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Epidemiological survey and genetic evolution of H9 subtype influenza viruses in Shanghai, China, from 2006 to 2010
The H9N2 influenza virus is endemic in poultry. We report its occurrence in live-poultry markets, fair-trade markets and poultry farms in the Shanghai region between September 2006 and December 2010. An analysis of partial sequences of the HA, NA, PB1, PB2 and NP genes of eleven distinct H9N2 isolat...
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| Published in: | Archives of virology 2012-06, Vol.157 (6), p.1193-1198 |
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| container_issue | 6 |
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| creator | Zhou, Jin-Ping Ge, Fei-Fei Liu, Jian Ju, Hou-Bing Yang, De-Quan Wang, Jian Zhang, Wei-Yi Liu, Pei-Hong |
| description | The H9N2 influenza virus is endemic in poultry. We report its occurrence in live-poultry markets, fair-trade markets and poultry farms in the Shanghai region between September 2006 and December 2010. An analysis of partial sequences of the HA, NA, PB1, PB2 and NP genes of eleven distinct H9N2 isolates revealed that all carried an RSSR motif at the cleavage site of HA, diagnostic of low pathogenicity in chickens. A phylogenetic analysis indicated that these isolates are derived from the lineage represented by Duck/HK/Y280/97, but they have evolved a range of reassortments. Their PB1 and NP sequences resembled those of H5N1 strains, indicating a hybrid origin involving both H9 and H5 strains. The HA and NA sequences present in all eleven isolates resembled those of the Duck/HK/Y280/97-like lineage. Infection by H9N2 is commonplace in Shanghai live-poultry markets, allowing the viruses to have evolved rapidly. |
| doi_str_mv | 10.1007/s00705-012-1266-2 |
| format | article |
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We report its occurrence in live-poultry markets, fair-trade markets and poultry farms in the Shanghai region between September 2006 and December 2010. An analysis of partial sequences of the HA, NA, PB1, PB2 and NP genes of eleven distinct H9N2 isolates revealed that all carried an RSSR motif at the cleavage site of HA, diagnostic of low pathogenicity in chickens. A phylogenetic analysis indicated that these isolates are derived from the lineage represented by Duck/HK/Y280/97, but they have evolved a range of reassortments. Their PB1 and NP sequences resembled those of H5N1 strains, indicating a hybrid origin involving both H9 and H5 strains. The HA and NA sequences present in all eleven isolates resembled those of the Duck/HK/Y280/97-like lineage. Infection by H9N2 is commonplace in Shanghai live-poultry markets, allowing the viruses to have evolved rapidly.</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-012-1266-2</identifier><identifier>PMID: 22407404</identifier><language>eng</language><publisher>Vienna: Springer Vienna</publisher><subject>Animals ; Annotated Sequence Record ; Avian flu ; Biological and medical sciences ; Biomedical and Life Sciences ; Biomedicine ; Birds ; Chickens ; China - epidemiology ; Columbidae ; Ducks ; Epidemics ; Evolution & development ; Fundamental and applied biological sciences. Psychology ; Geese ; Genetic engineering ; Genetics ; Humans ; Infections ; Infectious Diseases ; Influenza A virus - classification ; Influenza A virus - genetics ; Influenza A virus - isolation & purification ; Influenza A Virus, H9N2 Subtype - classification ; Influenza A Virus, H9N2 Subtype - genetics ; Influenza A Virus, H9N2 Subtype - isolation & purification ; Influenza in Birds - epidemiology ; Influenza in Birds - virology ; Influenza virus ; Medical Microbiology ; Microbiology ; Miscellaneous ; Molecular Sequence Data ; Pandemics ; Phylogenetics ; Phylogeny ; Poultry ; Poultry Diseases - epidemiology ; Poultry Diseases - virology ; Software packages ; Viral Proteins - genetics ; Virology ; Viruses</subject><ispartof>Archives of virology, 2012-06, Vol.157 (6), p.1193-1198</ispartof><rights>Springer-Verlag 2012</rights><rights>2015 