Whole Genomic Analysis of an Unusual Human G6P[14] Rotavirus Strain Isolated from a Child with Diarrhea in Thailand: Evidence for Bovine-To-Human Interspecies Transmission and Reassortment Events
An unusual rotavirus strain, SKT-27, with the G6P[14] genotypes (RVA/Human-wt/THA/SKT-27/2012/G6P[14]), was identified in a stool specimen from a hospitalized child aged eight months with severe diarrhea. In this study, we sequenced and characterized the complete genome of strain SKT-27. On whole ge...
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| Veröffentlicht in: | PloS one 2015-09, Vol.10 (9), p.e0139381-e0139381 |
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| creator | Tacharoenmuang, Ratana Komoto, Satoshi Guntapong, Ratigorn Ide, Tomihiko Haga, Kei Katayama, Kazuhiko Kato, Takema Ouchi, Yuya Kurahashi, Hiroki Tsuji, Takao Sangkitporn, Somchai Taniguchi, Koki |
| description | An unusual rotavirus strain, SKT-27, with the G6P[14] genotypes (RVA/Human-wt/THA/SKT-27/2012/G6P[14]), was identified in a stool specimen from a hospitalized child aged eight months with severe diarrhea. In this study, we sequenced and characterized the complete genome of strain SKT-27. On whole genomic analysis, strain SKT-27 was found to have a unique genotype constellation: G6-P[14]-I2-R2-C2-M2-A3-N2-T6-E2-H3. The non-G/P genotype constellation of this strain (I2-R2-C2-M2-A3-N2-T6-E2-H3) is commonly shared with rotavirus strains from artiodactyls such as cattle. Phylogenetic analysis indicated that nine of the 11 genes of strain SKT-27 (VP7, VP4, VP6, VP2-3, NSP1, NSP3-5) appeared to be of artiodactyl (likely bovine) origin, while the remaining VP1 and NSP2 genes were assumed to be of human origin. Thus, strain SKT-27 was found to have a bovine rotavirus genetic backbone, and thus is likely to be of bovine origin. Furthermore, strain SKT-27 appeared to be derived through interspecies transmission and reassortment events involving bovine and human rotavirus strains. Of note is that the VP7 gene of strain SKT-27 was located in G6 lineage-5 together with those of bovine rotavirus strains, away from the clusters comprising other G6P[14] strains in G6 lineages-2/6, suggesting the occurrence of independent bovine-to-human interspecies transmission events. To our knowledge, this is the first report on full genome-based characterization of human G6P[14] strains that have emerged in Southeast Asia. Our observations will provide important insights into the origin of G6P[14] strains, and into dynamic interactions between human and bovine rotavirus strains. |
| doi_str_mv | 10.1371/journal.pone.0139381 |
| format | Article |
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In this study, we sequenced and characterized the complete genome of strain SKT-27. On whole genomic analysis, strain SKT-27 was found to have a unique genotype constellation: G6-P[14]-I2-R2-C2-M2-A3-N2-T6-E2-H3. The non-G/P genotype constellation of this strain (I2-R2-C2-M2-A3-N2-T6-E2-H3) is commonly shared with rotavirus strains from artiodactyls such as cattle. Phylogenetic analysis indicated that nine of the 11 genes of strain SKT-27 (VP7, VP4, VP6, VP2-3, NSP1, NSP3-5) appeared to be of artiodactyl (likely bovine) origin, while the remaining VP1 and NSP2 genes were assumed to be of human origin. Thus, strain SKT-27 was found to have a bovine rotavirus genetic backbone, and thus is likely to be of bovine origin. Furthermore, strain SKT-27 appeared to be derived through interspecies transmission and reassortment events involving bovine and human rotavirus strains. Of note is that the VP7 gene of strain SKT-27 was located in G6 lineage-5 together with those of bovine rotavirus strains, away from the clusters comprising other G6P[14] strains in G6 lineages-2/6, suggesting the occurrence of independent bovine-to-human interspecies transmission events. To our knowledge, this is the first report on full genome-based characterization of human G6P[14] strains that have emerged in Southeast Asia. Our observations will provide important insights into the origin of G6P[14] strains, and into dynamic interactions between human and bovine rotavirus strains.