Genetic Characteristics of Coronaviruses from Korean Bats in 2016
Identifieur interne : 000397 ( Pmc/Curation ); précédent : 000396; suivant : 000398Genetic Characteristics of Coronaviruses from Korean Bats in 2016
Auteurs : Saemi Lee [Corée du Sud] ; Seong-Deok Jo [Corée du Sud] ; Kidong Son [Corée du Sud] ; Injung An [Corée du Sud] ; Jipseol Jeong [Corée du Sud] ; Seung-Jun Wang [Corée du Sud] ; Yongkwan Kim [Corée du Sud] ; Weonhwa Jheong [Corée du Sud] ; Jae-Ku Oem [Corée du Sud]Source :
- Microbial Ecology [ 0095-3628 ] ; 2017.
Abstract
Bats have increasingly been recognized as the natural reservoir of severe acute respiratory syndrome (SARS), coronavirus, and other coronaviruses found in mammals. However, little research has been conducted on bat coronaviruses in South Korea. In this study, bat samples (332 oral swabs, 245 fecal samples, 38 urine samples, and 57 bat carcasses) were collected at 33 natural bat habitat sites in South Korea. RT-PCR and sequencing were performed for specific coronavirus genes to identify the bat coronaviruses in different bat samples. Coronaviruses were detected in 2.7% (18/672) of the samples: 13 oral swabs from one species of the family
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DOI: 10.1007/s00248-017-1033-8
PubMed: 28725945
PubMed Central: 7079938
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Jheong</name><affiliation wicri:level="1"><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0647 9913</institution-id><institution-id institution-id-type="GRID">grid.419585.4</institution-id><institution>Environmental Health Research Department,</institution><institution>National Institute of Environmental Research,</institution></institution-wrap>Hwangyeong-ro 42, Seo-gu, Incheon, 22689 Republic of Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Hwangyeong-ro 42, Seo-gu, Incheon</wicri:regionArea></affiliation></author><author><name sortKey="Oem, Jae Ku" sort="Oem, Jae Ku" uniqKey="Oem J" first="Jae-Ku" last="Oem">Jae-Ku Oem</name><affiliation wicri:level="1"><nlm:aff id="Aff1"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0647 9913</institution-id><institution-id institution-id-type="GRID">grid.419585.4</institution-id><institution>Environmental Health Research Department,</institution><institution>National Institute of Environmental Research,</institution></institution-wrap>Hwangyeong-ro 42, Seo-gu, Incheon, 22689 Republic of Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Hwangyeong-ro 42, Seo-gu, Incheon</wicri:regionArea></affiliation><affiliation wicri:level="1"><nlm:aff id="Aff2"><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0470 4320</institution-id><institution-id institution-id-type="GRID">grid.411545.0</institution-id><institution>Department of Veterinary Infectious Diseases, College of Veterinary Medicine,</institution><institution>Chonbuk National University,</institution></institution-wrap>Iksan, Republic of Korea</nlm:aff><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Iksan</wicri:regionArea></affiliation></author></analytic><series><title level="j">Microbial Ecology</title><idno type="ISSN">0095-3628</idno><idno type="eISSN">1432-184X</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 id="Par1">Bats have increasingly been recognized as the natural reservoir of severe acute respiratory syndrome (SARS), coronavirus, and other coronaviruses found in mammals. However, little research has been conducted on bat coronaviruses in South Korea. In this study, bat samples (332 oral swabs, 245 fecal samples, 38 urine samples, and 57 bat carcasses) were collected at 33 natural bat habitat sites in South Korea. RT-PCR and sequencing were performed for specific coronavirus genes to identify the bat coronaviruses in different bat samples. Coronaviruses were detected in 2.7% (18/672) of the samples: 13 oral swabs from one species of the family <italic>Rhinolophidae</italic>, and four fecal samples and one carcass (intestine) from three species of the family <italic>Vespertiliodae</italic>. To determine the genetic relationships of the 18 sequences obtained in this study and previously known coronaviruses, the nucleotide sequences of a 392-nt region of the RNA-dependent RNA polymerase (RdRp) gene were analyzed phylogenetically. Thirteen sequences belonging to SARS-like betacoronaviruses showed the highest nucleotide identity (97.1–99.7%) with Bat-CoV-JTMC15 reported in China. The other five sequences were most similar to MERS-like betacoronaviruses. Four nucleotide sequences displayed the highest identity (94.1–95.1%) with Bat-CoV-HKU5 from Hong Kong. The one sequence from a carcass showed the highest nucleotide identity (99%) with Bat-CoV-SC2013 from China. These results suggest that careful surveillance of coronaviruses from bats should be continued, because animal and human infections may result from the genetic variants present in bat coronavirus reservoirs.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Brian, Da" uniqKey="Brian D">DA Brian</name></author><author><name sortKey="Baric, Rs" uniqKey="Baric R">RS Baric</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Gonzalez, J" uniqKey="Gonzalez J">J Gonzalez</name></author><author><name sortKey="Gomez Puertas, P" uniqKey="Gomez Puertas P">P Gomez-Puertas</name></author><author><name sortKey="Cavanagh, D" uniqKey="Cavanagh D">D Cavanagh</name></author><author><name sortKey="Gorbalenya, A" uniqKey="Gorbalenya A">A Gorbalenya</name></author><author><name sortKey="Enjuanes, L" uniqKey="Enjuanes L">L Enjuanes</name></author></analytic></biblStruct><biblStruct><analytic><author><name sortKey="Murray, 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<front><journal-meta><journal-id journal-id-type="nlm-ta">Microb Ecol</journal-id><journal-id journal-id-type="iso-abbrev">Microb. Ecol</journal-id><journal-title-group><journal-title>Microbial