INIST-CNRS</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c435t-e13332ca38f73d88c0862196d297c8c51e35c1d0b078532cc54b7d995c346afb3</citedby><cites>FETCH-LOGICAL-c435t-e13332ca38f73d88c0862196d297c8c51e35c1d0b078532cc54b7d995c346afb3</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><link.rule.ids>314,780,784,27924,27925</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=25981701$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/22407404$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Zhou, Jin-Ping</creatorcontrib><creatorcontrib>Ge, Fei-Fei</creatorcontrib><creatorcontrib>Liu, Jian</creatorcontrib><creatorcontrib>Ju, Hou-Bing</creatorcontrib><creatorcontrib>Yang, De-Quan</creatorcontrib><creatorcontrib>Wang, Jian</creatorcontrib><creatorcontrib>Zhang, Wei-Yi</creatorcontrib><creatorcontrib>Liu, Pei-Hong</creatorcontrib><title>Epidemiological survey and genetic evolution of H9 subtype influenza viruses in Shanghai, China, from 2006 to 2010</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><addtitle>Arch Virol</addtitle><description>The H9N2 influenza virus is endemic in poultry. We report its occurrence in live-poultry markets, fair-trade markets and poultry farms in the Shanghai region between September 2006 and December 2010. An analysis of partial sequences of the HA, NA, PB1, PB2 and NP genes of eleven distinct H9N2 isolates revealed that all carried an RSSR motif at the cleavage site of HA, diagnostic of low pathogenicity in chickens. A phylogenetic analysis indicated that these isolates are derived from the lineage represented by Duck/HK/Y280/97, but they have evolved a range of reassortments. Their PB1 and NP sequences resembled those of H5N1 strains, indicating a hybrid origin involving both H9 and H5 strains. The HA and NA sequences present in all eleven isolates resembled those of the Duck/HK/Y280/97-like lineage. Infection by H9N2 is commonplace in Shanghai live-poultry markets, allowing the viruses to have evolved rapidly.</description><subject>Animals</subject><subject>Annotated Sequence Record</subject><subject>Avian flu</subject><subject>Biological and medical sciences</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Birds</subject><subject>Chickens</subject><subject>China - epidemiology</subject><subject>Columbidae</subject><subject>Ducks</subject><subject>Epidemics</subject><subject>Evolution & development</subject><subject>Fundamental and applied biological sciences. Psychology</subject><subject>Geese</subject><subject>Genetic engineering</subject><subject>Genetics</subject><subject>Humans</subject><subject>Infections</subject><subject>Infectious Diseases</subject><subject>Influenza A virus - classification</subject><subject>Influenza A virus - genetics</subject><subject>Influenza A virus - isolation & purification</subject><subject>Influenza A Virus, H9N2 Subtype - classification</subject><subject>Influenza A Virus, H9N2 Subtype - genetics</subject><subject>Influenza A Virus, H9N2 Subtype - isolation & purification</subject><subject>Influenza in Birds - epidemiology</subject><subject>Influenza in Birds - virology</subject><subject>Influenza virus</subject><subject>Medical Microbiology</subject><subject>Microbiology</subject><subject>Miscellaneous</subject><subject>Molecular Sequence Data</subject><subject>Pandemics</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Poultry</subject><subject>Poultry Diseases - epidemiology</subject><subject>Poultry Diseases - virology</subject><subject>Software packages</subject><subject>Viral Proteins - genetics</subject><subject>Virology</subject><subject>Viruses</subject><issn>0304-8608</issn><issn>1432-8798</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2012</creationdate><recordtype>article</recordtype><recordid>eNqN0c9rFDEUB_BQlHZb-wf0IgERPHTqy-_MUZbaCgUP1vOQyWR2U2aSNZlZWP96s-yqpSB4yYOXT14SvghdEbghAOpjLguICgitCJWyoidoQTijlVa1foUWwIBXWoI-Q-c5PwGUBhOn6IxSDooDX6B0u_GdG30c4spbM-A8p63bYRM6vHLBTd5it43DPPkYcOzxfV1IO-02DvvQD7MLPw3e-jRnl0sHf1ubsFobf42Xax_MNe5THDEFkHiKpRJ4g173Zsju8lgv0PfPt4_L--rh692X5aeHynImpsoRxhi1hulesU5rC1pSUsuO1spqK4hjwpIOWlBaFGgFb1VX18IyLk3fsgv04TB3k-KP2eWpGX22bhhMcHHODQEKmnNB6v-gRDOpCaGFvntBn-KcQvnIXinFhWSyKHJQNsWck-ubTfKjSbuCmn12zSG7pmTX7LNr9pPfHifP7ei6Pyd-h1XA-yMwuUTVJxOsz3-dqDVRQIqjB5fLVli59PyJ_7r9F48lrZk</recordid><startdate>20120601</startdate><enddate>20120601</enddate><creator>Zhou, Jin-Ping</creator><creator>Ge, Fei-Fei</creator><creator>Liu, Jian</creator><creator>Ju, Hou-Bing</creator><creator>Yang, De-Quan</creator><creator>Wang, Jian</creator><creator>Zhang, Wei-Yi</creator><creator>Liu, Pei-Hong</creator><general>Springer Vienna</general><general>Springer</general><general>Springer Nature B.V</general><scope>IQODW</scope><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>3V.