Evolution of and Horizontal Gene Transfer in the Endornavirus Genus
Identifieur interne : 001140 ( Pmc/Curation ); précédent : 001139; suivant : 001141Evolution of and Horizontal Gene Transfer in the Endornavirus Genus
Auteurs : Dami Song ; Won Kyong Cho ; Sang-Ho Park ; Yeonhwa Jo ; Kook-Hyung KimSource :
- PLoS ONE [ 1932-6203 ] ; 2013.
Abstract
The transfer of genetic information between unrelated species is referred to as horizontal gene transfer. Previous studies have demonstrated that both retroviral and non-retroviral sequences have been integrated into eukaryotic genomes. Recently, we identified many non-retroviral sequences in plant genomes. In this study, we investigated the evolutionary origin and gene transfer of domains present in endornaviruses which are double-stranded RNA viruses. Using the available sequences for endornaviruses, we found that
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DOI: 10.1371/journal.pone.0064270
PubMed: 23667703
PubMed Central: 3647011
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<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Evolution of and Horizontal Gene Transfer in the <italic>Endornavirus</italic> Genus</title><author><name sortKey="Song, Dami" sort="Song, Dami" uniqKey="Song D" first="Dami" last="Song">Dami Song</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cho, Won Kyong" sort="Cho, Won Kyong" uniqKey="Cho W" first="Won Kyong" last="Cho">Won Kyong Cho</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Park, Sang Ho" sort="Park, Sang Ho" uniqKey="Park S" first="Sang-Ho" last="Park">Sang-Ho Park</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Jo, Yeonhwa" sort="Jo, Yeonhwa" uniqKey="Jo Y" first="Yeonhwa" last="Jo">Yeonhwa Jo</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Kim, Kook Hyung" sort="Kim, Kook Hyung" uniqKey="Kim K" first="Kook-Hyung" last="Kim">Kook-Hyung Kim</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">23667703</idno><idno type="pmc">3647011</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC3647011</idno><idno type="RBID">PMC:3647011</idno><idno type="doi">10.1371/journal.pone.0064270</idno><date when="2013">2013</date><idno type="wicri:Area/Pmc/Corpus">001141</idno><idno type="wicri:Area/Pmc/Curation">001140</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Evolution of and Horizontal Gene Transfer in the <italic>Endornavirus</italic> Genus</title><author><name sortKey="Song, Dami" sort="Song, Dami" uniqKey="Song D" first="Dami" last="Song">Dami Song</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Cho, Won Kyong" sort="Cho, Won Kyong" uniqKey="Cho W" first="Won Kyong" last="Cho">Won Kyong Cho</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Park, Sang Ho" sort="Park, Sang Ho" uniqKey="Park S" first="Sang-Ho" last="Park">Sang-Ho Park</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Jo, Yeonhwa" sort="Jo, Yeonhwa" uniqKey="Jo Y" first="Yeonhwa" last="Jo">Yeonhwa Jo</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author><author><name sortKey="Kim, Kook Hyung" sort="Kim, Kook Hyung" uniqKey="Kim K" first="Kook-Hyung" last="Kim">Kook-Hyung Kim</name><affiliation><nlm:aff id="aff1"></nlm:aff></affiliation></author></analytic><series><title level="j">PLoS ONE</title><idno type="eISSN">1932-6203</idno><imprint><date when="2013">2013</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The transfer of genetic information between unrelated species is referred to as horizontal gene transfer. Previous studies have demonstrated that both retroviral and non-retroviral sequences have been integrated into eukaryotic genomes. Recently, we identified many non-retroviral sequences in plant genomes. In this study, we investigated the evolutionary origin and gene transfer of domains present in endornaviruses which are double-stranded RNA viruses. Using the available sequences for endornaviruses, we found that <italic>Bell pepper endornavirus</italic>-like sequences homologous to the glycosyltransferase 28 domain are present in plants, fungi, and bacteria. The phylogenetic analysis revealed the glycosyltransferase 28 domain of <italic>Bell pepper endornavirus</italic> may have originated from bacteria. In addition, two domains of <italic>Oryza sativa endornavirus</italic>, a glycosyltransferase sugar-binding domain and a capsular polysaccharide synthesis protein, also exhibited high similarity to those of bacteria. We found evidence that at least four independent horizontal gene transfer events for the glycosyltransferase 28 domain have occurred among plants, fungi, and bacteria. The glycosyltransferase sugar-binding domains of two proteobacteria may have been horizontally transferred to the genome of <italic>Thalassiosira pseudonana</italic>. Our study is the first to show that three glycome-related viral genes in the genus <italic>Endornavirus</italic> have been acquired from marine bacteria by horizontal gene transfer.