Detection and genetic characterization of canine kobuvirus from stray dogs in Shanghai, China
In this study, rectal samples collected from 60 stray dogs in dog shelters were screened for canine kobuvirus and other enteroviruses by quantitative real-time reverse transcription polymerase chain reaction. Canine kobuvirus was detected in 25% (15/60) of the samples. In the 15 positive samples, th...
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| Veröffentlicht in: | Archives of virology 2023-04, Vol.168 (4), p.112-112, Article 112 |
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| creator | Deng, Bo Song, Yuying Li, Liang Zhou, Yumen Zhu, Chunyan Zhang, Weiyi Feng, Dongsheng |
| description | In this study, rectal samples collected from 60 stray dogs in dog shelters were screened for canine kobuvirus and other enteroviruses by quantitative real-time reverse transcription polymerase chain reaction. Canine kobuvirus was detected in 25% (15/60) of the samples. In the 15 positive samples, the coinfection rates of canine distemper virus, canine coronavirus, canine astrovirus, canine norovirus, and canine rotavirus were 26.67%, 20.00%, 73.33%, 0%, and 20.00%, respectively. Phylogenetic analysis based on partial VP1 sequences identified a novel canine kobuvirus that was a recombinant of canine and feline kobuvirus. Bayesian evolutionary analysis revealed that the rate of evolution of the VP1 gene of canine kobuvirus was 1.36 × 10
−4
substitutions per site per year (95% highest posterior density interval, 6.28 × 10
−7
− 4.30 × 10
−4
substitutions per site per year). Finally, the divergence time of VP1 was around 19.44 years ago (95% highest posterior density interval, 12.96–27.57 years). |
| doi_str_mv | 10.1007/s00705-023-05710-z |
| format | Article |
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−4
substitutions per site per year (95% highest posterior density interval, 6.28 × 10
−7
− 4.30 × 10
−4
substitutions per site per year). Finally, the divergence time of VP1 was around 19.44 years ago (95% highest posterior density interval, 12.96–27.57 years).</description><identifier>ISSN: 0304-8608</identifier><identifier>EISSN: 1432-8798</identifier><identifier>DOI: 10.1007/s00705-023-05710-z</identifier><identifier>PMID: 36918497</identifier><language>eng</language><publisher>Vienna: Springer Vienna</publisher><subject>Animals ; Bayes Theorem ; Bayesian analysis ; Biomedical and Life Sciences ; Biomedicine ; Brief Report ; Canine distemper ; Cat Diseases ; Cats ; China - epidemiology ; Coronaviruses ; Divergence ; Dog Diseases ; Dogs ; Enzymes ; Feces ; Gastroenteritis ; Genes ; Infectious Diseases ; Kobuvirus - genetics ; Medical Microbiology ; Phylogeny ; Picornaviridae Infections ; Proteins ; Reverse transcription ; Rotavirus ; Virology ; Viruses ; VP1 protein</subject><ispartof>Archives of virology, 2023-04, Vol.168 (4), p.112-112, Article 112</ispartof><rights>The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature 2023</rights><rights>2023. The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature.</rights><rights>The Author(s), under exclusive licence to Springer-Verlag GmbH Austria, part of Springer Nature 2023.</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c475t-c29d3422db5f3edc6527b134102b10c0dd2e50fd8f00020fd2776ffc723a84633</citedby><cites>FETCH-LOGICAL-c475t-c29d3422db5f3edc6527b134102b10c0dd2e50fd8f00020fd2776ffc723a84633</cites><orcidid>0000-0002-5906-6747</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/s00705-023-05710-z$$EPDF$$P50$$Gspringer$$H</linktopdf><linktohtml>$$Uhttps://link.springer.com/10.1007/s00705-023-05710-z$$EHTML$$P50$$Gspringer$$H</linktohtml><link.rule.ids>230,314,777,781,882,27906,27907,41470,42539,51301</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/36918497$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Deng, Bo</creatorcontrib><creatorcontrib>Song, Yuying</creatorcontrib><creatorcontrib>Li, Liang</creatorcontrib><creatorcontrib>Zhou, Yumen</creatorcontrib><creatorcontrib>Zhu, Chunyan</creatorcontrib><creatorcontrib>Zhang, Weiyi</creatorcontrib><creatorcontrib>Feng, Dongsheng</creatorcontrib><title>Detection and genetic characterization of canine kobuvirus from stray dogs in Shanghai, China</title><title>Archives of virology</title><addtitle>Arch Virol</addtitle><addtitle>Arch Virol</addtitle><description>In this study, rectal