[
Hyaluronan underlies the emergence of form, fate, and function in human cardioids
]]>
https://biorxiv.org/cgi/content/short/2026.01.26.700345v1?rss=1"
Jahnel, S.Dimitriadi, A.Kodnar, J.Gerakopoulos, V.Khurana, Y.Mayrhauser, M.Ilmer, T.Ishihara, K.Mendjan, S.2026-01-28doi:10.64898/2026.01.26.700345Cold Spring Harbor Laboratory Press2026-01-28
<![CDATA[
Improved myelin clearance and cognitive outcomes after TBI in female mice are mediated by ovarian steroids and sex chromosomes
]]>
https://biorxiv.org/cgi/content/short/2026.01.28.702273v1?rss=1"
Pinto-Benito, D.Paradela-Leal, C.Cano-Adamuz, N.Grassi, D.Azcoitia, I.Grade, S.Arevalo, M.-A.2026-01-31doi:10.64898/2026.01.28.702273Cold Spring Harbor Laboratory Press2026-01-31
<![CDATA[
Predicting mutation-rate variation across the genome using epigenetic data
]]>
https://biorxiv.org/cgi/content/short/2026.01.30.702885v1?rss=1"
Katori, M.Kobayashi, T. J.Nordborg, M.Shi, S.2026-02-03doi:10.64898/2026.01.30.702885Cold Spring Harbor Laboratory Press2026-02-03
<![CDATA[
Distinct functional potential of bacterial extracellular vesicles across biogeographic provinces of the South Pacific Ocean
]]>
https://biorxiv.org/cgi/content/short/2025.06.30.662282v1?rss=1"
Fadeev, E.Orel, N.Tinta, T.Afjehi-Sadat, L.Liu, H.Browning, T. J.Yuan, Z.Achterberg, E. P.Biller, S.Sher, D. J.Herndl, G. J.2025-06-30doi:10.1101/2025.06.30.662282Cold Spring Harbor Laboratory Press2025-06-30
<![CDATA[
A Naïve RNA Sampling Core Enables Adaptive piRNA Specificity Against Transposable Elements
]]>
https://biorxiv.org/cgi/content/short/2026.02.07.704324v1?rss=1"
Handler, D.Wong, W. Y. W.Tsarev, A.Hayashi, R.Brennecke, J.2026-02-09doi:10.64898/2026.02.07.704324Cold Spring Harbor Laboratory Press2026-02-09
<![CDATA[
CAN1-mediated autophagosome size regulation fine-tunes phosphate starvation tolerance in Arabidopsis thaliana
]]>
https://biorxiv.org/cgi/content/short/2026.02.12.705259v1?rss=1"
Goerg, D.Smith, F.Machalett, K.Koblenz, F.Ngo, Y. T.Hoehne, S.Arndt, J.Marillonnet, S.Grujic, N.Imre, R.Mechtler, K.Dagdas, Y.Naumann, C.2026-02-14doi:10.64898/2026.02.12.705259Cold Spring Harbor Laboratory Press2026-02-14
<![CDATA[
Transposon expansion is associated with reorganization of small RNA and DNA methylation landscapes in the morphologically minimal angiosperm Wolffia brasiliensis
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https://biorxiv.org/cgi/content/short/2026.02.27.708460v1?rss=1"
Buendia-Avila, D.Barragan-Borrero, V.Luna-Rodriguez, P.Akinyuwa, M.Morello, L.Mari-Ordonez, A.2026-03-02doi:10.64898/2026.02.27.708460Cold Spring Harbor Laboratory Press2026-03-02
<![CDATA[
Electrostatic control of chromatin compaction safeguards against apoptotic DNA release
]]>
https://biorxiv.org/cgi/content/short/2026.02.23.707452v1?rss=1"
Spicer, M. F. D.Wijma, S.Schütte, N.Huertas, J. F. D.Maristany, M. J.Lopez, J. I. P.Chen, L.Alaabo, M.Rosen, M. K.Collepardo-Guevara, R.Gerlich, D. W.2026-02-24doi:10.64898/2026.02.23.707452Cold Spring Harbor Laboratory Press2026-02-24
<![CDATA[
Identification of MED13 and DDX60 as critical host factors for SARS-CoV-2 infections
]]>
https://biorxiv.org/cgi/content/short/2026.02.25.707691v1?rss=1"
Kwon, H.Wai, S. T.Michlits, G.Dyczynski, M.Markovic, A.Rocha Berger, A. S. B.JOHN, L.Horn, M.Weber, F.Penninger, J. M.Monteil, V.Mirazimi, A.2026-02-25doi:10.64898/2026.02.25.707691Cold Spring Harbor Laboratory Press2026-02-25
