Rapid turnover of intra-host genetic diversity in Zucchini yellow mosaic virus
Identifieur interne : 000C73 ( Ncbi/Merge ); précédent : 000C72; suivant : 000C74Rapid turnover of intra-host genetic diversity in Zucchini yellow mosaic virus
Auteurs : Heather E. Simmons [États-Unis] ; Edward C. Holmes [États-Unis] ; Andrew G. Stephenson [États-Unis]Source :
- Virus research [ 0168-1702 ] ; 2010.
Abstract
Genetic diversity in RNA viruses is shaped by a variety of evolutionary processes, including the bottlenecks that may occur at inter-host transmission. However, how these processes structure genetic variation at the scale of individual hosts is only partly understood. We obtained intra-host sequence data for the coat protein (CP) gene of Zucchini yellow mosaic virus (ZYMV) from two horizontally transmitted populations – one via aphid, the other without – and with multiple samples from individual plants. We show that although mutations are generated relatively frequently within infected plants, attaining similar levels of genetic diversity to that seen in some animal RNA viruses (mean intra-sample diversity of 0.02%), most mutations are likely to be transient, deleterious, and purged rapidly. We also observed more population structure in the aphid transmitted viral population, including the same mutations in multiple clones, the presence of a sub-lineage, and evidence for the short-term complementation of defective genomes.
Url:
DOI: 10.1016/j.virusres.2010.11.007
PubMed: 21138748
PubMed Central: 3026904
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USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Pennsylvanie</region></placeName><wicri:cityArea> Center for Infectious Disease Dynamics, Department of Biology, The Pennsylvania State University, University Park</wicri:cityArea></affiliation><affiliation wicri:level="2"><nlm:aff id="A2"> Fogarty International Center, National Institutes of Health, Bethesda, MD 20892. USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Maryland</region></placeName><wicri:cityArea> Fogarty International Center, National Institutes of Health, Bethesda</wicri:cityArea></affiliation></author><author><name sortKey="Stephenson, Andrew G" sort="Stephenson, Andrew G" uniqKey="Stephenson A" first="Andrew G." last="Stephenson">Andrew G. Stephenson</name><affiliation wicri:level="2"><nlm:aff id="A1"> Center for Infectious Disease Dynamics, Department of Biology, The Pennsylvania State University, University Park, PA 16802. USA</nlm:aff><country xml:lang="fr">États-Unis</country><placeName><region type="state">Pennsylvanie</region></placeName><wicri:cityArea> Center for Infectious Disease Dynamics, Department of Biology, The Pennsylvania State University, University Park</wicri:cityArea></affiliation></author></analytic><series><title level="j">Virus research</title><idno type="ISSN">0168-1702</idno><idno type="eISSN">1872-7492</idno><imprint><date when="2010">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p id="P2">Genetic diversity in RNA viruses is shaped by a variety of evolutionary processes, including the bottlenecks that may occur at inter-host transmission. However, how these processes structure genetic variation at the scale of individual hosts is only partly understood. We obtained intra-host sequence data for the coat protein (CP) gene of Zucchini yellow mosaic virus (ZYMV) from two horizontally transmitted populations – one via aphid, the other without – and with multiple samples from individual plants. We show that although mutations are generated relatively frequently within infected plants, attaining similar levels of genetic diversity to that seen in some animal RNA viruses (mean intra-sample diversity of 0.02%), most mutations are likely to be transient, deleterious, and purged rapidly. We also observed more population structure in the aphid transmitted viral population, including the same mutations in multiple clones, the presence of a sub-lineage, and evidence for the short-term complementation of defective genomes.</p></div></front></TEI><pmc article-type="research-article" xml:lang="EN"><pmc-comment>The publisher of this article does not allow downloading of the full text in XML form.</pmc-comment>
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<front><journal-meta><journal-id journal-id-type="nlm-journal-id">8410979</journal-id><journal-id journal-id-type="pubmed-jr-id">7967</journal-id><journal-id journal-id-type="nlm-ta">Virus Res</journal-id><journal-title>Virus research</journal-title><issn pub-type="ppub">0168-1702</issn><issn pub-type="epub">1872-7492</issn></journal-meta><article-meta><article-id pub-id-type="pmid">21138748</article-id><article-id pub-id-type="pmc">3026904</article-id><article-id pub-id-type="doi">10.1016/j.virusres.2010.11.007</article-id><article-id pub-id-type="manuscript">NIHMS257783</article-id><article-categories><subj-group subj-group-type="heading"><subject>Article</subject></subj-group></article-categories><title-group><article-title>Rapid turnover of intra-host genetic diversity in Zucchini yellow mosaic virus</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Simmons</surname><given-names>Heather E.</given-names></name><xref rid="A1" ref-type="aff">a</xref></contrib><contrib contrib-type="author"><name><surname>Holmes</surname><given-names>Edward C.</given-names></name><xref rid="A1" ref-type="aff">a</xref><xref rid="A2" ref-type="aff">b</xref></contrib><contrib contrib-type="author"><name><surname>Stephenson</surname><given-names>Andrew G.</given-names></name><xref rid="A1" ref-type="aff">a</xref></contrib></contrib-group><aff id="A1"><label>a</label> Center for Infectious Disease Dynamics, Department of Biology, The Pennsylvania State University, University Park, PA 16802. USA</aff><aff id="A2"><label>b</label> Fogarty International Center, National Institutes of Health, Bethesda, MD 20892. USA</aff><author-notes><corresp id="FN1">Correspondence author: Edward C. Holmes, Center for Infectious Disease Dynamics, Department of Biology, Department of Biology, The Pennsylvania State University, University Park, PA 16802. USA., <email>ech15@psu.edu</email>; Tel: 1 814 863 4689; Fax: 1 814 865 9131</corresp></author-notes><pub-date pub-type="nihms-submitted"><day>10</day><month>12</month><year>2010</year></pub-date><pub-date pub-type="epub"><day>4</day><month>12</month><year>2010</year></pub-date><pub-date pub-type="ppub"><month>2</month><year>2011</year></pub-date><pub-date pub-type="pmc-release"><day>1</day><month>2</month><year>2012</year></pub-date><volume>155</volume><issue>2</issue><fpage>389</fpage><lpage>396</lpage><abstract><p id="P2">Genetic diversity in RNA viruses is shaped by a variety of evolutionary processes, including the bottlenecks that may occur at inter-host transmission. However, how these processes structure genetic variation at the scale of individual hosts is only partly understood. We obtained intra-host sequence data for the coat protein (CP) gene of Zucchini yellow mosaic virus (ZYMV) from two horizontally transmitted populations – one via aphid, the other without – and with multiple samples from individual plants. We show that although mutations are generated relatively frequently within infected plants, attaining similar levels of genetic diversity to that seen in some animal RNA viruses (mean intra-sample diversity of 0.02%), most mutations are likely to be transient, deleterious, and purged rapidly. We also observed more population structure in the aphid transmitted viral population, including the same mutations in multiple clones, the presence of a sub-lineage, and evidence for the short-term complementation of defective genomes.</p></abstract><kwd-group><kwd>evolution</kwd><kwd>intra-host diversity</kwd><kwd>Zucchini yellow mosaic virus</kwd><kwd>plant RNA virus</kwd><kwd>potyvirus</kwd><kwd>complementation</kwd></kwd-group><contract-num rid="GM1">R01 GM080533-04
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