Expansion of the global RNA virome reveals diverse clades of bacteriophages

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dc.contributor.authorNeri, Uri
dc.contributor.authorWolf, Yuri I.
dc.contributor.authorRoux, Simon
dc.contributor.authorCamargo, Antonio Pedro
dc.contributor.authorLee, Benjamin
dc.contributor.authorKazlauskas, Darius
dc.contributor.authorChen, I. Min
dc.contributor.authorIvanova, Natalia
dc.contributor.authorZeigler Allen, Lisa
dc.contributor.authorPaez-Espino, David
dc.contributor.authorBryant, Donald A.
dc.contributor.authorBhaya, Devaki
dc.contributor.authorKrupovic, Mart
dc.contributor.authorDolja, Valerian V.
dc.contributor.authorKyrpides, Nikos C.
dc.contributor.authorKoonin, Eugene V.
dc.contributor.authorGophna, Uri
dc.contributor.authorRNA Virus Discovery Consortium
dc.contributor.authorNarrowe, Adrienne B.
dc.contributor.authorRamírez Nasto, Lucía
dc.contributor.authorWang, Zhong
dc.contributor.authorNusslein, Klaus
dc.contributor.authorMeredith, Laura K.
dc.contributor.authorBuée, Marc
dc.contributor.authorHuntemann, Marcel
dc.contributor.authorKalyuzhnaya, Marina G.
dc.contributor.authorWaldrop, Mark P.
dc.contributor.authorSullivan, Matthew B.
dc.contributor.authorSchrenk, Matthew O.
dc.contributor.authorHess, Matthias
dc.contributor.authorVega, Michael A.
dc.contributor.authorO’Malley, Michelle A.
dc.contributor.authorMedina, Mónica
dc.contributor.authorGilbert, Naomi E.
dc.contributor.authorDelherbe, Nathalie
dc.contributor.authorMason, Olivia U.
dc.contributor.authorProbst, Alexander J.
dc.contributor.authorSczyrba, Alexander
dc.contributor.authorKohler, Annegret
dc.contributor.authorSéguin, Armand
dc.contributor.authorShade, Ashley
dc.contributor.authorCampbell, Barbara J.
dc.contributor.authorLindahl, Björn D.
dc.contributor.authorReese, Brandi Kiel
dc.contributor.authorRoque, Breanna M.
dc.contributor.authorDeRito, Christopher
dc.contributor.authorAverill, Colin
dc.contributor.authorCullen, Daniel
dc.contributor.authorBeck, David A.C.
dc.contributor.authorWalsh, David A.
dc.contributor.authorWard, David M.
dc.contributor.authorWu, Dongying
dc.contributor.authorEloe-Fadrosh, Emiley
dc.contributor.authorBrodie, Eoin L.
dc.contributor.authorDijkstra, Paul
dc.contributor.authorChuckran, Peter F.
dc.contributor.authorBaldrian, Petr
dc.contributor.authorConstant, Philippe
dc.contributor.authorStepanauskas, Ramunas
dc.contributor.authorDaly, Rebecca A.
dc.contributor.authorLamendella, Regina
dc.contributor.authorGruninger, Robert J.
dc.contributor.authorMcKay, Robert M.
dc.contributor.authorHylander, Samuel
dc.contributor.authorLebeis, Sarah L.
dc.contributor.authorEsser, Sarah P.
dc.contributor.authorAcinas, Silvia G.
dc.contributor.authorYoung, Erica B.
dc.contributor.authorLilleskov, Erik A.
dc.contributor.authorCastillo, Federico J.
dc.contributor.authorMartin, Francis
dc.contributor.authorLeCleir, Gary R.
dc.contributor.authorAttwood, Graeme T.
dc.contributor.authorCadillo-Quiroz, Hinsby
dc.contributor.authorSimon, Holly M.
dc.contributor.authorHewson, Ian
dc.contributor.authorGrigoriev, Igor V.
dc.contributor.authorTiedje, James M.
dc.contributor.authorJansson, Janet K.
dc.contributor.authorLee, Janey
dc.contributor.authorVanderGheynst, Jean S.