<![CDATA[
A targeted drug-repurposing strategy identifies Tavaborole (Kerydin) as a potent fungistatic agent against Candida auris
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https://biorxiv.org/cgi/content/short/2026.02.27.708474v1?rss=1"
Mazumdar, R.Bjelanovic, A.2026-02-28doi:10.64898/2026.02.27.708474Cold Spring Harbor Laboratory Press2026-02-28
<![CDATA[
A clubroot pathogen PBS3-like effector manipulates hormonal crosstalk to alter root morphology during colonization
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https://biorxiv.org/cgi/content/short/2026.03.10.710858v1?rss=1"
Gonzalez-Garcia, M.Wu, J.Silvestre-Vano, M.Mukhopadhyay, S.Fantino, E. I.Malinowski, R.Stefanowicz, K.Major, I.Perez-Lopez, E.2026-03-13doi:10.64898/2026.03.10.710858Cold Spring Harbor Laboratory Press2026-03-13
<![CDATA[
A Modular Framework for Automated Segmentation and Analysis of AFM Imaging of Chromatin Organization
]]>
https://biorxiv.org/cgi/content/short/2026.03.06.708946v1?rss=1"
Sorensen, E. W.Pangeni, S.Merino-Urteaga, R.Murray, P. J.Rudnizky, S.Liao, T.-W.Rashid, F.Hwang, J.Yamadi, M.Feng, X. A.Zähringer, J.Gu, S.Davidson, I. F.Caccianini, L.Osorio-Valeriano, M.Farnung, L.Vos, S.Peters, J.-M.Berger, J. M.Wu, C.Hatzakis, N. S.Kirkegaard, J. B.Ha, T.2026-03-07doi:10.64898/2026.03.06.708946Cold Spring Harbor Laboratory Press2026-03-07
<![CDATA[
Proteome remodelling in Candida auris during early host adaptation in-vitro and in-vivo
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https://biorxiv.org/cgi/content/short/2026.03.09.710370v1?rss=1"
Mazumdar, R.Bjelanovic, A.2026-03-09doi:10.64898/2026.03.09.710370Cold Spring Harbor Laboratory Press2026-03-09
<![CDATA[
CRISPR screens establish regulatory maps of immunosuppressive surface molecules in cancer
]]>
https://biorxiv.org/cgi/content/short/2026.03.10.710555v1?rss=1"
Kalis, R.Deswal, S.Schaefer, M.Kalxdorf, M.Jude, J.Lipp, J.Rieser, S.Vogt, V.de Almeida, M.Fellner, M.Ruhland, S.Frasz, L.Andersch, F.Krijgsveld, J.Carotta, S.Zuber, J.2026-03-11doi:10.64898/2026.03.10.710555Cold Spring Harbor Laboratory Press2026-03-11
<![CDATA[
Marine bacterial resistomes integrate ecological adaptation with anthropogenic amplification: genome-resolved insight along a gradient of human impact
]]>
https://biorxiv.org/cgi/content/short/2026.03.13.711565v1?rss=1"
Spriahailo, D.Adenaya, A.Brinkhoff, T. H.Reinthaler, T.2026-03-14doi:10.64898/2026.03.13.711565Cold Spring Harbor Laboratory Press2026-03-14
<![CDATA[
A complex of MAST1 and 14-3-3 regulates Tau phosphorylation in the developing cortex
]]>
https://biorxiv.org/cgi/content/short/2025.07.09.663707v1?rss=1"
Antonioli, S.Heisterkamp, P.Chen, W.Anrather, D.Hartl, M.Martinez-Reza, M.-F.Tripathy, R.Schutzbier, M.Mechtler, K.Keays, D. A.Leonard, T. A.2025-07-11doi:10.1101/2025.07.09.663707Cold Spring Harbor Laboratory Press2025-07-11
<![CDATA[
VIA1 is a conserved regulator of thylakoid membrane integrity that acts through VIPP1
]]>
https://biorxiv.org/cgi/content/short/2026.03.26.714412v1?rss=1"
Vetrano, P.Krall, K.Martinez, L.Traverso, E.Morosinotto, T.Irwin, N. A. T.Mazor, Y.Ramundo, S.2026-03-28doi:10.64898/2026.03.26.714412Cold Spring Harbor Laboratory Press2026-03-28
<![CDATA[
