A genome-wide diversity study of grapevine rupestris stem pitting-associated virus
Over the last decade, many scientific disciplines have been impacted by the dawn of new sequencing techniques (HTS: high throughput sequencing). Plant pathology and more specifically virology have been greatly transformed by this ‘metagenomics’ paradigm shift. Such tools significantly facilitate dis...
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| Veröffentlicht in: | Archives of virology 2018-11, Vol.163 (11), p.3105-3111 |
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| creator | Hily, Jean-Michel Beuve, Monique Vigne, Emmanuelle Demangeat, Gérard Candresse, Thierry Lemaire, Olivier |
| description | Over the last decade, many scientific disciplines have been impacted by the dawn of new sequencing techniques (HTS: high throughput sequencing). Plant pathology and more specifically virology have been greatly transformed by this ‘metagenomics’ paradigm shift. Such tools significantly facilitate disease diagnostics with tremendous sensitivity, providing invaluable information such as an exhaustive list of viruses being present in a sample as well as their relative concentration. In addition, many new plant viruses have been discovered. Using RNAseq technology,
in silico
reconstruction of complete viral genome sequences is easily attainable. This step is of importance for taxonomy, population structure analyses, phylogeography and viral evolution studies. Here, after assembling 81 new near-complete genome sequences of grapevine rupestris stem pitting-associated virus (GRSPaV), we performed a genome-wide diversity study of this ubiquitous virus of grapevine worldwide. |
| doi_str_mv | 10.1007/s00705-018-3945-0 |
| format | Article |
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in silico
reconstruction of complete viral genome sequences is easily attainable. This step is of importance for taxonomy, population structure analyses, phylogeography and viral evolution studies. Here, after assembling 81 new near-complete genome sequences of grapevine rupestris stem pitting-associated virus (GRSPaV), we performed a genome-wide diversity study of this ubiquitous virus of grapevine worldwide.</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-018-3945-0</identifier><identifier>PMID: 30043203</identifier><language>eng</language><publisher>Vienna: Springer Vienna</publisher><subject>Biomedical and Life Sciences ; Biomedicine ; Brief Report ; Genomes ; Infectious Diseases ; Life Sciences ; Medical Microbiology ; Microbiology and Parasitology ; Next-generation sequencing ; Phytopathology and phytopharmacy ; Plant viruses ; Population structure ; Stem pitting ; Taxonomy ; Vegetal Biology ; Virology ; Viruses</subject><ispartof>Archives of virology, 2018-11, Vol.163 (11), p.3105-3111</ispartof><rights>Springer-Verlag GmbH Austria, part of Springer Nature 2018</rights><rights>Archives of Virology is a copyright of Springer, (2018). All Rights Reserved.</rights><rights>Distributed under a Creative Commons Attribution 4.0 International License</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c406t-28fc10f83039dddd3bcaf741f3d71333d4c040ba83f2e7fec2d754cfcd9fa96c3</citedby><cites>FETCH-LOGICAL-c406t-28fc10f83039dddd3bcaf741f3d71333d4c040ba83f2e7fec2d754cfcd9fa96c3</cites><orcidid>0000-0001-9141-9701 ; 0000-0001-9757-1835</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://link.springer.com/content/pdf/10.1007/s00705-018-3945-0$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00705-018-3945-0$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>230,314,777,781,882,27905,27906,41469,42538,51300</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/30043203$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://hal.inrae.fr/hal-02628821$$DView record in HAL$$Hfree_for_read</backlink></links><search><creatorcontrib>Hily, Jean-Michel</creatorcontrib><creatorcontrib>Beuve, Monique</creatorcontrib><creatorcontrib>Vigne, Emmanuelle</creatorcontrib><creatorcontrib>Demangeat, Gérard</creatorcontrib><creatorcontrib>Candresse, Thierry</creatorcontrib><creatorcontrib>Lemaire, Olivier</creatorcontrib><title>A genome-wide diversity study of grapevine rupestris stem pitting-associated virus</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><addtitle>Arch Virol</addtitle><description>Over the last decade, many scientific disciplines have been impacted by the dawn of new sequencing techniques (HTS: high throughput sequencing). Plant pathology and more specifically virology have been greatly transformed by this ‘metagenomics’ paradigm shift. Such tools significantly facilitate disease diagnostics with tremendous sensitivity, providing invaluable information such as an exhaustive list of viruses being present in a sample as well as their relative concentration. In addition, many new plant viruses have been discovered. Using RNAseq technology,
in silico
reconstruction of complete viral genome sequences is easily attainable. This step is of importance for taxonomy, population structure analyses, phylogeography and viral evolution studies. 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in silico
reconstruction of complete viral genome sequences is easily attainable. This step is of importance for taxonomy, population structure analyses, phylogeography and viral evolution studies. Here, after assembling 81 new near-complete genome sequences of grapevine rupestris stem pitting-associated virus (GRSPaV), we performed a genome-wide diversity study of this ubiquitous virus of grapevine worldwide.</abstract><cop>Vienna</cop><pub>Springer Vienna</pub><pmid>30043203</pmid><doi>10.1007/s00705-018-3945-0</doi><tpages>7</tpages><orcidid>https://orcid.org/0000-0001-9141-9701</orcidid><orcidid>https://orcid.org/0000-0001-9757-1835</orcidid></addata></record> |
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| ispartof | Archives of virology, 2018-11, Vol.163 (11), p.3105-3111 |
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| language | eng |
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| subjects | Biomedical and Life Sciences Biomedicine Brief Report Genomes Infectious Diseases Life Sciences Medical Microbiology Microbiology and Parasitology Next-generation sequencing Phytopathology and phytopharmacy Plant viruses Population structure Stem pitting Taxonomy Vegetal Biology Virology Viruses |
| title | A genome-wide diversity study of grapevine rupestris stem pitting-associated virus |
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