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Jain, R" uniqKey="Jain R">R Jain</name></author><author><name sortKey="Rivera, Mc" uniqKey="Rivera M">MC Rivera</name></author><author><name sortKey="Lake, Ja" uniqKey="Lake J">JA Lake</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Koonin, Ev" uniqKey="Koonin E">EV Koonin</name></author><author><name sortKey="Makarova, Ks" uniqKey="Makarova K">KS Makarova</name></author><author><name sortKey="Aravind, L" uniqKey="Aravind L">L Aravind</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Keeling, Pj" uniqKey="Keeling P">PJ Keeling</name></author><author><name sortKey="Palmer, Jd" uniqKey="Palmer J">JD 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<front><journal-meta><journal-id journal-id-type="nlm-ta">PLoS One</journal-id><journal-id journal-id-type="iso-abbrev">PLoS ONE</journal-id><journal-id journal-id-type="publisher-id">plos</journal-id><journal-id journal-id-type="pmc">plosone</journal-id><journal-title-group><journal-title>PLoS ONE</journal-title></journal-title-group><issn pub-type="epub">1932-6203</issn><publisher><publisher-name>Public Library of Science</publisher-name><publisher-loc>San Francisco, USA</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">23667703</article-id><article-id pub-id-type="pmc">3647011</article-id><article-id pub-id-type="publisher-id">PONE-D-13-07066</article-id><article-id pub-id-type="doi">10.1371/journal.pone.0064270</article-id><article-categories><subj-group subj-group-type="heading"><subject>Research Article</subject></subj-group><subj-group subj-group-type="Discipline-v2"><subject>Biology</subject><subj-group><subject>Biochemistry</subject><subj-group><subject>Enzymes</subject><subj-group><subject>Enzyme Classes</subject><subj-group><subject>Glycosyltransferases</subject></subj-group></subj-group></subj-group></subj-group><subj-group><subject>Computational Biology</subject><subj-group><subject>Genomics</subject><subj-group><subject>Comparative Genomics</subject><subject>Functional Genomics</subject></subj-group></subj-group><subj-group><subject>Evolutionary Modeling</subject><subject>Sequence Analysis</subject></subj-group></subj-group><subj-group><subject>Evolutionary Biology</subject><subj-group><subject>Comparative Genomics</subject><subject>Evolutionary Genetics</subject><subject>Evolutionary Systematics</subject><subject>Genomic Evolution</subject></subj-group></subj-group><subj-group><subject>Genetics</subject><subj-group><subject>Heredity</subject><subj-group><subject>Gene Flow</subject></subj-group></subj-group></subj-group><subj-group><subject>Genomics</subject><subj-group><subject>Comparative Genomics</subject><subject>Genome Evolution</subject></subj-group></subj-group><subj-group><subject>Microbiology</subject><subj-group><subject>Virology</subject><subj-group><subject>Viral Classification</subject><subj-group><subject>RNA viruses</subject></subj-group></subj-group><subj-group><subject>Viral Evolution</subject></subj-group></subj-group><subj-group><subject>Host-Pathogen Interaction</subject><subject>Microbial Evolution</subject></subj-group></subj-group><subj-group><subject>Plant Science</subject></subj-group></subj-group></article-categories><title-group><article-title>Evolution of and Horizontal Gene Transfer in the <italic>Endornavirus</italic> Genus</article-title><alt-title alt-title-type="running-head">Evolution of <italic>Endornaviruses</italic></alt-title></title-group><contrib-group><contrib contrib-type="author" equal-contrib="yes"><name><surname>Song</surname><given-names>Dami</given-names></name><xref ref-type="aff" rid="aff1"></xref></contrib><contrib contrib-type="author" equal-contrib="yes"><name><surname>Cho</surname><given-names>Won Kyong</given-names></name><xref ref-type="aff" rid="aff1"></xref></contrib><contrib