dc.contributor.authorDangl, Jeff
dc.contributor.authorBowman, Jeff S.
dc.contributor.authorBlanchard, Jeffrey L.
dc.contributor.authorBowen, Jennifer L.
dc.contributor.authorXu, Jiangbing
dc.contributor.authorBanfield, Jillian F.
dc.contributor.authorDeming, Jody W.
dc.contributor.authorKostka, Joel E.
dc.contributor.authorGladden, John M.
dc.contributor.authorRapp, Josephine Z.
dc.contributor.authorSharpe, Joshua
dc.contributor.authorMcMahon, Katherine D.
dc.contributor.authorTreseder, Kathleen K.
dc.contributor.authorBidle, Kay D.
dc.contributor.authorWrighton, Kelly C.
dc.contributor.authorThamatrakoln, Kimberlee
dc.contributor.authorWilhelm, Steven S.
dc.contributor.authorSinger, Steven W.
dc.contributor.authorTringe, Susannah S.
dc.contributor.authorWoyke, Tanja
dc.contributor.authorReddy, T.B.K.
dc.contributor.authorBell, Terrence H.
dc.contributor.authorMock, Thomas
dc.contributor.authorMcAllister, Tim
dc.contributor.authorThiel, Vera
dc.contributor.authorDenef, Vincent J.
dc.contributor.authorLiu, Wen-Tso
dc.contributor.authorMartens-Habbena, Willm
dc.contributor.authorLiu, Xiao-Jun Allen
dc.contributor.authorCooper, Zachary S.
dc.contributor.departmentAgronomía, Biotecnología y Alimentaciónes_ES
dc.contributor.departmentAgronomia, Bioteknologia eta Elikaduraeu
dc.contributor.departmentInstitute for Multidisciplinary Research in Applied Biology - IMABen
dc.date.accessioned2024-02-01T15:02:57Z
dc.date.available2024-02-01T15:02:57Z
dc.date.issued2022
dc.date.updated2024-02-01T13:59:00Z
dc.description.abstractHigh-throughput RNA sequencing offers broad opportunities to explore the Earth RNA virome. Mining 5,150 diverse metatranscriptomes uncovered >2.5 million RNA virus contigs. Analysis of >330,000 RNA-dependent RNA polymerases (RdRPs) shows that this expansion corresponds to a 5-fold increase of the known RNA virus diversity. Gene content analysis revealed multiple protein domains previously not found in RNA viruses and implicated in virus-host interactions. Extended RdRP phylogeny supports the monophyly of the five established phyla and reveals two putative additional bacteriophage phyla and numerous putative additional classes and orders. The dramatically expanded phylum Lenarviricota, consisting of bacterial and related eukaryotic viruses, now accounts for a third of the RNA virome. Identification of CRISPR spacer matches and bacteriolytic proteins suggests that subsets of picobirnaviruses and partitiviruses, previously associated with eukaryotes, infect prokaryotic hosts.en
dc.description.sponsorshipU.G. and U.N. are supported by the European Research Council (ERC-AdG 787514). U.N. is supported by a fellowship from the Edmond J. Safra Center for Bioinformatics at Tel Aviv University. Y.I.W. and E.V.K. are supported through the Intramural Research Program of the US National Institutes of Health (National Library of Medicine). V.V.D. was partially supported by NIH/NLM/NCBI Visiting Scientist Fellowship. The work of the U.S. Department of Energy Joint Genome Institute (S.R., A.P.C., I.M.C., N.I., D.P.-E., N.C.K., and all JGI co-authors), a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under contract no. DE-AC02-05CH11231. M.K. was supported by l’Agence Nationale de la Recherche grants ANR-20-CE20-009-02 and ANR-21-CE11-0001-01. D.K. was funded by the European Social Fund under no. 09.3.3-LMT-K-712-14-0027. D.A.B. is supported by grant NNX16SJ62G from the NASA Exobiology program, and by grant DE-FG02-94ER20137 from the Photosynthetic Systems Program, Division of Chemical Sciences, Geosciences, and Biosciences (CSGB), Office of Basic Energy Sciences of the U.S. Department of Energy.en
