Sequence analysis of the spike gene of Porcine epidemic diarrhea virus isolated from South China during 2011–2015
Identifieur interne : 000566 ( Ncbi/Merge ); précédent : 000565; suivant : 000567Sequence analysis of the spike gene of Porcine epidemic diarrhea virus isolated from South China during 2011–2015
Auteurs : Xiaoya Zhao [République populaire de Chine] ; Zhili Li [République populaire de Chine] ; Xiduo Zeng [République populaire de Chine] ; Guanqun Zhang [République populaire de Chine] ; Jianqiang Niu [République populaire de Chine] ; Baoli Sun [République populaire de Chine] ; Jingyun Ma [République populaire de Chine]Source :
- Journal of Veterinary Science [ 1229-845X ] ; 2017.
Abstract
The spike gene of porcine epidemic diarrhea virus (PEDV) was sequenced from 55 South China field strains isolated from pigs with symptoms of diarrhea. The sequences were compared within the set of field strains as well as with reference strains available in GenBank. Within the 55 South China PEDV field strains, the deduced amino acid sequence identities ranged from 93.8% to 99.9 % and ranged from 90.7% to 99.5% when compared with the foreign reference strains in GenBank. Our phylogenetic analysis showed that 10 of the 55 South China PEDV strains belonged to G1b and 45 belonged to G2b.
Url:
DOI: 10.4142/jvs.2017.18.2.237
PubMed: 27515262
PubMed Central: 5489471
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first="Baoli" last="Sun">Baoli Sun</name><affiliation wicri:level="1"><nlm:aff id="A1">College of Animal Science, South China Agricultural University, Guangzhou 510642, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>College of Animal Science, South China Agricultural University, Guangzhou 510642</wicri:regionArea><placeName><settlement type="city">Jiangmen</settlement><region type="province">Guangdong</region></placeName></affiliation></author><author><name sortKey="Ma, Jingyun" sort="Ma, Jingyun" uniqKey="Ma J" first="Jingyun" last="Ma">Jingyun Ma</name><affiliation wicri:level="1"><nlm:aff id="A1">College of Animal Science, South China Agricultural University, Guangzhou 510642, China.</nlm:aff><country xml:lang="fr" wicri:curation="lc">République populaire de Chine</country><wicri:regionArea>College of Animal Science, South China Agricultural University, Guangzhou 510642</wicri:regionArea><placeName><settlement type="city">Jiangmen</settlement><region type="province">Guangdong</region></placeName></affiliation></author></analytic><series><title level="j">Journal of Veterinary Science</title><idno type="ISSN">1229-845X</idno><idno type="eISSN">1976-555X</idno><imprint><date when="2017">2017</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>The spike gene of porcine epidemic diarrhea virus (PEDV) was sequenced from 55 South China field strains isolated from pigs with symptoms of diarrhea. The sequences were compared within the set of field strains as well as with reference strains available in GenBank. Within the 55 South China PEDV field strains, the deduced amino acid sequence identities ranged from 93.8% to 99.9 % and ranged from 90.7% to 99.5% when compared with the foreign reference strains in GenBank. Our phylogenetic analysis showed that 10 of the 55 South China PEDV strains belonged to G1b and 45 belonged to G2b.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Chang, Sh" uniqKey="Chang S">SH Chang</name></author><author><name sortKey="Bae, Jl" uniqKey="Bae J">JL Bae</name></author><author><name sortKey="Kang, Tj" uniqKey="Kang T">TJ Kang</name></author><author><name sortKey="Kim, J" uniqKey="Kim J">J Kim</name></author><author><name sortKey="Chung, Gh" uniqKey="Chung G">GH Chung</name></author><author><name sortKey="Lim, Cw" uniqKey="Lim C">CW Lim</name></author><author><name sortKey="Laude, H" uniqKey="Laude H">H Laude</name></author><author><name sortKey="Yang, Ms" uniqKey="Yang M">MS Yang</name></author><author><name sortKey="Jang, Ys" uniqKey="Jang Y">YS