Contribution of Next-Generation Sequencing to Aquatic and Fish Virology
The recent technological advances in nucleic acid sequencing, called next-generation sequencing (NGS), have revolutionized the field of genomics and have also influenced viral research. Aquatic viruses, and especially those infecting fish, have also greatly benefited from NGS technologies, which pro...
Gespeichert in:
| Veröffentlicht in: | Intervirology 2016-01, Vol.59 (5-6), p.285-300 |
|---|---|
| Hauptverfasser: | , , , , , |
| Format: | Artikel |
| Sprache: | eng |
| Schlagworte: | |
| Online-Zugang: | Volltext |
| Tags: |
Tag hinzufügen
Keine Tags, Fügen Sie den ersten Tag hinzu!
|
| container_end_page | 300 |
|---|---|
| container_issue | 5-6 |
| container_start_page | 285 |
| container_title | Intervirology |
| container_volume | 59 |
| creator | Nkili-Meyong, Andriniaina Andy Bigarré, Laurent Labouba, Ingrid Vallaeys, Tatiana Avarre, Jean-Christophe Berthet, Nicolas |
| description | The recent technological advances in nucleic acid sequencing, called next-generation sequencing (NGS), have revolutionized the field of genomics and have also influenced viral research. Aquatic viruses, and especially those infecting fish, have also greatly benefited from NGS technologies, which provide a huge amount of molecular information at a low cost in a relatively short period of time. Here, we review the use of the current high-throughput sequencing platforms with a special focus on the associated challenges (regarding sample preparation and bioinformatics) in their applications to the field of aquatic virology, especially for: (i) discovering novel viruses that may be associated with fish mortalities, (ii) elucidating the mechanisms of pathogenesis, and finally (iii) studying the molecular epidemiology of these pathogens. |
| doi_str_mv | 10.1159/000477808 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_cross</sourceid><recordid>TN_cdi_crossref_primary_10_1159_000477808</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>1915555984</sourcerecordid><originalsourceid>FETCH-LOGICAL-c375t-efaaa143f8a42ef9dda102c3f5335a8332c973dd68972a4f2217a9f40d7bd45b3</originalsourceid><addsrcrecordid>eNpFkM1PwjAYhxujEUQP3o3ZUQ_TftL1SIiACdGDH9em21qojhXazch_bxGc76XJL0-fvO8PgEsE7xBi4h5CSDnPYHYE-ohikkIE4THoQwJhyhge9sBZCB8RI4jAU9DD2XCYCSb6YDp2deNt3jbW1YkzyZP-btKprrVXv9GL3rS6Lmy9SBqXjDZtjItE1WUysWGZvFvvKrfYnoMTo6qgLw7vALxNHl7Hs3T-PH0cj-ZpQThrUm2UUogSkymKtRFlqRDEBTGMEKYyQnAhOCnLuB3HihqMEVfCUFjyvKQsJwNwu_cuVSXX3q6U30qnrJyN5nKXQSww5gJ9ocje7Nm1d_GI0MiVDYWuKlVr1waJBGJxREb_tYV3IXhtOjeCctex7DqO7PVB2-YrXXbkX6kRuNoDn8ovtO-Aw_8fhZd-AA</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>1915555984</pqid></control><display><type>article</type><title>Contribution of Next-Generation Sequencing to Aquatic and Fish Virology</title><source>Karger Journals Complete</source><creator>Nkili-Meyong, Andriniaina Andy ; Bigarré, Laurent ; Labouba, Ingrid ; Vallaeys, Tatiana ; Avarre, Jean-Christophe ; Berthet, Nicolas</creator><creatorcontrib>Nkili-Meyong, Andriniaina Andy ; Bigarré, Laurent ; Labouba, Ingrid ; Vallaeys, Tatiana ; Avarre, Jean-Christophe ; Berthet, Nicolas</creatorcontrib><description>The recent technological advances in nucleic acid sequencing, called next-generation sequencing (NGS), have revolutionized the field of genomics and have also influenced viral research. Aquatic viruses, and especially those infecting fish, have also greatly benefited from NGS technologies, which provide a huge amount of molecular information at a low cost in a relatively short period of time. Here, we review the use of the current high-throughput sequencing platforms with a special focus on the associated challenges (regarding sample preparation and bioinformatics) in their applications to the field of aquatic virology, especially for: (i) discovering novel viruses that may be associated with fish mortalities, (ii) elucidating the mechanisms of pathogenesis, and finally (iii) studying the molecular epidemiology of these pathogens.