Discovery and Characterization of Novel Bat Coronavirus Lineages from Kazakhstan
Identifieur interne : 000615 ( Main/Exploration ); précédent : 000614; suivant : 000616Discovery and Characterization of Novel Bat Coronavirus Lineages from Kazakhstan
Auteurs : Ian H. Mendenhall ; Aslan A. Kerimbayev ; Vitaliy M. Strochkov ; Kulyaisan T. Sultankulova ; Syrym K. Kopeyev ; Yvonne C. F. Su ; Gavin J. D. Smith [Singapour, États-Unis] ; Mukhit B. OrynbayevSource :
- Viruses [ 1999-4915 ] ; 2019.
Descripteurs français
- KwdFr :
- ARN viral (génétique), Animaux, Chiroptera (), Chiroptera (virologie), Infections à coronavirus (médecine vétérinaire), Infections à coronavirus (transmission), Infections à coronavirus (virologie), Kazakhstan, Phylogénie, Phylogéographie, Protéines virales (génétique), RNA replicase (génétique), Réservoirs d'agents pathogènes (), Réservoirs d'agents pathogènes (médecine vétérinaire), Réservoirs d'agents pathogènes (virologie), Variation génétique.
- MESH :
- génétique : ARN viral, Protéines virales, RNA replicase.
- médecine vétérinaire : Infections à coronavirus, Réservoirs d'agents pathogènes.
- virologie : Chiroptera, Infections à coronavirus, Réservoirs d'agents pathogènes.
- Animaux, Chiroptera, Infections à coronavirus, Kazakhstan, Phylogénie, Phylogéographie, Réservoirs d'agents pathogènes, Variation génétique.
- Wicri :
- geographic : Kazakhstan.
English descriptors
- KwdEn :
- Alphacoronavirus (classification), Alphacoronavirus (genetics), Animals, Chiroptera (classification), Chiroptera (virology), Coronavirus Infections (transmission), Coronavirus Infections (veterinary), Coronavirus Infections (virology), Disease Reservoirs (classification), Disease Reservoirs (veterinary), Disease Reservoirs (virology), Genetic Variation, Kazakhstan, Phylogeny, Phylogeography, RNA Replicase (genetics), RNA, Viral (genetics), Viral Proteins (genetics).
- MESH :
- chemical , genetics : RNA Replicase, RNA, Viral, Viral Proteins.
- geographic : Kazakhstan.
- classification : Alphacoronavirus, Chiroptera, Disease Reservoirs.
- genetics : Alphacoronavirus.
- transmission : Coronavirus Infections.
- veterinary : Coronavirus Infections, Disease Reservoirs.
- virology : Chiroptera, Coronavirus Infections, Disease Reservoirs.
- Animals, Genetic Variation, Phylogeny, Phylogeography.
Abstract
Coronaviruses are positive-stranded RNA viruses that infect a variety of hosts, resulting in a range of symptoms from gastrointestinal illness to respiratory distress. Bats are reservoirs for a high diversity of coronaviruses, and focused surveillance detected several strains genetically similar to MERS-coronavirus, SARS-coronavirus, and the human coronaviruses 229E and NL63. The bat fauna of central Asia, which link China to eastern Europe, are relatively less studied than other regions of the world. Kazakhstan is the world’s ninth largest country; however, little is understood about the prevalence and diversity of bat-borne viruses. In this study, bat guano was collected from bat caves in three different sites of southern Kazakhstan that tested positive for coronaviruses. Our phylogenetic reconstruction indicates these are novel bat coronaviruses that belong to the genus
Url:
DOI: 10.3390/v11040356
PubMed: 30999711
PubMed Central: 6521082
Affiliations:
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Le document en format XML
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Kerimbayev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Strochkov, Vitaliy M" sort="Strochkov, Vitaliy M" uniqKey="Strochkov V" first="Vitaliy M." last="Strochkov">Vitaliy M. 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Sultankulova</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Kopeyev, Syrym K" sort="Kopeyev, Syrym K" uniqKey="Kopeyev S" first="Syrym K." last="Kopeyev">Syrym K. Kopeyev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Su, Yvonne C F" sort="Su, Yvonne C F" uniqKey="Su Y" first="Yvonne C. F." last="Su">Yvonne C. F. Su</name><affiliation><nlm:aff id="af1-viruses-11-00356">Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore;<email>yvonne.su@duke-nus.edu.sg</email> (Y.C.F.S.);<email>gavin.smith@duke-nus.edu.sg</email> (G.J.D.S.)