Analysing complete genome sequence of swine hepatitis E virus (HEV), strain CHN-XJ-SW13 isolated from Xinjiang, China: Putative host range, and disease severity determinants in HEV
Hepatitis E is a worldwide public health problem, particular in areas where hygiene conditions are poor. Hepatitis E virus (HEV) has at least four genotypes: genotypes 1 and 2 exclusively infect human; while genotypes 3 and 4, are considered to be a zoonotic agent, infecting both humans and animals....
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| Veröffentlicht in: | Infection, genetics and evolution genetics and evolution, 2011-04, Vol.11 (3), p.618-623 |
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| container_title | Infection, genetics and evolution |
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| creator | Fu, Hongwei Wang, Ling Zhu, Yonghong Geng, Jiabao Li, Lingjun Wang, Xiaojuan Bu, Qiuning Zhuang, Hui |
| description | Hepatitis E is a worldwide public health problem, particular in areas where hygiene conditions are poor. Hepatitis E virus (HEV) has at least four genotypes: genotypes 1 and 2 exclusively infect human; while genotypes 3 and 4, are considered to be a zoonotic agent, infecting both humans and animals. This study was aimed at determining why genotype 3 and 4 HEV strains isolated from swine are able to cross species borders, whereas genotype1 and 2 strains isolated from humans are not. The full length genome of the swine HEV isolate CHN-XJ-SW13 was amplified as overlapping fragments using reverse-transcription-nested polymerase chain reaction (RT-nPCR) and rapid amplification of cDNA ends (RACE). The sequence of CHN-XJ-SW13 was compared with those of 90 HEV strains covering genotype 1–4 retrieved from GenBank. Possible regions of the viral genome, specifying the host range of HEV or associated with the severity of hepatitis E disease, were then screened for with the aid of the ALIGNX sequences alignment software package. The CHN-XJ-SW13 swine HEV isolate was determined to be a novel subtype of genotype 4, whose sequence provided several valuable clues for tracing the sources of human HEV infection. 25 specific nucleotide positions were identified to possibly being involved specifying the host range of HEV or determining the severity of hepatitis E disease. |
| doi_str_mv | 10.1016/j.meegid.2011.01.018 |
| format | Article |
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Hepatitis E virus (HEV) has at least four genotypes: genotypes 1 and 2 exclusively infect human; while genotypes 3 and 4, are considered to be a zoonotic agent, infecting both humans and animals. This study was aimed at determining why genotype 3 and 4 HEV strains isolated from swine are able to cross species borders, whereas genotype1 and 2 strains isolated from humans are not. The full length genome of the swine HEV isolate CHN-XJ-SW13 was amplified as overlapping fragments using reverse-transcription-nested polymerase chain reaction (RT-nPCR) and rapid amplification of cDNA ends (RACE). The sequence of CHN-XJ-SW13 was compared with those of 90 HEV strains covering genotype 1–4 retrieved from GenBank. Possible regions of the viral genome, specifying the host range of HEV or associated with the severity of hepatitis E disease, were then screened for with the aid of the ALIGNX sequences alignment software package. The CHN-XJ-SW13 swine HEV isolate was determined to be a novel subtype of genotype 4, whose sequence provided several valuable clues for tracing the sources of human HEV infection. 25 specific nucleotide positions were identified to possibly being involved specifying the host range of HEV or determining the severity of hepatitis E disease.