</description><identifier>ISSN: 0300-5526</identifier><identifier>EISSN: 1423-0100</identifier><identifier>DOI: 10.1159/000477808</identifier><identifier>PMID: 28668959</identifier><language>eng</language><publisher>Basel, Switzerland: Karger</publisher><subject>Life Sciences ; Microbiology and Parasitology ; Quantitative Methods ; Review ; Virology</subject><ispartof>Intervirology, 2016-01, Vol.59 (5-6), p.285-300</ispartof><rights>2017 S. Karger AG, Basel</rights><rights>2017 S. Karger AG, Basel.</rights><rights>Attribution - NoDerivatives</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c375t-efaaa143f8a42ef9dda102c3f5335a8332c973dd68972a4f2217a9f40d7bd45b3</citedby><cites>FETCH-LOGICAL-c375t-efaaa143f8a42ef9dda102c3f5335a8332c973dd68972a4f2217a9f40d7bd45b3</cites><orcidid>0000-0001-6899-7052 ; 0000-0002-7039-133X</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>230,314,780,784,885,2429,27924,27925</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/28668959$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink><backlink>$$Uhttps://hal.science/hal-02922791$$DView record in HAL$$Hfree_for_read</backlink></links><search><creatorcontrib>Nkili-Meyong, Andriniaina Andy</creatorcontrib><creatorcontrib>Bigarré, Laurent</creatorcontrib><creatorcontrib>Labouba, Ingrid</creatorcontrib><creatorcontrib>Vallaeys, Tatiana</creatorcontrib><creatorcontrib>Avarre, Jean-Christophe</creatorcontrib><creatorcontrib>Berthet, Nicolas</creatorcontrib><title>Contribution of Next-Generation Sequencing to Aquatic and Fish Virology</title><title>Intervirology</title><addtitle>Intervirology</addtitle><description>The recent technological advances in nucleic acid sequencing, called next-generation sequencing (NGS), have revolutionized the field of genomics and have also influenced viral research. Aquatic viruses, and especially those infecting fish, have also greatly benefited from NGS technologies, which provide a huge amount of molecular information at a low cost in a relatively short period of time. Here, we review the use of the current high-throughput sequencing platforms with a special focus on the associated challenges (regarding sample preparation and bioinformatics) in their applications to the field of aquatic virology, especially for: (i) discovering novel viruses that may be associated with fish mortalities, (ii) elucidating the mechanisms of pathogenesis, and finally (iii) studying the molecular epidemiology of these pathogens.</description><subject>Life Sciences</subject><subject>Microbiology and Parasitology</subject><subject>Quantitative Methods</subject><subject>Review</subject><subject>Virology</subject><issn>0300-5526</issn><issn>1423-0100</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2016</creationdate><recordtype>article</recordtype><recordid>eNpFkM1PwjAYhxujEUQP3o3ZUQ_TftL1SIiACdGDH9em21qojhXazch_bxGc76XJL0-fvO8PgEsE7xBi4h5CSDnPYHYE-ohikkIE4THoQwJhyhge9sBZCB8RI4jAU9DD2XCYCSb6YDp2deNt3jbW1YkzyZP-btKprrVXv9GL3rS6Lmy9SBqXjDZtjItE1WUysWGZvFvvKrfYnoMTo6qgLw7vALxNHl7Hs3T-PH0cj-ZpQThrUm2UUogSkymKtRFlqRDEBTGMEKYyQnAhOCnLuB3HihqMEVfCUFjyvKQsJwNwu_cuVSXX3q6U30qnrJyN5nKXQSww5gJ9ocje7Nm1d_GI0MiVDYWuKlVr1waJBGJxREb_tYV3IXhtOjeCctex7DqO7PVB2-YrXXbkX6kRuNoDn8ovtO-Aw_8fhZd-AA</recordid><startdate>20160101</startdate><enddate>20160101</enddate><creator>Nkili-Meyong, Andriniaina Andy</creator><creator>Bigarré, Laurent</creator><creator>Labouba, Ingrid</creator><creator>Vallaeys, Tatiana</creator><creator>Avarre, Jean-Christophe</creator><creator>Berthet, Nicolas</creator><general>Karger</general><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>7X8</scope><scope>1XC</scope><scope>VOOES</scope><orcidid>https://orcid.org/0000-0001-6899-7052</orcidid><orcidid>https://orcid.org/0000-0002-7039-133X</orcidid></search><sort><creationdate>20160101</creationdate><title>Contribution of Next-Generation Sequencing to Aquatic and Fish Virology</title><author>Nkili-Meyong, Andriniaina