</description><identifier>ISSN: 1932-6203</identifier><identifier>EISSN: 1932-6203</identifier><identifier>DOI: 10.1371/journal.pone.0139381</identifier><identifier>PMID: 26421718</identifier><language>eng</language><publisher>United States: Public Library of Science</publisher><subject>Animals ; Artiodactyla ; Bovidae ; Cattle ; Children & youth ; Development and progression ; Diarrhea ; Diarrhea - virology ; Feces - virology ; Genes ; Genome, Viral ; Genomes ; Genomic analysis ; Genotype ; Genotype & phenotype ; Genotypes ; Humans ; Infant ; Infections ; Infectious diseases ; Medicine ; Parasitology ; Phylogeny ; Reassortant Viruses - classification ; Reassortant Viruses - genetics ; Reassortant Viruses - physiology ; Rotavirus ; Rotavirus - classification ; Rotavirus - genetics ; Rotavirus - physiology ; Rotavirus infections ; Rotavirus Infections - genetics ; Rotavirus Infections - transmission ; Rotavirus Infections - virology ; Strains (organisms) ; Thailand ; Virology ; Viruses ; VP7 gene</subject><ispartof>PloS one, 2015-09, Vol.10 (9), p.e0139381-e0139381</ispartof><rights>COPYRIGHT 2015 Public Library of Science</rights><rights>2015 Tacharoenmuang et al. This is an open access article distributed under the terms of the Creative Commons Attribution License: http://creativecommons.org/licenses/by/4.0/ (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2015 Tacharoenmuang et al 2015 Tacharoenmuang et al</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c692t-d389a14ab6539d3ce26c8b0dfc80a896704873918b64a910752f2242054b6dd73</citedby><cites>FETCH-LOGICAL-c692t-d389a14ab6539d3ce26c8b0dfc80a896704873918b64a910752f2242054b6dd73</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589232/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC4589232/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,724,777,781,861,882,2096,2915,23847,27905,27906,53772,53774,79349,79350</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/26421718$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Attoui, Houssam</contributor><creatorcontrib>Tacharoenmuang, Ratana</creatorcontrib><creatorcontrib>Komoto, Satoshi</creatorcontrib><creatorcontrib>Guntapong, Ratigorn</creatorcontrib><creatorcontrib>Ide, Tomihiko</creatorcontrib><creatorcontrib>Haga, Kei</creatorcontrib><creatorcontrib>Katayama, Kazuhiko</creatorcontrib><creatorcontrib>Kato, Takema</creatorcontrib><creatorcontrib>Ouchi, Yuya</creatorcontrib><creatorcontrib>Kurahashi, Hiroki</creatorcontrib><creatorcontrib>Tsuji, Takao</creatorcontrib><creatorcontrib>Sangkitporn, Somchai</creatorcontrib><creatorcontrib>Taniguchi, Koki</creatorcontrib><title>Whole Genomic Analysis of an Unusual Human G6P[14] Rotavirus Strain Isolated from a Child with Diarrhea in Thailand: Evidence for Bovine-To-Human Interspecies Transmission and Reassortment Events</title><title>PloS one</title><addtitle>PLoS One</addtitle><description>An unusual rotavirus strain, SKT-27, with the G6P[14] genotypes (RVA/Human-wt/THA/SKT-27/2012/G6P[14]), was identified in a stool specimen from a hospitalized child aged eight months with severe diarrhea. In this study, we sequenced and characterized the complete genome of strain SKT-27. On whole genomic analysis, strain SKT-27 was found to