samples collected from 60 stray dogs in dog shelters were screened for canine kobuvirus and other enteroviruses by quantitative real-time reverse transcription polymerase chain reaction. Canine kobuvirus was detected in 25% (15/60) of the samples. In the 15 positive samples, the coinfection rates of canine distemper virus, canine coronavirus, canine astrovirus, canine norovirus, and canine rotavirus were 26.67%, 20.00%, 73.33%, 0%, and 20.00%, respectively. Phylogenetic analysis based on partial VP1 sequences identified a novel canine kobuvirus that was a recombinant of canine and feline kobuvirus. Bayesian evolutionary analysis revealed that the rate of evolution of the VP1 gene of canine kobuvirus was 1.36 × 10
−4
substitutions per site per year (95% highest posterior density interval, 6.28 × 10
−7
− 4.30 × 10
−4
substitutions per site per year). Finally, the divergence time of VP1 was around 19.44 years ago (95% highest posterior density interval, 12.96–27.57 years).</description><subject>Animals</subject><subject>Bayes Theorem</subject><subject>Bayesian analysis</subject><subject>Biomedical and Life Sciences</subject><subject>Biomedicine</subject><subject>Brief Report</subject><subject>Canine distemper</subject><subject>Cat Diseases</subject><subject>Cats</subject><subject>China - epidemiology</subject><subject>Coronaviruses</subject><subject>Divergence</subject><subject>Dog Diseases</subject><subject>Dogs</subject><subject>Enzymes</subject><subject>Feces</subject><subject>Gastroenteritis</subject><subject>Genes</subject><subject>Infectious Diseases</subject><subject>Kobuvirus - genetics</subject><subject>Medical Microbiology</subject><subject>Phylogeny</subject><subject>Picornaviridae Infections</subject><subject>Proteins</subject><subject>Reverse transcription</subject><subject>Rotavirus</subject><subject>Virology</subject><subject>Viruses</subject><subject>VP1 protein</subject><issn>0304-8608</issn><issn>1432-8798</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</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><recordid>eNp9kU1v1DAQhi0EokvhD3BAlrhwIHT8kdg5VWhboFKlHkqPleU4duKya7d2Uqn76-vtlkI5cLGtmWfemfGL0HsCXwiAOMjlgLoCyiqoBYFq8wItCGe0kqKVL9ECGPBKNiD30JucrwBKgNWv0R5rWiJ5Kxbo8shO1kw-BqxDjwcb7OQNNqNO2kw2-Y1-SEaHjQ4-WPwrdvOtT3PGLsU1zlPSd7iPQ8Y-4PNRh2HU_jNejj7ot-iV06ts3z3e--ji2_HP5Y_q9Oz7yfLraWW4qKfK0LZnnNK-qx2zvWlqKjrCOAHaETDQ99TW4Hrpygq0PKgQjXNGUKYlbxjbR4c73eu5WxcBG8pUK3Wd_FqnOxW1V88zwY9qiLeq_CNhrdwqfHpUSPFmtnlSa5-NXa10sHHOigopKOFUioJ-_Ae9inMKZb8t1TSNEC0vFN1RJsWck3VP0xDYthVqZ58q9qkH-9SmFH34e4-nkt9-FYDtgFxSYbDpT-__yN4D2POm9A</recordid><startdate>20230401</startdate><enddate>20230401</enddate><creator>Deng, Bo</creator><creator>Song, Yuying</creator><creator>Li, Liang</creator><creator>Zhou, Yumen</creator><creator>Zhu, Chunyan</creator><creator>Zhang, Weiyi</creator><creator>Feng, Dongsheng</creator><general>Springer Vienna</general><general>Springer Nature B.V</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>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><scope>5PM</scope><orcidid>https://orcid.org/0000-0002-5906-6747</orcidid></search><sort><creationdate>20230401</creationdate><title>Detection and genetic characterization of canine kobuvirus from stray dogs in Shanghai, China</title><author>Deng, Bo ; Song, Yuying ; Li, Liang ; Zhou, Yumen ; Zhu, Chunyan ; Zhang, Weiyi ; Feng, Dongsheng</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c475t-c29d3422db5f3edc6527b134102b10c0dd2e50fd8f00020fd2776ffc723a84633</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Animals</topic><topic>Bayes Theorem</topic><topic>Bayesian analysis</topic><topic>Biomedical and Life Sciences</topic><topic>Biomedicine</topic><topic>Brief Report</topic><topic>Canine distemper</topic><topic>Cat Diseases</topic><topic>Cats</topic><topic>China - epidemiology</topic><topic>Coronaviruses</topic><topic>Divergence</topic><topic>Dog Diseases</topic><topic>Dogs</topic><topic>Enzymes</topic><topic>Feces</topic><topic>Gastroenteritis</topic><topic>Genes</topic><topic>Infectious Diseases</topic><topic>Kobuvirus - genetics</topic><topic>Medical Microbiology</topic><topic>Phylogeny</topic><topic>Picornaviridae Infections</topic><topic>Proteins</topic><topic>Reverse transcription</topic><topic>Rotavirus</topic><topic>Virology</topic><topic>Viruses</topic><topic>VP1 