</scope><scope>7TK</scope><scope>7TM</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88A</scope><scope>88E</scope><scope>8AO</scope><scope>8C1</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</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>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7P</scope><scope>P64</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope></search><sort><creationdate>20120601</creationdate><title>Epidemiological survey and genetic evolution of H9 subtype influenza viruses in Shanghai, China, from 2006 to 2010</title><author>Zhou, Jin-Ping ; Ge, Fei-Fei ; Liu, Jian ; Ju, Hou-Bing ; Yang, De-Quan ; Wang, Jian ; Zhang, Wei-Yi ; Liu, Pei-Hong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c435t-e13332ca38f73d88c0862196d297c8c51e35c1d0b078532cc54b7d995c346afb3</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2012</creationdate><topic>Animals</topic><topic>Annotated Sequence Record</topic><topic>Avian flu</topic><topic>Biological and medical sciences</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Birds</topic><topic>Chickens</topic><topic>China - epidemiology</topic><topic>Columbidae</topic><topic>Ducks</topic><topic>Epidemics</topic><topic>Evolution & development</topic><topic>Fundamental and applied biological sciences. 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We report its occurrence in live-poultry markets, fair-trade markets and poultry farms in the Shanghai region between September 2006 and December 2010. An analysis of partial sequences of the HA, NA, PB1, PB2 and NP genes of eleven distinct H9N2 isolates revealed that all carried an RSSR motif at the cleavage site of HA, diagnostic of low pathogenicity in chickens. A phylogenetic analysis indicated that these isolates are derived from the lineage represented by Duck/HK/Y280/97, but they have evolved a range of reassortments. Their PB1 and NP sequences resembled those of H5N1 strains, indicating a hybrid origin involving both H9 and H5 strains. The HA and NA sequences present in all eleven isolates resembled those of the Duck/HK/Y280/97-like lineage. Infection by H9N2 is commonplace in Shanghai live-poultry markets, allowing the viruses to have evolved rapidly.</abstract><cop>Vienna</cop><pub>Springer Vienna</pub><pmid>22407404</pmid><doi>10.1007/s00705-012-1266-2</doi><tpages>6</tpages></addata></record> |
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| subjects | Animals Annotated Sequence Record Avian flu Biological and medical sciences Biomedical and Life Sciences Biomedicine Birds Chickens China - epidemiology Columbidae Ducks Epidemics Evolution & development Fundamental and applied biological sciences. Psychology Geese Genetic engineering Genetics Humans Infections Infectious Diseases Influenza A virus - classification Influenza A virus - genetics Influenza A virus - isolation & purification Influenza A Virus, H9N2 Subtype - classification Influenza A Virus, H9N2 Subtype - genetics Influenza A Virus, H9N2 Subtype - isolation & purification Influenza in Birds - epidemiology Influenza in Birds - virology Influenza virus Medical Microbiology Microbiology Miscellaneous Molecular Sequence Data Pandemics Phylogenetics Phylogeny Poultry Poultry Diseases - epidemiology Poultry Diseases - virology Software packages Viral Proteins - genetics Virology Viruses |
| title | Epidemiological survey and genetic evolution of H9 subtype influenza viruses in Shanghai, China, from 2006 to 2010 |
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