contrib-type="author"><name><surname>Park</surname><given-names>Sang-Ho</given-names></name><xref ref-type="aff" rid="aff1"></xref></contrib><contrib contrib-type="author"><name><surname>Jo</surname><given-names>Yeonhwa</given-names></name><xref ref-type="aff" rid="aff1"></xref></contrib><contrib contrib-type="author"><name><surname>Kim</surname><given-names>Kook-Hyung</given-names></name><xref ref-type="aff" rid="aff1"></xref><xref ref-type="corresp" rid="cor1"><sup>*</sup></xref></contrib></contrib-group><aff id="aff1"><addr-line>Department of Agricultural Biotechnology, Plant Genomics and Breeding Institute, Institute for Agriculture and Life Sciences, College of Agriculture and Life Sciences, Seoul National University, Seoul, Republic of Korea</addr-line></aff><contrib-group><contrib contrib-type="editor"><name><surname>Yun</surname><given-names>Sung-Hwan</given-names></name><role>Editor</role><xref ref-type="aff" rid="edit1"></xref></contrib></contrib-group><aff id="edit1"><addr-line>Soonchunhyang University, Republic of Korea</addr-line></aff><author-notes><corresp id="cor1">* E-mail: <email>kookkim@snu.ac.kr</email></corresp><fn fn-type="conflict"><p><bold>Competing Interests: </bold>The authors have declared that no competing interests exist.</p></fn><fn fn-type="con"><p>Conceived and designed the experiments: DS WKC KHK. Performed the experiments: DS WKC SHP YJ. Analyzed the data: DS WKC SHP YJ. Contributed reagents/materials/analysis tools: WKC KHK. Wrote the paper: DS WKC SHP YJ KHK.</p></fn></author-notes><pub-date pub-type="collection"><year>2013</year></pub-date><pub-date pub-type="epub"><day>7</day><month>5</month><year>2013</year></pub-date><volume>8</volume><issue>5</issue><elocation-id>e64270</elocation-id><history><date date-type="received"><day>12</day><month>2</month><year>2013</year></date><date date-type="accepted"><day>10</day><month>4</month><year>2013</year></date></history><permissions><copyright-year>2013</copyright-year><copyright-holder>Song et al</copyright-holder><license><license-p>This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.</license-p></license></permissions><abstract><p>The transfer of genetic information between unrelated species is referred to as horizontal gene transfer. Previous studies have demonstrated that both retroviral and non-retroviral sequences have been integrated into eukaryotic genomes. Recently, we identified many non-retroviral sequences in plant genomes. In this study, we investigated the evolutionary origin and gene transfer of domains present in endornaviruses which are double-stranded RNA viruses. Using the available sequences for endornaviruses, we found that <italic>Bell pepper endornavirus</italic>-like sequences homologous to the glycosyltransferase 28 domain are present in plants, fungi, and bacteria. The phylogenetic analysis revealed the glycosyltransferase 28 domain of <italic>Bell pepper endornavirus</italic> may have originated from bacteria. In addition, two domains of <italic>Oryza sativa endornavirus</italic>, a glycosyltransferase sugar-binding domain and a capsular polysaccharide synthesis protein, also exhibited high similarity to those of bacteria. We found evidence that at least four independent horizontal gene transfer events for the glycosyltransferase 28 domain have occurred among plants, fungi, and bacteria. The glycosyltransferase sugar-binding domains of two proteobacteria may have been horizontally transferred to the genome of <italic>Thalassiosira pseudonana</italic>. Our study is the first to show that three glycome-related viral genes in the genus <italic>Endornavirus</italic> have been acquired from marine bacteria by horizontal gene transfer.</p></abstract><funding-group><funding-statement>This research was supported in part by grants from the National Research Foundation of Korea (NRF) grant funded by the Korea government (MEST) (No. 2011-0010027), the Next-Generation BioGreen 21 Program (No. PJ00798402) through the Rural Development Administration, and the Vegetable Breeding Research Center (No. 710001-03) through the Agriculture Research Center program from the Ministry for Food, Agriculture, Forestry and Fisheries. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.</funding-statement></funding-group><counts><page-count count="12"></page-count></counts></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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