dc.format.mimetypeapplication/pdfen
dc.format.mimetypeapplication/zipen
dc.identifier.citationNeri, U., Wolf, Y. I., Roux, S., Camargo, A. P., Lee, B., Kazlauskas, D., Chen, I. M., Ivanova, N., Zeigler Allen, L., Paez-Espino, D., Bryant, D. A., Bhaya, D., RNA Virus Discovery Consortium, Krupovic, M., Dolja, V. V., Kyrpides, N. C., Koonin, E. V., Gophna, U., Zhong Wang., Nusslein, K., Meredith, L. K., Ramirez, L., Buee, M., Huntemann, M., Kalyuzhnaya, M. G., Waldrop, M. P., Sullivan, M. B., Schrenk, M. O., Hess, M., Vega, M. A., O¿Malley, M. A., Medina, M., Gilbert, N. E., Delherbe, N., Mason, O. U., Narrowe, A. B., Probst, A. J., Sczyrba, A., Kohler, A., Séguin, A., Shade, A., Campbell, B. J., Lindahl, B. D., Reese, B. K., Roque, B. M., DeRito, C., Averill, C., Cullen, D., Beck, D. A. C., Walsh, D. A., Ward, D. M., Wu, D., Eloe-Fadrosh, E., Brodie, E. L., Dijkstra, P., Chuckran, P. F., Baldrian, P., Constant, P., Stepanauskas, R., Daly, R. A., Lamendella, R., Gruninger, R. J., McKay, R. M., Hylander, S., Lebeis, S. L., Esser, S. P., Acinas, S. G., Young, E. B., Lilleskov, E. A., Castillo, F. J., Martin, F. M., LeCleir, G. R., Attwood, G. T., Cadillo-Quiroz, H., Simon, H. M., Hewson, I., Grigoriev, I. V., Tiedje, J. M., Jansson, J. K., Lee, J., VanderGheynst, J. S., Dangl, J., Bowman, J. S., Blanchard, J. L., Bowen, J. L., Xu, J., Banfield, J. F., Deming, J. W., Kostka, J. E., Gladden, J. M., Rapp, J. Z., Sharpe, J., McMahon, K. D., Treseder, K. K., Bidle, K. D., Wrighton, K. C., Thamatrakoln, K., Wilhelm, S. S., Singer, S. W., Tringe, S. S., Woyke, T., Reddy, T. B. K., Bell, T. H., Mock, T., McAllister, T., Thiel, V. (2022) Expansion of the global RNA virome reveals diverse clades of bacteriophages. Cell, 185(22), 4023-4037. https://doi.org/10.1016/j.cell.2022.08.023.en
dc.identifier.doi10.1016/j.cell.2022.08.023
dc.identifier.issn0092-8674
dc.identifier.urihttps://academica-e.unavarra.es/handle/2454/47312
dc.language.isoengen
dc.publisherElsevieren
dc.relation.ispartofCell, 185(21), 2022, 4023-4037.e18en
dc.relation.publisherversionhttps://doi.org/10.1016/j.cell.2022.08.023
dc.rights© 2022 The Authors. This is an open access article under the CC BY-NC-ND license.en
dc.rights.accessRightsinfo:eu-repo/semantics/openAccess
dc.rights.urihttps://creativecommons.org/licenses/by-nc-nd/4.0/
dc.subjectVirusen
dc.subjectBactriophageen
dc.subjectMetatranscriptomicsen
dc.subjectRNA virusen
dc.subjectViral phylogenyen
dc.subjectVirus - Host predictionen
dc.subjectViral ecologyen
dc.subjectFunctional protein annotationen
dc.subjectRNA dependenten
dc.subjectRNA polymeraseen
dc.titleExpansion of the global RNA virome reveals diverse clades of bacteriophagesen
dc.typeinfo:eu-repo/semantics/article
dc.type.versioninfo:eu-repo/semantics/publishedVersion
dspace.entity.typePublication
relation.isAuthorOfPublication7fedbadd-7e13-485e-99cf-252f1a381373
relation.isAuthorOfPublication.latestForDiscovery7fedbadd-7e13-485e-99cf-252f1a381373

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