</description><identifier>ISSN: 1567-1348</identifier><identifier>EISSN: 1567-7257</identifier><identifier>DOI: 10.1016/j.meegid.2011.01.018</identifier><identifier>PMID: 21292034</identifier><language>eng</language><publisher>Kidlington: Elsevier B.V</publisher><subject>3' Untranslated Regions ; 5' Untranslated Regions ; Amino Acid Motifs - genetics ; Amino Acid Sequence ; Amino Acid Substitution ; Amino acid variations ; Animals ; Biological and medical sciences ; China ; complementary DNA ; computer software ; Conserved Sequence ; disease severity ; Epidemiology. Vaccinations ; General aspects ; genome ; Genome, Viral ; Genotype ; hepatitis E ; Hepatitis E - veterinary ; Hepatitis E - virology ; Hepatitis E virus ; Hepatitis E virus - genetics ; Hepatitis E virus - pathogenicity ; host range ; Host Specificity ; Humans ; hygiene ; Infectious diseases ; Medical sciences ; Molecular Sequence Data ; Novel subtype ; nucleotide sequences ; Nucleotide variations ; Open Reading Frames ; Phylogeny ; public health ; rapid amplification of cDNA ends ; Sequence Analysis, DNA ; Swine ; Swine Diseases - virology ; transcription (genetics) ; Zoonoses ; Zoonosis</subject><ispartof>Infection, genetics and evolution, 2011-04, Vol.11 (3), p.618-623</ispartof><rights>2011 Elsevier B.V.</rights><rights>2015 INIST-CNRS</rights><rights>Copyright © 2011 Elsevier B.V. All rights reserved.</rights><lds50>peer_reviewed</lds50><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c415t-ea25b18dc873bf40fb6ab284b5532ffc922026b61f3c4b3e362b22ca1b91b5533</citedby><cites>FETCH-LOGICAL-c415t-ea25b18dc873bf40fb6ab284b5532ffc922026b61f3c4b3e362b22ca1b91b5533</cites></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktohtml>$$Uhttps://dx.doi.org/10.1016/j.meegid.2011.01.018$$EHTML$$P50$$Gelsevier$$H</linktohtml><link.rule.ids>314,776,780,3536,27903,27904,45974</link.rule.ids><backlink>$$Uhttp://pascal-francis.inist.fr/vibad/index.php?action=getRecordDetail&idt=24069244$$DView record in Pascal Francis$$Hfree_for_read</backlink><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/21292034$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Fu, Hongwei</creatorcontrib><creatorcontrib>Wang, Ling</creatorcontrib><creatorcontrib>Zhu, Yonghong</creatorcontrib><creatorcontrib>Geng, Jiabao</creatorcontrib><creatorcontrib>Li, Lingjun</creatorcontrib><creatorcontrib>Wang, Xiaojuan</creatorcontrib><creatorcontrib>Bu, Qiuning</creatorcontrib><creatorcontrib>Zhuang, Hui</creatorcontrib><title>Analysing complete genome sequence of swine hepatitis E virus (HEV), strain CHN-XJ-SW13 isolated from Xinjiang, China: Putative host range, and disease severity determinants in HEV</title><title>Infection, genetics and evolution</title><addtitle>Infect Genet Evol</addtitle><description>Hepatitis E is a worldwide public health problem, particular in areas where hygiene conditions are poor. Hepatitis E virus (HEV) has at least four genotypes: genotypes 1 and 2 exclusively infect human; while genotypes 3 and 4, are considered to be a zoonotic agent, infecting both humans and animals. This study was aimed at determining why genotype 3 and 4 HEV strains isolated from swine are able to cross species borders, whereas genotype1 and 2 strains isolated from humans are not. The full length genome of the swine HEV isolate CHN-XJ-SW13 was amplified as overlapping fragments using reverse-transcription-nested polymerase chain reaction (RT-nPCR) and rapid amplification of cDNA ends (RACE). The sequence of CHN-XJ-SW13 was compared with those of 90 HEV strains covering genotype 1–4 retrieved from GenBank. Possible regions of the viral genome, specifying the host range of HEV or associated with the severity of hepatitis E disease, were then screened for with the aid of the ALIGNX sequences alignment software package. The CHN-XJ-SW13 swine HEV isolate was determined to be a novel subtype of genotype 4, whose sequence provided several valuable clues for tracing the sources of human HEV infection. 25 specific nucleotide positions were identified to possibly being involved specifying the host range of HEV or determining the severity of hepatitis E disease.