Jang</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Chen, F" uniqKey="Chen F">F Chen</name></author><author><name sortKey="Pan, Y" 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<front><journal-meta><journal-id journal-id-type="nlm-ta">J Vet Sci</journal-id><journal-id journal-id-type="iso-abbrev">J. Vet. Sci</journal-id><journal-id journal-id-type="publisher-id">JVS</journal-id><journal-title-group><journal-title>Journal of Veterinary Science</journal-title></journal-title-group><issn pub-type="ppub">1229-845X</issn><issn pub-type="epub">1976-555X</issn><publisher><publisher-name>The Korean Society of Veterinary Science</publisher-name></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">27515262</article-id><article-id pub-id-type="pmc">5489471</article-id><article-id pub-id-type="doi">10.4142/jvs.2017.18.2.237</article-id><article-categories><subj-group subj-group-type="heading"><subject>Original Article</subject></subj-group></article-categories><title-group><article-title>Sequence analysis of the spike gene of <italic>Porcine epidemic diarrhea virus</italic> isolated from South China during 2011–2015</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Zhao</surname><given-names>Xiaoya</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author"><name><surname>Li</surname><given-names>Zhili</given-names></name><xref ref-type="aff" rid="A2">2</xref></contrib><contrib contrib-type="author"><name><surname>Zeng</surname><given-names>Xiduo</given-names></name><xref ref-type="aff" rid="A3">3</xref></contrib><contrib contrib-type="author"><name><surname>Zhang</surname><given-names>Guanqun</given-names></name><xref ref-type="aff" rid="A2">2</xref><xref ref-type="aff" rid="A3">3</xref><xref ref-type="author-notes" rid="FN1">†</xref></contrib><contrib contrib-type="author"><name><surname>Niu</surname><given-names>Jianqiang</given-names></name><xref ref-type="aff" rid="A2">2</xref><xref ref-type="aff" rid="A3">3</xref><xref ref-type="author-notes" rid="FN1">†</xref></contrib><contrib contrib-type="author"><name><surname>Sun</surname><given-names>Baoli</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib><contrib contrib-type="author" corresp="yes"><name><surname>Ma</surname><given-names>Jingyun</given-names></name><xref ref-type="aff" rid="A1">1</xref></contrib></contrib-group><aff id="A1"><label>1</label>College of Animal Science, South China Agricultural University, Guangzhou 510642, China.</aff><aff id="A2"><label>2</label>Henan University of Science and Technology, Luoyang 471900, China.</aff><aff id="A3"><label>3</label>Guangdong Wen's Food Co., Ltd., Xinxing 527400, China.</aff><author-notes><corresp>Corresponding author: Tel: +86-20-8528-0283; Fax: +86-20-8528-0283; <email>majy2400@scau.edu.cn</email></corresp><fn id="FN1" fn-type="present-address"><p><sup>†</sup>Present address: Guangdong Wen's Food Co., Ltd., Xinxing 527400, China.</p></fn></author-notes><pub-date pub-type="ppub"><month>6</month><year>2017</year></pub-date><pub-date pub-type="epub"><day>22</day><month>6</month><year>2017</year></pub-date><volume>18</volume><issue>2</issue><fpage>237</fpage><lpage>243</lpage><history><date date-type="received"><day>28</day><month>12</month><year>2015</year></date><date date-type="rev-recd"><day>25</day><month>6</month><year>2016</year></date><date date-type="accepted"><day>21</day><month>7</month><year>2016</year></date></history><permissions><copyright-statement>© 2017 The Korean Society of Veterinary Science</copyright-statement><copyright-year>2017</copyright-year><license license-type="open-access" xlink:href="http://creativecommons.org/licenses/by-nc/4.0"><license-p>This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (<ext-link ext-link-type="uri" xlink:href="http://creativecommons.org/licenses/by-nc/4.0">http://creativecommons.org/licenses/by-nc/4.0</ext-link>) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.