Septin-mediated coupling of protein import and division during chloroplast evolution
]]>
https://biorxiv.org/cgi/content/short/2026.03.28.715002v1?rss=1"
Delic, S.Vetrano, P.Simon, C. S.Su, D.Xiang, Y.Wu, S.-Z.von der Heyde, E. L.Tajima-Shirasaki, N.Chen, S.-A.Brillada, C.Hallmann, A.Bezanilla, M.Banterle, N.Dey, G.Ramundo, S.Onishi, M.2026-03-30doi:10.64898/2026.03.28.715002Cold Spring Harbor Laboratory Press2026-03-30
<![CDATA[
Logic of optimal collective migration in heterogeneous tissues
]]>
https://biorxiv.org/cgi/content/short/2026.03.19.712843v1?rss=1"
Gubbala, U. R.Pinheiro, D.Hannezo, E.2026-03-20doi:10.64898/2026.03.19.712843Cold Spring Harbor Laboratory Press2026-03-20
<![CDATA[
PHOTOTROPIN-mediated blue light signaling orients the asymmetry of Marchantia polymorpha spores
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https://biorxiv.org/cgi/content/short/2026.03.22.713455v1?rss=1"
Roetzer, J.Slovak, R.Wallner, E.-S.Edelbacher, N.Asper, B.Deiber, S.Seitner, S.Colombini, M.Dolan, L.2026-03-24doi:10.64898/2026.03.22.713455Cold Spring Harbor Laboratory Press2026-03-24
<![CDATA[
Oncogenic E3-ligase adaptors MAGE-A3/6 promote cancer cell migration via BAP18 degradation
]]>
https://biorxiv.org/cgi/content/short/2026.03.23.713706v1?rss=1"
Schneider, M. W. G.Polgar, M. S.Kalis, R. W.Barbulescu, P.Brunner, N.Madalinski, M.Barsyte-Lovejoy, D.Zuber, J.Koegl, M.Neumueller, R. A.Martinelli, P.2026-03-25doi:10.64898/2026.03.23.713706Cold Spring Harbor Laboratory Press2026-03-25
<![CDATA[
Herpes simplex virus infection promotes ALS pathology through ICP0-mediated PML body disruption
]]>
https://biorxiv.org/cgi/content/short/2026.03.27.714707v1?rss=1"
Freisem, D.Rombach, D.Brockmann, S.Fink, A.Engels, Z.de Luna, A.Acharya, D.Hoenigsperger, H.Goreth, A.Tigges, S.Hagmann, I.van Gent, M.Zech, F.Ponomarenko, A.Rosenbohm, A.Dorst, J.Petri, S.Mollenhauer, B.Weishaupt, J.Tumani, H.Gadalla, M. R.Huzly, D.Gaidt, M.Sodeik, B.Viejo-Borbolla, A.Otto, M.Stamminger, T.Kirchhoff, F.Krawcyk, A.Dittmer, U.Doelken, L.Boeckers, T.Catanese, A.Doblhammer, G.Verjans, G. M.Kaufer, B. B.Gack, M. U.Full, F.Hengel, H.Grozdanov, V.Sparrer, K. M.Danzer, K. M.2026-03-27doi:10.64898/2026.03.27.714707Cold Spring Harbor Laboratory Press2026-03-27
<![CDATA[
Kinetic logic of uridylation-mediated RNA decay
]]>
https://biorxiv.org/cgi/content/short/2026.03.27.714668v1?rss=1"
Sgromo, A.Jordan, B. M.Aerestad, A.Moersdorf, D.Boneberg, F.Jinek, M.Burkard, T. R.Popitsch, N.Ameres, S. L.2026-03-27doi:10.64898/2026.03.27.714668Cold Spring Harbor Laboratory Press2026-03-27
<![CDATA[
Inhibition of V-ATPase function drives apoptosis via GCN1/GCN2 kinase signaling
]]>
https://biorxiv.org/cgi/content/short/2026.03.27.714872v1?rss=1"
Gallob, F.Lechner, S.Tuckova, D.Tyshchenko, Y.Drpic, D.Hajek, J.Englmaier, L.Delawska, K.Unterlass, M.Araujo, M.Winter, G. E.Hrouzek, P.Villunger, A. E.2026-03-28doi:10.64898/2026.03.27.714872Cold Spring Harbor Laboratory Press2026-03-28
<![CDATA[
UFMylation anchors splicing factors at the ER to reprogram nuclear splicing
]]>
https://biorxiv.org/cgi/content/short/2026.03.30.715226v1?rss=1"
Zhan, N.Papareddy, R. K.Bu, E.Anisimova, A.Perdigao, C.Tirard-Thevenoud, M.Mihailovic, M.Akyol, H.Karagoz, E.Brose, N.Irwin, N.Dagdas, Y.2026-03-30doi:10.64898/2026.03.30.715226Cold Spring Harbor Laboratory Press2026-03-30