</description><subject>3' Untranslated Regions</subject><subject>5' Untranslated Regions</subject><subject>Amino Acid Motifs - genetics</subject><subject>Amino Acid Sequence</subject><subject>Amino Acid Substitution</subject><subject>Amino acid variations</subject><subject>Animals</subject><subject>Biological and medical sciences</subject><subject>China</subject><subject>complementary DNA</subject><subject>computer software</subject><subject>Conserved Sequence</subject><subject>disease severity</subject><subject>Epidemiology. Vaccinations</subject><subject>General aspects</subject><subject>genome</subject><subject>Genome, Viral</subject><subject>Genotype</subject><subject>hepatitis E</subject><subject>Hepatitis E - veterinary</subject><subject>Hepatitis E - virology</subject><subject>Hepatitis E virus</subject><subject>Hepatitis E virus - genetics</subject><subject>Hepatitis E virus - pathogenicity</subject><subject>host range</subject><subject>Host Specificity</subject><subject>Humans</subject><subject>hygiene</subject><subject>Infectious diseases</subject><subject>Medical sciences</subject><subject>Molecular Sequence Data</subject><subject>Novel subtype</subject><subject>nucleotide sequences</subject><subject>Nucleotide variations</subject><subject>Open Reading Frames</subject><subject>Phylogeny</subject><subject>public health</subject><subject>rapid amplification of cDNA ends</subject><subject>Sequence Analysis, DNA</subject><subject>Swine</subject><subject>Swine Diseases - virology</subject><subject>transcription (genetics)</subject><subject>Zoonoses</subject><subject>Zoonosis</subject><issn>1567-1348</issn><issn>1567-7257</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2011</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><recordid>eNp9kd-KEzEUxgdR3HX1DURzs6jQqUkm86deCEupVllUWFf3LmQyJ92UmaTmpF36Xj7gZmjVO-FAAvmd8518X5Y9Z3TKKKverqcDwMp2U04Zm9KxmgfZKSurOq95WT883lkhmpPsCeKaUlZT3jzOTjjjM04LcZr9vnCq36N1K6L9sOkhAlmB8wMQhF9bcBqINwTvrANyCxsVbbRIFmRnwxbJ6-Xix5sJwRiUdWS-_JLffM6vfrKCWPS9itARE_xAbqxbW-VWEzK_tU69I9-2MY3apZkeIwnpCSZEuY50FkHhqL6DYOOedGmlMKQmF5EkkaT4NHtkVI_w7HieZdcfFt_ny_zy68dP84vLXAtWxhwUL1vWdLqpi9YIatpKtbwRbVkW3Bg945zyqq2YKbRoCygq3nKuFWtnbGSKs-zVYe4m-OQFRjlY1ND3yoHfomyq5Llo-CyR4kDq4BEDGLkJdlBhLxmVY1xyLQ9xyTEuScdqUtuLo8C2HaD72_QnnwScHwGFWvUmGaUt_uMErWZcjNzLA2eUl2oVEnN9lZRKSqmoKRv_8v5AQDJsZyFI1HaMt7MBdJSdt__f9R7jY77q</recordid><startdate>20110401</startdate><enddate>20110401</enddate><creator>Fu, Hongwei</creator><creator>Wang, Ling</creator><creator>Zhu, Yonghong</creator><creator>Geng, Jiabao</creator><creator>Li, Lingjun</creator><creator>Wang, Xiaojuan</creator><creator>Bu, Qiuning</creator><creator>Zhuang, Hui</creator><general>Elsevier B.V</general><general>Elsevier</general><scope>FBQ</scope><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>7X8</scope></search><sort><creationdate>20110401</creationdate><title>Analysing complete genome sequence of swine hepatitis E virus (HEV), strain CHN-XJ-SW13 isolated from Xinjiang, China: Putative host range, and disease severity determinants in HEV</title><author>Fu, Hongwei ; Wang, Ling ; Zhu, Yonghong ; Geng, Jiabao ; Li, Lingjun ; Wang, Xiaojuan ; Bu, Qiuning ; Zhuang, Hui</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c415t-ea25b18dc873bf40fb6ab284b5532ffc922026b61f3c4b3e362b22ca1b91b5533</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2011</creationdate><topic>3' Untranslated Regions</topic><topic>5' Untranslated Regions</topic><topic>Amino Acid Motifs - genetics</topic><topic>Amino Acid Sequence</topic><topic>Amino Acid Substitution</topic><topic>Amino acid variations</topic><topic>Animals</topic><topic>Biological and medical sciences</topic><topic>China</topic><topic>complementary DNA</topic><topic>computer software</topic><topic>Conserved Sequence</topic><topic>disease severity</topic><topic>Epidemiology. Vaccinations</topic><topic>General aspects</topic><topic>genome</topic><topic>Genome, Viral</topic><topic>Genotype</topic><topic>hepatitis E</topic><topic>Hepatitis E - veterinary</topic><topic>Hepatitis E - virology</topic><topic>Hepatitis E virus</topic><topic>Hepatitis E virus - genetics</topic><topic>Hepatitis E virus - pathogenicity</topic><topic>host range</topic><topic>Host Specificity</topic><topic>Humans</topic><topic>hygiene</topic><topic>Infectious diseases</topic><topic>Medical sciences</topic><topic>Molecular Sequence Data</topic><topic>Novel subtype</topic><topic>nucleotide sequences</topic><topic>Nucleotide variations</topic><topic>Open Reading Frames</topic><topic>Phylogeny</topic><topic>public health</topic><topic>rapid amplification of cDNA ends</topic><topic>Sequence Analysis, DNA</topic><topic>Swine</topic><topic>Swine Diseases - virology</topic><topic>transcription (genetics)</topic><topic>Zoonoses</topic><topic>Zoonosis</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Fu, Hongwei</creatorcontrib><creatorcontrib>Wang, Ling</creatorcontrib><creatorcontrib>Zhu, Yonghong</creatorcontrib><creatorcontrib>Geng, Jiabao</creatorcontrib><creatorcontrib>Li, Lingjun</creatorcontrib><creatorcontrib>Wang, Xiaojuan</creatorcontrib><creatorcontrib>Bu, Qiuning</creatorcontrib><creatorcontrib>Zhuang, Hui</creatorcontrib><collection>AGRIS</collection><collection>Pascal-Francis</collection><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>MEDLINE - Academic</collection><jtitle>Infection, genetics and evolution</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Fu, Hongwei</au><au>Wang, Ling</au><au>Zhu, Yonghong</au><au>Geng, Jiabao</au><au>Li, Lingjun</au><au>Wang, Xiaojuan</au><au>Bu, Qiuning</au><au>Zhuang, Hui</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Analysing complete genome sequence of swine hepatitis E virus (HEV), strain CHN-XJ-SW13 isolated from Xinjiang, China: Putative host range, and disease severity determinants in HEV</atitle><jtitle>Infection, genetics and evolution</jtitle><addtitle>Infect Genet Evol</addtitle><date>2011-04-01</date><risdate>2011</risdate><volume>11</volume><issue>3</issue><spage>618</spage><epage>623</epage><pages>618-623</pages><issn>1567-1348</issn><eissn>1567-7257</eissn><abstract>Hepatitis E is a worldwide public health problem, particular in areas where hygiene conditions are poor. Hepatitis E virus (HEV) has at least four genotypes: genotypes 1 and 2 exclusively infect human; while genotypes 3 and 4, are considered to be a zoonotic agent, infecting both humans and animals. This study was aimed at determining why genotype 3 and 4 HEV strains isolated from swine are able to cross species borders, whereas genotype1 and 2 strains isolated from humans are not. The full length genome of the swine HEV isolate CHN-XJ-SW13 was amplified as overlapping fragments using reverse-transcription-nested polymerase chain reaction (RT-nPCR) and rapid amplification of cDNA ends (RACE). The sequence of CHN-XJ-SW13 was compared with those of 90 HEV strains covering genotype 1–4 retrieved from GenBank. Possible regions of the viral genome, specifying the host range of HEV or associated with the severity of hepatitis E disease, were then screened for with the aid of the ALIGNX sequences alignment software package. The CHN-XJ-SW13 swine HEV isolate was determined to be a novel subtype of genotype 4, whose sequence provided several valuable clues for tracing the sources of human HEV infection. 25 specific nucleotide positions were identified to possibly being involved specifying the host range of HEV or determining the severity of hepatitis E disease.</abstract><cop>Kidlington</cop><pub>Elsevier B.V</pub><pmid>21292034</pmid><doi>10.1016/j.meegid.2011.01.018</doi><tpages>6</tpages></addata></record> |
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| ispartof | Infection, genetics and evolution, 2011-04, Vol.11 (3), p.618-623 |
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| subjects | 3' Untranslated Regions 5' Untranslated Regions Amino Acid Motifs - genetics Amino Acid Sequence Amino Acid Substitution Amino acid variations Animals Biological and medical sciences China complementary DNA computer software Conserved Sequence disease severity Epidemiology. Vaccinations General aspects genome Genome, Viral Genotype hepatitis E Hepatitis E - veterinary Hepatitis E - virology Hepatitis E virus Hepatitis E virus - genetics Hepatitis E virus - pathogenicity host range Host Specificity Humans hygiene Infectious diseases Medical sciences Molecular Sequence Data Novel subtype nucleotide sequences Nucleotide variations Open Reading Frames Phylogeny public health rapid amplification of cDNA ends Sequence Analysis, DNA Swine Swine Diseases - virology transcription (genetics) Zoonoses Zoonosis |
| title | Analysing complete genome sequence of swine hepatitis E virus (HEV), strain CHN-XJ-SW13 isolated from Xinjiang, China: Putative host range, and disease severity determinants in HEV |
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