</license-p></license></permissions><abstract><p>The spike gene of porcine epidemic diarrhea virus (PEDV) was sequenced from 55 South China field strains isolated from pigs with symptoms of diarrhea. The sequences were compared within the set of field strains as well as with reference strains available in GenBank. Within the 55 South China PEDV field strains, the deduced amino acid sequence identities ranged from 93.8% to 99.9 % and ranged from 90.7% to 99.5% when compared with the foreign reference strains in GenBank. Our phylogenetic analysis showed that 10 of the 55 South China PEDV strains belonged to G1b and 45 belonged to G2b.</p></abstract><kwd-group><kwd><italic>Porcine epidemic diarrhea virus</italic></kwd><kwd>molecular characterization</kwd><kwd>phylogenetic analysis</kwd></kwd-group><funding-group><award-group><funding-source><institution-wrap><institution>Science and Technology Department, Guangdong Province</institution><institution-id institution-id-type="CrossRef">http://dx.doi.org/10.13039/501100007162</institution-id></institution-wrap></funding-source><award-id>2011B090400414</award-id></award-group></funding-group></article-meta></front><floats-group><fig id="F1" orientation="portrait" position="float"><label>Fig. 1</label><caption><title>Alignment of the deduced amino acid sequences of partial spike (S) protein of Guangdong isolates with that of vaccine strains. The dots represent amino acids that are identical to those in the CV777 strain. Boxes indicate the neutralizing epitopes (SS2, 748–755; SS6, 764–771; and 2C10, 1368–1374).</title></caption><graphic xlink:href="jvs-18-237-g001"></graphic></fig><fig id="F2" orientation="portrait" position="float"><label>Fig. 2</label><caption><title>Phylogenetic analysis of porcine epidemic diarrhea virus (PEDV) strains based on nucleotide sequences of the complete spike glycoprotein S gene. The tree was constructed using the neighbor-joining method in MEGA 5.05 software, using 1,000 bootstrap replicates. Bootstrap values > 75% are shown at the branch points.</title></caption><graphic xlink:href="jvs-18-237-g002"></graphic></fig><table-wrap id="T1" orientation="portrait" position="float"><label>Table 1</label><caption><title>Variation of highly specific N-glycosylation sites of 68 strains in comparison to CV777</title></caption><graphic xlink:href="jvs-18-237-i001"></graphic><table-wrap-foot><fn><p>South China isolates are indicated in boldface type, with the dash indicating possession of the same sites, and the “N” indicating that the strain did not contain the site, or the sites were not high-specificity sites. These predictions were done on the Asn-Xaa-Ser/Thr sequons.</p></fn></table-wrap-foot></table-wrap></floats-group></pmc><affiliations><list><country><li>République populaire de Chine</li></country><region><li>Guangdong</li></region><settlement><li>Jiangmen</li></settlement></list><tree><country name="République populaire de Chine"><region name="Guangdong"><name sortKey="Zhao, Xiaoya" sort="Zhao, Xiaoya" uniqKey="Zhao X" first="Xiaoya" last="Zhao">Xiaoya Zhao</name></region><name sortKey="Li, Zhili" sort="Li, Zhili" uniqKey="Li Z" first="Zhili" last="Li">Zhili Li</name><name sortKey="Ma, Jingyun" sort="Ma, Jingyun" uniqKey="Ma J" first="Jingyun" last="Ma">Jingyun Ma</name><name sortKey="Niu, Jianqiang" sort="Niu, Jianqiang" uniqKey="Niu J" first="Jianqiang" last="Niu">Jianqiang Niu</name><name sortKey="Niu, Jianqiang" sort="Niu, Jianqiang" uniqKey="Niu J" first="Jianqiang" last="Niu">Jianqiang Niu</name><name sortKey="Sun, Baoli" sort="Sun, Baoli" uniqKey="Sun B" first="Baoli" last="Sun">Baoli Sun</name><name sortKey="Zeng, Xiduo" sort="Zeng, Xiduo" uniqKey="Zeng X" first="Xiduo" last="Zeng">Xiduo Zeng</name><name sortKey="Zhang, Guanqun" sort="Zhang, Guanqun" uniqKey="Zhang G" first="Guanqun" last="Zhang">Guanqun Zhang</name><name sortKey="Zhang, Guanqun" sort="Zhang, Guanqun" uniqKey="Zhang G" first="Guanqun" last="Zhang">Guanqun Zhang</name></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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