Changes in the composition of the RNA virome mark evolutionary transitions in green plants
Identifieur interne : 000045 ( Main/Exploration ); précédent : 000044; suivant : 000046Changes in the composition of the RNA virome mark evolutionary transitions in green plants
Auteurs : Arcady Mushegian [États-Unis] ; Alexey Shipunov [États-Unis] ; Santiago F. Elena [Espagne, États-Unis]Source :
- BMC Biology [ 1741-7007 ] ; 2016.
Abstract
The known plant viruses mostly infect angiosperm hosts and have RNA or small DNA genomes. The only other lineage of green plants with a relatively well-studied virome, unicellular chlorophyte algae, is mostly infected by viruses with large DNA genomes. Thus RNA viruses and small DNA viruses seem to completely displace large DNA virus genomes in late branching angiosperms. To understand better the expansion of RNA viruses in the taxonomic span between algae and angiosperms, we analyzed the transcriptomes of 66 non-angiosperm plants characterized by the 1000 Plants Genomes Project.
We found homologs of virus RNA-dependent RNA polymerases in 28 non-angiosperm plant species, including algae, mosses, liverworts (
The broadened repertoire of RNA viruses suggests that colonization of land and growth in anatomical complexity in land plants coincided with the acquisition of novel sets of viruses with different strategies of infection and reproduction.
The online version of this article (doi:10.1186/s12915-016-0288-8) contains supplementary material, which is available to authorized users.
Url:
DOI: 10.1186/s12915-016-0288-8
PubMed: 27524491
PubMed Central: 4983792
Affiliations:
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Changes in the composition of the RNA virome mark evolutionary transitions in green plants</title><author><name sortKey="Mushegian, Arcady" sort="Mushegian, Arcady" uniqKey="Mushegian A" first="Arcady" last="Mushegian">Arcady Mushegian</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Division of Molecular and Cellular Biosciences, National Science Foundation, 4201 Wilson Boulevard, Arlington, VA 22230 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Division of Molecular and Cellular Biosciences, National Science Foundation, 4201 Wilson Boulevard, Arlington</wicri:cityArea></affiliation></author><author><name sortKey="Shipunov, Alexey" sort="Shipunov, Alexey" uniqKey="Shipunov A" first="Alexey" last="Shipunov">Alexey Shipunov</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biology, Minot State University, 500 University Avenue West, Minot, ND 58707 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Dakota du Nord</region></placeName><wicri:cityArea>Department of Biology, Minot State University, 500 University Avenue West, Minot</wicri:cityArea></affiliation></author><author><name sortKey="Elena, Santiago F" sort="Elena, Santiago F" uniqKey="Elena S" first="Santiago F." last="Elena">Santiago F. Elena</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, Ingeniero Fausto Elio s/n, 46022 València, Spain</nlm:aff><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, Ingeniero Fausto Elio s/n, 46022 València</wicri:regionArea><placeName><region nuts="2" type="communauté">Communauté valencienne</region></placeName></affiliation><affiliation wicri:level="2"><nlm:aff id="Aff4">The Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM 87501 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Nouveau-Mexique</region></placeName><wicri:cityArea>The Santa Fe Institute, 1399 Hyde Park Road, Santa Fe</wicri:cityArea></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">27524491</idno><idno type="pmc">4983792</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4983792</idno><idno type="RBID">PMC:4983792</idno><idno type="doi">10.1186/s12915-016-0288-8</idno><date when="2016">2016</date><idno type="wicri:Area/Pmc/Corpus">000162</idno><idno type="wicri:Area/Pmc/Curation">000162</idno><idno type="wicri:Area/Pmc/Checkpoint">000043</idno><idno type="wicri:Area/Ncbi/Merge">000748</idno><idno type="wicri:Area/Ncbi/Curation">000748</idno><idno type="wicri:Area/Ncbi/Checkpoint">000748</idno><idno type="wicri:Area/Main/Merge">000045</idno><idno type="wicri:Area/Main/Curation">000045</idno><idno