have a unique genotype constellation: G6-P[14]-I2-R2-C2-M2-A3-N2-T6-E2-H3. The non-G/P genotype constellation of this strain (I2-R2-C2-M2-A3-N2-T6-E2-H3) is commonly shared with rotavirus strains from artiodactyls such as cattle. Phylogenetic analysis indicated that nine of the 11 genes of strain SKT-27 (VP7, VP4, VP6, VP2-3, NSP1, NSP3-5) appeared to be of artiodactyl (likely bovine) origin, while the remaining VP1 and NSP2 genes were assumed to be of human origin. Thus, strain SKT-27 was found to have a bovine rotavirus genetic backbone, and thus is likely to be of bovine origin. Furthermore, strain SKT-27 appeared to be derived through interspecies transmission and reassortment events involving bovine and human rotavirus strains. Of note is that the VP7 gene of strain SKT-27 was located in G6 lineage-5 together with those of bovine rotavirus strains, away from the clusters comprising other G6P[14] strains in G6 lineages-2/6, suggesting the occurrence of independent bovine-to-human interspecies transmission events. To our knowledge, this is the first report on full genome-based characterization of human G6P[14] strains that have emerged in Southeast Asia. Our observations will provide important insights into the origin of G6P[14] strains, and into dynamic interactions between human and bovine rotavirus strains.</description><subject>Animals</subject><subject>Artiodactyla</subject><subject>Bovidae</subject><subject>Cattle</subject><subject>Children & youth</subject><subject>Development and progression</subject><subject>Diarrhea</subject><subject>Diarrhea - virology</subject><subject>Feces - virology</subject><subject>Genes</subject><subject>Genome, Viral</subject><subject>Genomes</subject><subject>Genomic analysis</subject><subject>Genotype</subject><subject>Genotype & phenotype</subject><subject>Genotypes</subject><subject>Humans</subject><subject>Infant</subject><subject>Infections</subject><subject>Infectious diseases</subject><subject>Medicine</subject><subject>Parasitology</subject><subject>Phylogeny</subject><subject>Reassortant Viruses - classification</subject><subject>Reassortant Viruses - genetics</subject><subject>Reassortant Viruses - physiology</subject><subject>Rotavirus</subject><subject>Rotavirus - classification</subject><subject>Rotavirus - genetics</subject><subject>Rotavirus - physiology</subject><subject>Rotavirus infections</subject><subject>Rotavirus Infections - genetics</subject><subject>Rotavirus Infections - transmission</subject><subject>Rotavirus Infections - virology</subject><subject>Strains (organisms)</subject><subject>Thailand</subject><subject>Virology</subject><subject>Viruses</subject><subject>VP7 gene</subject><issn>1932-6203</issn><issn>1932-6203</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2015</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><sourceid>DOA</sourceid><recordid>eNqNk11v0zAUhiMEYmPwDxBYQkJw0eKPxEm4QBpjbJUmDXUdXCBkObHTeErsYjuF_T7-GKdrN7VoFyhSPpznvOf4-D1J8pzgMWE5eXflBm9lN144q8eYsJIV5EGyT0pGR5xi9nDrfS95EsIVxhkrOH-c7FGeUpKTYj_58611nUYn2rre1OgQFK-DCcg1SFp0aYcwyA6dDj18nfAv30n6A01dlEvjh4AuopfGoklwnYxaoca7Hkl01JpOoV8mtuiTkd63WiLAZq00nbTqPTpeGqVtrVHjPProlsbq0cyN1mkmNmofFro2OqCZlzb0JgTjLFSk0FTLEJyPvbYRdOAeniaPGtkF_WzzPEguPx_Pjk5HZ-cnk6PDs1HNSxpHihWlJKmseMZKxWpNeV1UWDV1gWVR8hynRc5KUlQ8lSXBeUYbSlOKs7TiSuXsIHm51l10LohN_4OARpYspXAmQEzWhHLySiy86aW_Fk4acbPg_FxIH03daZFynZUYV7xSMi3rppCK5RWmnHFClC5A68Mm21D1WtWwUy-7HdHdP9a0Yu6WIs2KkjIKAm82At79HHSIAvpY6w6OQLvhpu6ixDkBfxwkr_5B79_dhppL2ICxjYO89UpUHKYMswzstqp7fA8Fl9LgMDBrY2B9J-DtTgAwUf-OczmEICYX0_9nz7_usq-3WPBgF1sw6hDBSmEXTNdg7V0IXjd3TSZYrGbtthtiNWtiM2sQ9mL7gO6CboeL_QV0BSUP</recordid><startdate>20150930</startdate><enddate>20150930</enddate><creator>Tacharoenmuang, Ratana</creator><creator>Komoto, Satoshi</creator><creator>Guntapong, Ratigorn</creator><creator>Ide, Tomihiko</creator><creator>Haga, Kei</creator><creator>Katayama, Kazuhiko</creator><creator>Kato, Takema</creator><creator>Ouchi, Yuya</creator><creator>Kurahashi, Hiroki</creator><creator>Tsuji, Takao</creator><creator>Sangkitporn, Somchai</creator><creator>Taniguchi, Koki</creator><general>Public