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hal.structure.identifierState Key Laboratory for Biology of Plant Diseases and Insect Pests
dc.contributor.authorGAO, Rui
hal.structure.identifierState Key Laboratory for Biology of Plant Diseases and Insect Pests
dc.contributor.authorXU, Yunxiao
hal.structure.identifierBiologie du fruit et pathologie [BFP]
dc.contributor.authorCANDRESSE, Thierry
hal.structure.identifierYangzhou University
dc.contributor.authorHE, Zhen
hal.structure.identifierState Key Laboratory for Biology of Plant Diseases and Insect Pests
dc.contributor.authorLI, Shifang
hal.structure.identifierState Key Laboratory for Biology of Plant Diseases and Insect Pests
dc.contributor.authorMA, Yuxin
hal.structure.identifierState Key Laboratory for Biology of Plant Diseases and Insect Pests
dc.contributor.authorLU, Meiguang
dc.date.issued2017
dc.identifier.issn1932-6203
dc.description.abstractEnCherry virus A (CVA) infection appears to be prevalent in cherry plantations worldwide. In this study, the diversity of CVA isolates from 31 cherry samples collected from different orchards around Bohai Bay in northeastern China was analyzed. The complete genome of one of these isolates, ChYT52, was found to be 7,434 nt in length excluding the poly (A) tail. It shares between 79.9-98.7% identity with CVA genome sequences in GenBank, while its RdRp core is more divergent (79.1-90.7% nt identity), likely as a consequence of a recombination event. Phylogenetic analysis of ChYT52 genome with CVA genomes in Genbank resulted in at least 7 major clusters plus additional 5 isolates alone at the end of long branches suggesting the existence of further phylogroups diversity in CVA. The genetic diversity of Chinese CVA isolates from 31 samples and GenBank sequences were analyzed in three genomic regions that correspond to the coat protein, the RNA-dependent RNA polymerase core region, and the movement protein genes. With few exceptions likely representing further recombination impact, the trees various trees are largely congruent, indicating that each region provides valuable phylogenetic information. In all cases, the majority of the Chinese CVA isolates clustering in phylogroup I, together with the X82547 reference sequence from Germany. Statistically significant negative values were obtained for Tajima's D in the three genes for phylogroup I, suggesting that it may be undergoing a period of expansion. There was considerable haplotype diversity in the individual samples and more than half samples contained genetically diverse haplotypes belonging to different phylogroups. In addition, a number of statistically significant recombination events were detected in CVA genomes or in the partial genomic sequences indicating an important contribution of recombination to CVA evolution. This work provides a foundation for elucidation of the epidemiological characteristics and evolutionary history of CVA populations.
dc.language.isoen
dc.publisherPublic Library of Science
dc.rights.urihttp://creativecommons.org/licenses/by/
dc.title.enFurther insight into genetic variation and haplotype diversity of <em>Cherry virus A</em> from China.
dc.typeArticle de revue
dc.identifier.doi10.1371/journal.pone.0186273
dc.subject.halSciences du Vivant [q-bio]/Biologie végétale/Phytopathologie et phytopharmacie
dc.subject.halSciences du Vivant [q-bio]/Microbiologie et Parasitologie/Virologie
bordeaux.journalPLoS ONE
bordeaux.pagee0186273
bordeaux.volume12
bordeaux.issue10
bordeaux.peerReviewedoui
hal.identifierhal-02629126
hal.version1
hal.popularnon
hal.audienceInternationale
hal.origin.linkhttps://hal.archives-ouvertes.fr//hal-02629126v1
bordeaux.COinSctx_ver=Z39.88-2004&amp;rft_val_fmt=info:ofi/fmt:kev:mtx:journal&amp;rft.jtitle=PLoS%20ONE&amp;rft.date=2017&amp;rft.volume=12&amp;rft.issue=10&amp;rft.spage=e0186273&amp;rft.epage=e0186273&amp;rft.eissn=1932-6203&amp;rft.issn=1932-6203&amp;rft.au=GAO,%20Rui&amp;XU,%20Yunxiao&amp;CANDRESSE,%20Thierry&amp;HE,%20Zhen&amp;LI,%20Shifang&amp;rft.genre=article


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