type="wicri:Area/Main/Exploration">000045</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Changes in the composition of the RNA virome mark evolutionary transitions in green plants</title><author><name sortKey="Mushegian, Arcady" sort="Mushegian, Arcady" uniqKey="Mushegian A" first="Arcady" last="Mushegian">Arcady Mushegian</name><affiliation wicri:level="2"><nlm:aff id="Aff1">Division of Molecular and Cellular Biosciences, National Science Foundation, 4201 Wilson Boulevard, Arlington, VA 22230 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Virginie</region></placeName><wicri:cityArea>Division of Molecular and Cellular Biosciences, National Science Foundation, 4201 Wilson Boulevard, Arlington</wicri:cityArea></affiliation></author><author><name sortKey="Shipunov, Alexey" sort="Shipunov, Alexey" uniqKey="Shipunov A" first="Alexey" last="Shipunov">Alexey Shipunov</name><affiliation wicri:level="2"><nlm:aff id="Aff2">Department of Biology, Minot State University, 500 University Avenue West, Minot, ND 58707 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Dakota du Nord</region></placeName><wicri:cityArea>Department of Biology, Minot State University, 500 University Avenue West, Minot</wicri:cityArea></affiliation></author><author><name sortKey="Elena, Santiago F" sort="Elena, Santiago F" uniqKey="Elena S" first="Santiago F." last="Elena">Santiago F. Elena</name><affiliation wicri:level="2"><nlm:aff id="Aff3">Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, Ingeniero Fausto Elio s/n, 46022 València, Spain</nlm:aff><country xml:lang="fr">Espagne</country><wicri:regionArea>Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, Ingeniero Fausto Elio s/n, 46022 València</wicri:regionArea><placeName><region nuts="2" type="communauté">Communauté valencienne</region></placeName></affiliation><affiliation wicri:level="2"><nlm:aff id="Aff4">The Santa Fe Institute, 1399 Hyde Park Road, Santa Fe, NM 87501 USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Nouveau-Mexique</region></placeName><wicri:cityArea>The Santa Fe Institute, 1399 Hyde Park Road, Santa Fe</wicri:cityArea></affiliation></author></analytic><series><title level="j">BMC Biology</title><idno type="eISSN">1741-7007</idno><imprint><date when="2016">2016</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><sec><title>Background</title><p>The known plant viruses mostly infect angiosperm hosts and have RNA or small DNA genomes. The only other lineage of green plants with a relatively well-studied virome, unicellular chlorophyte algae, is mostly infected by viruses with large DNA genomes. Thus RNA viruses and small DNA viruses seem to completely displace large DNA virus genomes in late branching angiosperms. To understand better the expansion of RNA viruses in the taxonomic span between algae and angiosperms, we analyzed the transcriptomes of 66 non-angiosperm plants characterized by the 1000 Plants Genomes Project.</p></sec><sec><title>Results</title><p>We found homologs of virus RNA-dependent RNA polymerases in 28 non-angiosperm plant species, including algae, mosses, liverworts (<italic>Marchantiophyta</italic>), hornworts (<italic>Anthocerotophyta</italic>), lycophytes, a horsetail <italic>Equisetum</italic>, and gymnosperms. Polymerase genes in algae were most closely related to homologs from double-stranded RNA viruses leading latent or persistent lifestyles. Land plants, in addition, contained polymerases close to the homologs from single-stranded RNA viruses of angiosperms, capable of productive infection and systemic spread. For several polymerases, a cognate capsid protein was found in the same library. Another virus hallmark gene family, encoding the 30 K movement proteins, was found in lycophytes and monilophytes but not in mosses or algae.</p></sec><sec><title>Conclusions</title><p>The broadened repertoire of RNA viruses suggests that colonization of land and growth in anatomical complexity in land plants coincided with the acquisition of novel sets of viruses with different strategies of infection and reproduction.</p></sec><sec><title>Electronic supplementary material</title><p>The online version of this article (doi:10.1186/s12915-016-0288-8) contains supplementary material, which is available to authorized users.