</nlm:aff></affiliation></author><author><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name><affiliation><nlm:aff id="af1-viruses-11-00356">Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore;<email>yvonne.su@duke-nus.edu.sg</email> (Y.C.F.S.);<email>gavin.smith@duke-nus.edu.sg</email> (G.J.D.S.)</nlm:aff></affiliation><affiliation wicri:level="1"><nlm:aff id="af3-viruses-11-00356">SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore</nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea>SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753</wicri:regionArea><wicri:noRegion>Singapore 168753</wicri:noRegion></affiliation><affiliation wicri:level="2"><nlm:aff id="af4-viruses-11-00356">Duke Global Health Institute, Duke University, Durham, NC 27710, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Duke Global Health Institute, Duke University, Durham, NC 27710</wicri:regionArea><placeName><region type="state">Caroline du Nord</region></placeName></affiliation></author><author><name sortKey="Orynbayev, Mukhit B" sort="Orynbayev, Mukhit B" uniqKey="Orynbayev M" first="Mukhit B." last="Orynbayev">Mukhit B. Orynbayev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PMC</idno><idno type="pmid">30999711</idno><idno type="pmc">6521082</idno><idno type="url">http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6521082</idno><idno type="RBID">PMC:6521082</idno><idno type="doi">10.3390/v11040356</idno><date when="2019">2019</date><idno type="wicri:Area/Pmc/Corpus">000750</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Corpus" wicri:corpus="PMC">000750</idno><idno type="wicri:Area/Pmc/Curation">000750</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Curation">000750</idno><idno type="wicri:Area/Pmc/Checkpoint">000338</idno><idno type="wicri:explorRef" wicri:stream="Pmc" wicri:step="Checkpoint">000338</idno><idno type="wicri:source">PubMed</idno><idno type="RBID">pubmed:30999711</idno><idno type="wicri:Area/PubMed/Corpus">000564</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000564</idno><idno type="wicri:Area/PubMed/Curation">000564</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000564</idno><idno type="wicri:Area/PubMed/Checkpoint">000600</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000600</idno><idno type="wicri:Area/Ncbi/Merge">002193</idno><idno type="wicri:Area/Ncbi/Curation">002193</idno><idno type="wicri:Area/Ncbi/Checkpoint">002193</idno><idno type="wicri:Area/Main/Merge">000618</idno><idno type="wicri:Area/Main/Curation">000615</idno><idno type="wicri:Area/Main/Exploration">000615</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en" level="a" type="main">Discovery and Characterization of Novel Bat Coronavirus Lineages from Kazakhstan</title><author><name sortKey="Mendenhall, Ian H" sort="Mendenhall, Ian H" uniqKey="Mendenhall I" first="Ian H." last="Mendenhall">Ian H. Mendenhall</name><affiliation><nlm:aff id="af1-viruses-11-00356">Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore;<email>yvonne.su@duke-nus.edu.sg</email> (Y.C.F.S.);<email>gavin.smith@duke-nus.edu.sg</email> (G.J.D.S.)</nlm:aff></affiliation></author><author><name sortKey="Kerimbayev, Aslan A" sort="Kerimbayev, Aslan A" uniqKey="Kerimbayev A" first="Aslan A." last="Kerimbayev">Aslan A. Kerimbayev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Strochkov, Vitaliy M" sort="Strochkov, Vitaliy M" uniqKey="Strochkov V" first="Vitaliy M." last="Strochkov">Vitaliy M. Strochkov</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Sultankulova, Kulyaisan T" sort="Sultankulova, Kulyaisan T" uniqKey="Sultankulova K" first="Kulyaisan T." last="Sultankulova">Kulyaisan T. Sultankulova</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Kopeyev, Syrym K" sort="Kopeyev, Syrym K" uniqKey="Kopeyev S" first="Syrym K." last="Kopeyev">Syrym K. Kopeyev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author><author><name sortKey="Su, Yvonne C F" sort="Su, Yvonne C F" uniqKey="Su Y" first="Yvonne C. F." last="Su">Yvonne C. F. Su</name><affiliation><nlm:aff id="af1-viruses-11-00356">Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore;<email>yvonne.su@duke-nus.edu.sg</email> (Y.C.F.S.);<email>gavin.smith@duke-nus.edu.sg</email> (G.J.D.S.)