Library of Science</general><general>Public Library of Science (PLoS)</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>IOV</scope><scope>ISR</scope><scope>3V.</scope><scope>7QG</scope><scope>7QL</scope><scope>7QO</scope><scope>7RV</scope><scope>7SN</scope><scope>7SS</scope><scope>7T5</scope><scope>7TG</scope><scope>7TM</scope><scope>7U9</scope><scope>7X2</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABJCF</scope><scope>ABUWG</scope><scope>AEUYN</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>ATCPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>D1I</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>KB.</scope><scope>KB0</scope><scope>KL.</scope><scope>L6V</scope><scope>LK8</scope><scope>M0K</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>M7S</scope><scope>NAPCQ</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PATMY</scope><scope>PDBOC</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PTHSS</scope><scope>PYCSY</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><scope>DOA</scope></search><sort><creationdate>20150930</creationdate><title>Whole Genomic Analysis of an Unusual Human G6P[14] Rotavirus Strain Isolated from a Child with Diarrhea in Thailand: Evidence for Bovine-To-Human Interspecies Transmission and Reassortment Events</title><author>Tacharoenmuang, Ratana ; Komoto, Satoshi ; Guntapong, Ratigorn ; Ide, Tomihiko ; Haga, Kei ; Katayama, Kazuhiko ; Kato, Takema ; Ouchi, Yuya ; Kurahashi, Hiroki ; Tsuji, Takao ; Sangkitporn, Somchai ; Taniguchi, Koki</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c692t-d389a14ab6539d3ce26c8b0dfc80a896704873918b64a910752f2242054b6dd73</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2015</creationdate><topic>Animals</topic><topic>Artiodactyla</topic><topic>Bovidae</topic><topic>Cattle</topic><topic>Children & youth</topic><topic>Development and progression</topic><topic>Diarrhea</topic><topic>Diarrhea - 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Academic</collection><collection>ProQuest Engineering Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Agricultural Science Database</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Algology Mycology and Protozoology Abstracts (Microbiology C)</collection><collection>Biological Science Database</collection><collection>Engineering Database</collection><collection>Nursing & Allied Health Premium</collection><collection>Advanced Technologies & Aerospace Database</collection><collection>ProQuest Advanced Technologies & Aerospace Collection</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Environmental Science Database</collection><collection>Materials Science Collection</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>Engineering Collection</collection><collection>Environmental Science Collection</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><collection>DOAJ Directory of Open Access Journals</collection><jtitle>PloS one</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Tacharoenmuang, Ratana</au><au>Komoto, Satoshi</au><au>Guntapong, Ratigorn</au><au>Ide, Tomihiko</au><au>Haga, Kei</au><au>Katayama, Kazuhiko</au><au>Kato, Takema</au><au>Ouchi, Yuya</au><au>Kurahashi, Hiroki</au><au>Tsuji, Takao</au><au>Sangkitporn, Somchai</au><au>Taniguchi, Koki</au><au>Attoui, Houssam</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Whole