Ecology</journal-title></journal-title-group><issn pub-type="ppub">0095-3628</issn><issn pub-type="epub">1432-184X</issn><publisher><publisher-name>Springer US</publisher-name><publisher-loc>New York</publisher-loc></publisher></journal-meta><article-meta><article-id pub-id-type="pmid">28725945</article-id><article-id pub-id-type="pmc">7079938</article-id><article-id pub-id-type="publisher-id">1033</article-id><article-id pub-id-type="doi">10.1007/s00248-017-1033-8</article-id><article-categories><subj-group subj-group-type="heading"><subject>Environmental Microbiology</subject></subj-group></article-categories><title-group><article-title>Genetic Characteristics of Coronaviruses from Korean Bats in 2016</article-title></title-group><contrib-group><contrib contrib-type="author"><name><surname>Lee</surname><given-names>Saemi</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Jo</surname><given-names>Seong-Deok</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Son</surname><given-names>Kidong</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>An</surname><given-names>Injung</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Jeong</surname><given-names>Jipseol</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Wang</surname><given-names>Seung-Jun</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Kim</surname><given-names>Yongkwan</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author"><name><surname>Jheong</surname><given-names>Weonhwa</given-names></name><xref ref-type="aff" rid="Aff1">1</xref></contrib><contrib contrib-type="author" corresp="yes"><contrib-id contrib-id-type="orcid">http://orcid.org/0000-0002-4298-0604</contrib-id><name><surname>Oem</surname><given-names>Jae-Ku</given-names></name><address><phone>+82 32 560 7145</phone><email>jku0623@korea.kr</email></address><xref ref-type="aff" rid="Aff1">1</xref><xref ref-type="aff" rid="Aff2">2</xref></contrib><aff id="Aff1"><label>1</label><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0647 9913</institution-id><institution-id institution-id-type="GRID">grid.419585.4</institution-id><institution>Environmental Health Research Department,</institution><institution>National Institute of Environmental Research,</institution></institution-wrap>Hwangyeong-ro 42, Seo-gu, Incheon, 22689 Republic of Korea</aff><aff id="Aff2"><label>2</label><institution-wrap><institution-id institution-id-type="ISNI">0000 0004 0470 4320</institution-id><institution-id institution-id-type="GRID">grid.411545.0</institution-id><institution>Department of Veterinary Infectious Diseases, College of Veterinary Medicine,</institution><institution>Chonbuk National University,</institution></institution-wrap>Iksan, Republic of Korea</aff></contrib-group><pub-date pub-type="epub"><day>19</day><month>7</month><year>2017</year></pub-date><pub-date pub-type="ppub"><year>2018</year></pub-date><volume>75</volume><issue>1</issue><fpage>174</fpage><lpage>182</lpage><history><date date-type="received"><day>24</day><month>2</month><year>2017</year></date><date date-type="accepted"><day>4</day><month>7</month><year>2017</year></date></history><permissions><copyright-statement>© Springer Science+Business Media, LLC 2017</copyright-statement><license><license-p>This article is made available via the PMC Open Access Subset for unrestricted research re-use and secondary analysis in any form or by any means with acknowledgement of the original source. These permissions are granted for the duration of the World Health Organization (WHO) declaration of COVID-19 as a global pandemic.</license-p></license></permissions><abstract id="Abs1"><p id="Par1">Bats have increasingly been recognized as the natural reservoir of severe acute respiratory syndrome (SARS), coronavirus, and other coronaviruses found in mammals. However, little research has been conducted on bat coronaviruses in South Korea. In this study, bat samples (332 oral swabs, 245 fecal samples, 38 urine samples, and 57 bat carcasses) were collected at 33 natural bat habitat sites in South Korea. RT-PCR and sequencing were performed for specific coronavirus genes to identify the bat coronaviruses in different bat samples. Coronaviruses were detected in 2.7% (18/672) of the samples: 13 oral swabs from one species of the family <italic>Rhinolophidae</italic>, and four fecal samples and one carcass (intestine) from three species of the family <italic>Vespertiliodae</italic>. To determine the genetic relationships of the 18 sequences obtained in this study and previously known coronaviruses, the nucleotide sequences of a 392-nt region of the RNA-dependent RNA polymerase (RdRp) gene were analyzed phylogenetically. Thirteen sequences belonging to SARS-like betacoronaviruses showed the highest nucleotide identity (97.1–99.7%) with Bat-CoV-JTMC15 reported in China. The other five sequences were most similar to MERS-like betacoronaviruses. Four nucleotide sequences displayed the highest identity (94.1–95.1%) with Bat-CoV-HKU5 from Hong Kong. The one sequence from a carcass showed the highest nucleotide identity (99%) with Bat-CoV-SC2013 from China. These results suggest that careful surveillance of coronaviruses from bats should be continued, because animal and human infections may result from the genetic variants present in bat coronavirus reservoirs.</p></abstract><kwd-group xml:lang="en"><title>Keywords</title><kwd>Coronavirus</kwd><kwd>Bats</kwd><kwd>South Korea</kwd><kwd>Severe acute respiratory syndrome</kwd><kwd>Middle East respiratory syndrome</kwd><kwd>Phylogenetic analysis</kwd></kwd-group><custom-meta-group><custom-meta><meta-name>issue-copyright-statement</meta-name><meta-value>© Springer Science+Business Media, LLC, part of Springer Nature 2018</meta-value></custom-meta></custom-meta-group></article-meta></front></pmc></record>Pour manipuler ce document sous Unix (Dilib)
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