</nlm:aff></affiliation></author><author><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name><affiliation><nlm:aff id="af1-viruses-11-00356">Programme in Emerging Infectious Diseases, Duke-NUS Medical School, Singapore 169857, Singapore;<email>yvonne.su@duke-nus.edu.sg</email> (Y.C.F.S.);<email>gavin.smith@duke-nus.edu.sg</email> (G.J.D.S.)</nlm:aff></affiliation><affiliation wicri:level="1"><nlm:aff id="af3-viruses-11-00356">SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753, Singapore</nlm:aff><country xml:lang="fr">Singapour</country><wicri:regionArea>SingHealth Duke-NUS Global Health Institute, SingHealth Duke-NUS Academic Medical Centre, Singapore 168753</wicri:regionArea><wicri:noRegion>Singapore 168753</wicri:noRegion></affiliation><affiliation wicri:level="2"><nlm:aff id="af4-viruses-11-00356">Duke Global Health Institute, Duke University, Durham, NC 27710, USA</nlm:aff><country xml:lang="fr">États-Unis</country><wicri:regionArea>Duke Global Health Institute, Duke University, Durham, NC 27710</wicri:regionArea><placeName><region type="state">Caroline du Nord</region></placeName></affiliation></author><author><name sortKey="Orynbayev, Mukhit B" sort="Orynbayev, Mukhit B" uniqKey="Orynbayev M" first="Mukhit B." last="Orynbayev">Mukhit B. Orynbayev</name><affiliation><nlm:aff id="af2-viruses-11-00356">Research Institute for Biological Safety Problems, Gvardeiskiy, Kordaiskiy rayon, Zhambylskaya oblast 080409, Republic of Kazakhstan;<email>aslan_kerim@mail.ru</email> (A.A.K.);<email>vstrochkov@gmail.com</email> (V.M.S.);<email>sultankul70@mail.ru</email> (K.T.S.);<email>kopeyev85@mail.ru</email> (S.K.K.)</nlm:aff></affiliation></author></analytic><series><title level="j">Viruses</title><idno type="eISSN">1999-4915</idno><imprint><date when="2019">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Alphacoronavirus (classification)</term><term>Alphacoronavirus (genetics)</term><term>Animals</term><term>Chiroptera (classification)</term><term>Chiroptera (virology)</term><term>Coronavirus Infections (transmission)</term><term>Coronavirus Infections (veterinary)</term><term>Coronavirus Infections (virology)</term><term>Disease Reservoirs (classification)</term><term>Disease Reservoirs (veterinary)</term><term>Disease Reservoirs (virology)</term><term>Genetic Variation</term><term>Kazakhstan</term><term>Phylogeny</term><term>Phylogeography</term><term>RNA Replicase (genetics)</term><term>RNA, Viral (genetics)</term><term>Viral Proteins (genetics)</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>ARN viral (génétique)</term><term>Animaux</term><term>Chiroptera ()</term><term>Chiroptera (virologie)</term><term>Infections à coronavirus (médecine vétérinaire)</term><term>Infections à coronavirus (transmission)</term><term>Infections à coronavirus (virologie)</term><term>Kazakhstan</term><term>Phylogénie</term><term>Phylogéographie</term><term>Protéines virales (génétique)</term><term>RNA replicase (génétique)</term><term>Réservoirs d'agents pathogènes ()</term><term>Réservoirs d'agents pathogènes (médecine vétérinaire)</term><term>Réservoirs d'agents pathogènes (virologie)</term><term>Variation génétique</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>RNA Replicase</term><term>RNA, Viral</term><term>Viral Proteins</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Kazakhstan</term></keywords><keywords scheme="MESH" qualifier="classification" xml:lang="en"><term>Alphacoronavirus</term><term>Chiroptera</term><term>Disease Reservoirs</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Alphacoronavirus</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>ARN viral</term><term>Protéines virales</term><term>RNA replicase</term></keywords><keywords scheme="MESH" qualifier="médecine vétérinaire" xml:lang="fr"><term>Infections