Genomic Analysis of an Unusual Human G6P[14] Rotavirus Strain Isolated from a Child with Diarrhea in Thailand: Evidence for Bovine-To-Human Interspecies Transmission and Reassortment Events</atitle><jtitle>PloS one</jtitle><addtitle>PLoS One</addtitle><date>2015-09-30</date><risdate>2015</risdate><volume>10</volume><issue>9</issue><spage>e0139381</spage><epage>e0139381</epage><pages>e0139381-e0139381</pages><issn>1932-6203</issn><eissn>1932-6203</eissn><abstract>An unusual rotavirus strain, SKT-27, with the G6P[14] genotypes (RVA/Human-wt/THA/SKT-27/2012/G6P[14]), was identified in a stool specimen from a hospitalized child aged eight months with severe diarrhea. In this study, we sequenced and characterized the complete genome of strain SKT-27. On whole genomic analysis, strain SKT-27 was found to have a unique genotype constellation: G6-P[14]-I2-R2-C2-M2-A3-N2-T6-E2-H3. The non-G/P genotype constellation of this strain (I2-R2-C2-M2-A3-N2-T6-E2-H3) is commonly shared with rotavirus strains from artiodactyls such as cattle. Phylogenetic analysis indicated that nine of the 11 genes of strain SKT-27 (VP7, VP4, VP6, VP2-3, NSP1, NSP3-5) appeared to be of artiodactyl (likely bovine) origin, while the remaining VP1 and NSP2 genes were assumed to be of human origin. Thus, strain SKT-27 was found to have a bovine rotavirus genetic backbone, and thus is likely to be of bovine origin. Furthermore, strain SKT-27 appeared to be derived through interspecies transmission and reassortment events involving bovine and human rotavirus strains. Of note is that the VP7 gene of strain SKT-27 was located in G6 lineage-5 together with those of bovine rotavirus strains, away from the clusters comprising other G6P[14] strains in G6 lineages-2/6, suggesting the occurrence of independent bovine-to-human interspecies transmission events. To our knowledge, this is the first report on full genome-based characterization of human G6P[14] strains that have emerged in Southeast Asia. Our observations will provide important insights into the origin of G6P[14] strains, and into dynamic interactions between human and bovine rotavirus strains.</abstract><cop>United States</cop><pub>Public Library of Science</pub><pmid>26421718</pmid><doi>10.1371/journal.pone.0139381</doi><oa>free_for_read</oa></addata></record> |
| fulltext | fulltext |
| identifier | ISSN: 1932-6203 |
| ispartof | PloS one, 2015-09, Vol.10 (9), p.e0139381-e0139381 |
| issn | 1932-6203 1932-6203 |
| language | eng |
| recordid | cdi_plos_journals_1719342371 |
| source | MEDLINE; DOAJ Directory of Open Access Journals; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; Public Library of Science (PLoS); PubMed Central; Free Full-Text Journals in Chemistry |
| subjects | Animals Artiodactyla Bovidae Cattle Children & youth Development and progression Diarrhea Diarrhea - virology Feces - virology Genes Genome, Viral Genomes Genomic analysis Genotype Genotype & phenotype Genotypes Humans Infant Infections Infectious diseases Medicine Parasitology Phylogeny Reassortant Viruses - classification Reassortant Viruses - genetics Reassortant Viruses - physiology Rotavirus Rotavirus - classification Rotavirus - genetics Rotavirus - physiology Rotavirus infections Rotavirus Infections - genetics Rotavirus Infections - transmission Rotavirus Infections - virology Strains (organisms) Thailand Virology Viruses VP7 gene |
| title | Whole Genomic Analysis of an Unusual Human G6P[14] Rotavirus Strain Isolated from a Child with Diarrhea in Thailand: Evidence for Bovine-To-Human Interspecies Transmission and Reassortment Events |
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