Andy ; Bigarré, Laurent ; Labouba, Ingrid ; Vallaeys, Tatiana ; Avarre, Jean-Christophe ; Berthet, Nicolas</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c375t-efaaa143f8a42ef9dda102c3f5335a8332c973dd68972a4f2217a9f40d7bd45b3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2016</creationdate><topic>Life Sciences</topic><topic>Microbiology and Parasitology</topic><topic>Quantitative Methods</topic><topic>Review</topic><topic>Virology</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Nkili-Meyong, Andriniaina Andy</creatorcontrib><creatorcontrib>Bigarré, Laurent</creatorcontrib><creatorcontrib>Labouba, Ingrid</creatorcontrib><creatorcontrib>Vallaeys, Tatiana</creatorcontrib><creatorcontrib>Avarre, Jean-Christophe</creatorcontrib><creatorcontrib>Berthet, Nicolas</creatorcontrib><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><collection>Hyper Article en Ligne (HAL)</collection><collection>Hyper Article en Ligne (HAL) (Open Access)</collection><jtitle>Intervirology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Nkili-Meyong, Andriniaina Andy</au><au>Bigarré, Laurent</au><au>Labouba, Ingrid</au><au>Vallaeys, Tatiana</au><au>Avarre, Jean-Christophe</au><au>Berthet, Nicolas</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Contribution of Next-Generation Sequencing to Aquatic and Fish Virology</atitle><jtitle>Intervirology</jtitle><addtitle>Intervirology</addtitle><date>2016-01-01</date><risdate>2016</risdate><volume>59</volume><issue>5-6</issue><spage>285</spage><epage>300</epage><pages>285-300</pages><issn>0300-5526</issn><eissn>1423-0100</eissn><abstract>The recent technological advances in nucleic acid sequencing, called next-generation sequencing (NGS), have revolutionized the field of genomics and have also influenced viral research. Aquatic viruses, and especially those infecting fish, have also greatly benefited from NGS technologies, which provide a huge amount of molecular information at a low cost in a relatively short period of time. Here, we review the use of the current high-throughput sequencing platforms with a special focus on the associated challenges (regarding sample preparation and bioinformatics) in their applications to the field of aquatic virology, especially for: (i) discovering novel viruses that may be associated with fish mortalities, (ii) elucidating the mechanisms of pathogenesis, and finally (iii) studying the molecular epidemiology of these pathogens.</abstract><cop>Basel, Switzerland</cop><pub>Karger</pub><pmid>28668959</pmid><doi>10.1159/000477808</doi><tpages>16</tpages><orcidid>https://orcid.org/0000-0001-6899-7052</orcidid><orcidid>https://orcid.org/0000-0002-7039-133X</orcidid><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 0300-5526 |
| ispartof | Intervirology, 2016-01, Vol.59 (5-6), p.285-300 |
| issn | 0300-5526 1423-0100 |
| language | eng |
| recordid | cdi_crossref_primary_10_1159_000477808 |
| source | Karger Journals Complete |
| subjects | Life Sciences Microbiology and Parasitology Quantitative Methods Review Virology |
| title | Contribution of Next-Generation Sequencing to Aquatic and Fish Virology |
| url | https://sfx.bib-bvb.de/sfx_tum?ctx_ver=Z39.88-2004&ctx_enc=info:ofi/enc:UTF-8&ctx_tim=2024-12-25T15%3A15%3A43IST&url_ver=Z39.88-2004&url_ctx_fmt=infofi/fmt:kev:mtx:ctx&rfr_id=info:sid/primo.exlibrisgroup.com:primo3-Article-proquest_cross&rft_val_fmt=info:ofi/fmt:kev:mtx:journal&rft.genre=article&rft.atitle=Contribution%20of%20Next-Generation%20Sequencing%20to%20Aquatic%20and%20Fish%20Virology&rft.jtitle=Intervirology&rft.au=Nkili-Meyong,%20Andriniaina%20Andy&rft.date=2016-01-01&rft.volume=59&rft.issue=5-6&rft.spage=285&rft.epage=300&rft.pages=285-300&rft.issn=0300-5526&rft.eissn=1423-0100&rft_id=info:doi/10.1159/000477808&rft_dat=%3Cproquest_cross%3E1915555984%3C/proquest_cross%3E%3Curl%3E%3C/url%3E&disable_directlink=true&sfx.directlink=off&sfx.report_link=0&rft_id=info:oai/&rft_pqid=1915555984&rft_id=info:pmid/28668959&rfr_iscdi=true |