à coronavirus</term><term>Réservoirs d'agents pathogènes</term></keywords><keywords scheme="MESH" qualifier="transmission" xml:lang="en"><term>Coronavirus Infections</term></keywords><keywords scheme="MESH" qualifier="veterinary" xml:lang="en"><term>Coronavirus Infections</term><term>Disease Reservoirs</term></keywords><keywords scheme="MESH" qualifier="virologie" xml:lang="fr"><term>Chiroptera</term><term>Infections à coronavirus</term><term>Réservoirs d'agents pathogènes</term></keywords><keywords scheme="MESH" qualifier="virology" xml:lang="en"><term>Chiroptera</term><term>Coronavirus Infections</term><term>Disease Reservoirs</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Genetic Variation</term><term>Phylogeny</term><term>Phylogeography</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Animaux</term><term>Chiroptera</term><term>Infections à coronavirus</term><term>Kazakhstan</term><term>Phylogénie</term><term>Phylogéographie</term><term>Réservoirs d'agents pathogènes</term><term>Variation génétique</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Kazakhstan</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en"><p>Coronaviruses are positive-stranded RNA viruses that infect a variety of hosts, resulting in a range of symptoms from gastrointestinal illness to respiratory distress. Bats are reservoirs for a high diversity of coronaviruses, and focused surveillance detected several strains genetically similar to MERS-coronavirus, SARS-coronavirus, and the human coronaviruses 229E and NL63. The bat fauna of central Asia, which link China to eastern Europe, are relatively less studied than other regions of the world. Kazakhstan is the world’s ninth largest country; however, little is understood about the prevalence and diversity of bat-borne viruses. In this study, bat guano was collected from bat caves in three different sites of southern Kazakhstan that tested positive for coronaviruses. Our phylogenetic reconstruction indicates these are novel bat coronaviruses that belong to the genus <italic>Alphacoronavirus</italic>. In addition, two distinct lineages of Kazakhstan bat coronaviruses were detected. Both lineages are closely related to bat coronaviruses from China, France, Spain, and South Africa, suggesting that co-circulation of coronaviruses is common in multiple bat species with overlapping geographical distributions. Our study highlights the need for collaborative efforts in understudied countries to increase integrated surveillance capabilities toward better monitoring and detection of infectious diseases.</p></div></front><back><div1 type="bibliography"><listBibl><biblStruct><analytic><author><name sortKey="Calisher, C H" uniqKey="Calisher C">C.H. Calisher</name></author><author><name sortKey="Childs, J E" uniqKey="Childs J">J.E. Childs</name></author><author><name sortKey="Field, H E" uniqKey="Field H">H.E. Field</name></author><author><name sortKey="Holmes, K V" uniqKey="Holmes K">K.V. Holmes</name></author><author><name sortKey="Schountz, T" uniqKey="Schountz T">T. 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Mendenhall</name><name sortKey="Orynbayev, Mukhit B" sort="Orynbayev, Mukhit B" uniqKey="Orynbayev M" first="Mukhit B." last="Orynbayev">Mukhit B. Orynbayev</name><name sortKey="Strochkov, Vitaliy M" sort="Strochkov, Vitaliy M" uniqKey="Strochkov V" first="Vitaliy M." last="Strochkov">Vitaliy M. Strochkov</name><name sortKey="Su, Yvonne C F" sort="Su, Yvonne C F" uniqKey="Su Y" first="Yvonne C. F." last="Su">Yvonne C. F. Su</name><name sortKey="Sultankulova, Kulyaisan T" sort="Sultankulova, Kulyaisan T" uniqKey="Sultankulova K" first="Kulyaisan T." last="Sultankulova">Kulyaisan T. Sultankulova</name></noCountry><country name="Singapour"><noRegion><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. Smith</name></noRegion></country><country name="États-Unis"><region name="Caroline du Nord"><name sortKey="Smith, Gavin J D" sort="Smith, Gavin J D" uniqKey="Smith G" first="Gavin J. D." last="Smith">Gavin J. D. 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