protein</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Deng, Bo</creatorcontrib><creatorcontrib>Song, Yuying</creatorcontrib><creatorcontrib>Li, Liang</creatorcontrib><creatorcontrib>Zhou, Yumen</creatorcontrib><creatorcontrib>Zhu, Chunyan</creatorcontrib><creatorcontrib>Zhang, Weiyi</creatorcontrib><creatorcontrib>Feng, Dongsheng</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>ProQuest Central (Corporate)</collection><collection>Neurosciences Abstracts</collection><collection>Nucleic Acids Abstracts</collection><collection>Virology and AIDS Abstracts</collection><collection>Health & Medical Collection</collection><collection>ProQuest Central (purchase pre-March 2016)</collection><collection>Biology Database (Alumni Edition)</collection><collection>Medical Database (Alumni Edition)</collection><collection>ProQuest Pharma Collection</collection><collection>Public Health Database</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>Hospital Premium Collection</collection><collection>Hospital Premium Collection (Alumni Edition)</collection><collection>ProQuest Central (Alumni) (purchase pre-March 2016)</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>Health Research Premium Collection</collection><collection>Health Research Premium Collection (Alumni)</collection><collection>ProQuest Central Student</collection><collection>AIDS and Cancer Research Abstracts</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Health & Medical Complete (Alumni)</collection><collection>ProQuest Biological Science Collection</collection><collection>Health & Medical Collection (Alumni Edition)</collection><collection>Medical Database</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Archives of virology</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Deng, Bo</au><au>Song, Yuying</au><au>Li, Liang</au><au>Zhou, Yumen</au><au>Zhu, Chunyan</au><au>Zhang, Weiyi</au><au>Feng, Dongsheng</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Detection and genetic characterization of canine kobuvirus from stray dogs in Shanghai, China</atitle><jtitle>Archives of virology</jtitle><stitle>Arch Virol</stitle><addtitle>Arch Virol</addtitle><date>2023-04-01</date><risdate>2023</risdate><volume>168</volume><issue>4</issue><spage>112</spage><epage>112</epage><pages>112-112</pages><artnum>112</artnum><issn>0304-8608</issn><eissn>1432-8798</eissn><abstract>In this study, rectal samples collected from 60 stray dogs in dog shelters were screened for canine kobuvirus and other enteroviruses by quantitative real-time reverse transcription polymerase chain reaction. Canine kobuvirus was detected in 25% (15/60) of the samples. In the 15 positive samples, the coinfection rates of canine distemper virus, canine coronavirus, canine astrovirus, canine norovirus, and canine rotavirus were 26.67%, 20.00%, 73.33%, 0%, and 20.00%, respectively. Phylogenetic analysis based on partial VP1 sequences identified a novel canine kobuvirus that was a recombinant of canine and feline kobuvirus. Bayesian evolutionary analysis revealed that the rate of evolution of the VP1 gene of canine kobuvirus was 1.36 × 10
−4
substitutions per site per year (95% highest posterior density interval, 6.28 × 10
−7
− 4.30 × 10
−4
substitutions per site per year). Finally, the divergence time of VP1 was around 19.44 years ago (95% highest posterior density interval, 12.96–27.57 years).</abstract><cop>Vienna</cop><pub>Springer Vienna</pub><pmid>36918497</pmid><doi>10.1007/s00705-023-05710-z</doi><tpages>1</tpages><orcidid>https://orcid.org/0000-0002-5906-6747</orcidid><oa>free_for_read</oa></addata></record> |
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| ispartof | Archives of virology, 2023-04, Vol.168 (4), p.112-112, Article 112 |
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| source | MEDLINE; SpringerLink Journals - AutoHoldings |
| subjects | Animals Bayes Theorem Bayesian analysis Biomedical and Life Sciences Biomedicine Brief Report Canine distemper Cat Diseases Cats China - epidemiology Coronaviruses Divergence Dog Diseases Dogs Enzymes Feces Gastroenteritis Genes Infectious Diseases Kobuvirus - genetics Medical Microbiology Phylogeny Picornaviridae Infections Proteins Reverse transcription Rotavirus Virology Viruses VP1 protein |
| title | Detection and genetic characterization of canine kobuvirus from stray dogs in Shanghai, China |
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