</p></sec></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Roossinck, Mj" uniqKey="Roossinck M">MJ Roossinck</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Koonin, Ev" uniqKey="Koonin E">EV Koonin</name></author><author><name sortKey="Dolja, Vv" uniqKey="Dolja V">VV 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uniqKey="Magall N S">S Magallón</name></author><author><name sortKey="Hilu, Kw" uniqKey="Hilu K">KW Hilu</name></author><author><name sortKey="Quandt, D" uniqKey="Quandt D">D Quandt</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Johnson, Mt" uniqKey="Johnson M">MT Johnson</name></author><author><name sortKey="Carpenter, Ej" uniqKey="Carpenter E">EJ Carpenter</name></author><author><name sortKey="Tian, Z" uniqKey="Tian Z">Z Tian</name></author><author><name sortKey="Bruskiewich, R" uniqKey="Bruskiewich R">R Bruskiewich</name></author><author><name sortKey="Burris, Jn" uniqKey="Burris J">JN Burris</name></author><author><name sortKey="Carrigan, Ct" uniqKey="Carrigan C">CT Carrigan</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Kreuze, J" uniqKey="Kreuze J">J Kreuze</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chavez Montes, Ra" uniqKey="Chavez Montes R">RA Chávez Montes</name></author><author><name sortKey="De Fatima, R Cf" uniqKey="De Fatima R">R-CF de Fátima</name></author><author><name sortKey="De Paoli, E" uniqKey="De Paoli E">E De Paoli</name></author><author><name sortKey="Accerbi, M" uniqKey="Accerbi M">M Accerbi</name></author><author><name sortKey="Rymarquis, La" uniqKey="Rymarquis L">LA Rymarquis</name></author><author><name sortKey="Mahalingam, G" uniqKey="Mahalingam G">G Mahalingam</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Marchler Bauer, A" uniqKey="Marchler Bauer A">A Marchler-Bauer</name></author><author><name sortKey="Derbyshire, Mk" uniqKey="Derbyshire M">MK Derbyshire</name></author><author><name sortKey="Gonzales, Nr" uniqKey="Gonzales N">NR Gonzales</name></author><author><name sortKey="Lu, S" uniqKey="Lu S">S Lu</name></author><author><name sortKey="Chitsaz, F" uniqKey="Chitsaz F">F Chitsaz</name></author><author><name sortKey="Geer, Ly" uniqKey="Geer L">LY Geer</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Edgar, Rc" uniqKey="Edgar R">RC Edgar</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Soding, J" uniqKey="Soding J">J Söding</name></author><author><name sortKey="Biegert, A" uniqKey="Biegert A">A Biegert</name></author><author><name sortKey="Lupas, An" uniqKey="Lupas A">AN Lupas</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Le, Sq" uniqKey="Le S">SQ Le</name></author><author><name sortKey="Gascuel, O" uniqKey="Gascuel O">O Gascuel</name></author></analytic></biblStruct><biblStruct></biblStruct><biblStruct><analytic><author><name sortKey="Okuno, K" uniqKey="Okuno K">K Okuno</name></author><author><name sortKey="Hama, T" uniqKey="Hama T">T Hama</name></author><author><name sortKey="Takeshita, M" uniqKey="Takeshita M">M Takeshita</name></author><author><name sortKey="Furuya, N" uniqKey="Furuya N">N Furuya</name></author><author><name sortKey="Takanami, Y" uniqKey="Takanami Y">Y Takanami</name></author></analytic></biblStruct></listBibl></div1></back></TEI><affiliations><list><country><li>Espagne</li><li>États-Unis</li></country><region><li>Communauté valencienne</li><li>Dakota du Nord</li><li>Nouveau-Mexique</li><li>Virginie</li></region></list><tree><country name="États-Unis"><region name="Virginie"><name sortKey="Mushegian, Arcady" sort="Mushegian, Arcady" uniqKey="Mushegian A" first="Arcady" last="Mushegian">Arcady Mushegian</name></region><name sortKey="Elena, Santiago F" sort="Elena, Santiago F" uniqKey="Elena S" first="Santiago F." last="Elena">Santiago F. Elena</name><name sortKey="Shipunov, Alexey" sort="Shipunov, Alexey" uniqKey="Shipunov A" first="Alexey" last="Shipunov">Alexey Shipunov</name></country><country name="Espagne"><region name="Communauté valencienne"><name sortKey="Elena, Santiago F" sort="Elena, Santiago F" uniqKey="Elena S" first="Santiago F." last="Elena">Santiago F. Elena</name></region></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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