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Article: Molecular epidemiology of human coronavirus OC43 reveals evolution of different genotypes over time and recent emergence of a novel genotype due to natural recombination

TitleMolecular epidemiology of human coronavirus OC43 reveals evolution of different genotypes over time and recent emergence of a novel genotype due to natural recombination
Authors
Issue Date2011
PublisherAmerican Society for Microbiology. The Journal's web site is located at http://jvi.asm.org/
Citation
Journal Of Virology, 2011, v. 85 n. 21, p. 11325-11337 How to Cite?
AbstractAlthough human coronavirus OC43-OC43 (HCoV-OC43) is the coronavirus most commonly associated with human infections, little is known about its molecular epidemiology and evolution. We conducted a molecular epidemiology study to investigate different genotypes and potential recombination in HCoV-OC43. Twenty-nine HCoV-OC43 strains from nasopharyngeal aspirates, collected from 2004 to 2011, were subjected to RNA-dependent RNA polymerase (RdRp), spike, and nucleocapsid gene analysis. Phylogenetic analysis showed at least three distinct clusters of HCoV-OC43, although 10 unusual strains displayed incongruent phylogenetic positions between RdRp and spike genes. This suggested the presence of four HCoV-OC43 genotypes (A to D), with genotype D most likely arising from recombination. The complete genome sequencing of two genotype C and D strains and bootscan analysis showed recombination events between genotypes B and C in the generation of genotype D. Of the 29 strains, none belonged to the more ancient genotype A, 5 from 2004 belonged to genotype B, 15 from 2004 to 2006 belonged to genotype C, and 1 from 2004 and all 8 from 2008 to 2011 belonged to the recombinant genotype D. Molecular clock analysis using spike and nucleocapsid genes dated the most recent common ancestor of all genotypes to the 1950s, genotype B and C to the 1980s, genotype B to the 1990s, and genotype C to the late 1990s to early 2000s, while the recombinant genotype D strains were detected as early as 2004. This represents the first study to describe natural recombination in HCoV-OC43 and the evolution of different genotypes over time, leading to the emergence of novel genotype D, which is associated with pneumonia in our elderly population. © 2011, American Society for Microbiology.
Persistent Identifierhttp://hdl.handle.net/10722/157652
ISSN
2015 Impact Factor: 4.606
2015 SCImago Journal Rankings: 3.347
PubMed Central ID
ISI Accession Number ID
Funding AgencyGrant Number
Research Grant Council
University Grant Council
Strategic Research Theme Fund
Committee for Research and Conference Grant
The University of Hong Kong
Health, Welfare and Food Bureau
Consultancy Service for Enhancing Laboratory Surveillance of Emerging Infectious Disease for the HKSAR Department of Health
University Development Fund
Funding Information:

This work was partly supported by a Research Grant Council grant, University Grant Council; the Strategic Research Theme Fund, Committee for Research and Conference Grant and University Development Fund, The University of Hong Kong; the HKSAR Research Fund for the Control of Infectious Diseases of the Health, Welfare and Food Bureau; and the Consultancy Service for Enhancing Laboratory Surveillance of Emerging Infectious Disease for the HKSAR Department of Health.

References

 

DC FieldValueLanguage
dc.contributor.authorLau, SKPen_HK
dc.contributor.authorLee, Pen_HK
dc.contributor.authorTsang, AKLen_HK
dc.contributor.authorYip, CCYen_HK
dc.contributor.authorTse, Hen_HK
dc.contributor.authorLee, RAen_HK
dc.contributor.authorSo, LYen_HK
dc.contributor.authorLau, YLen_HK
dc.contributor.authorChan, KHen_HK
dc.contributor.authorWoo, PCYen_HK
dc.contributor.authorYuen, KYen_HK
dc.date.accessioned2012-08-08T08:51:58Z-
dc.date.available2012-08-08T08:51:58Z-
dc.date.issued2011en_HK
dc.identifier.citationJournal Of Virology, 2011, v. 85 n. 21, p. 11325-11337en_HK
dc.identifier.issn0022-538Xen_HK
dc.identifier.urihttp://hdl.handle.net/10722/157652-
dc.description.abstractAlthough human coronavirus OC43-OC43 (HCoV-OC43) is the coronavirus most commonly associated with human infections, little is known about its molecular epidemiology and evolution. We conducted a molecular epidemiology study to investigate different genotypes and potential recombination in HCoV-OC43. Twenty-nine HCoV-OC43 strains from nasopharyngeal aspirates, collected from 2004 to 2011, were subjected to RNA-dependent RNA polymerase (RdRp), spike, and nucleocapsid gene analysis. Phylogenetic analysis showed at least three distinct clusters of HCoV-OC43, although 10 unusual strains displayed incongruent phylogenetic positions between RdRp and spike genes. This suggested the presence of four HCoV-OC43 genotypes (A to D), with genotype D most likely arising from recombination. The complete genome sequencing of two genotype C and D strains and bootscan analysis showed recombination events between genotypes B and C in the generation of genotype D. Of the 29 strains, none belonged to the more ancient genotype A, 5 from 2004 belonged to genotype B, 15 from 2004 to 2006 belonged to genotype C, and 1 from 2004 and all 8 from 2008 to 2011 belonged to the recombinant genotype D. Molecular clock analysis using spike and nucleocapsid genes dated the most recent common ancestor of all genotypes to the 1950s, genotype B and C to the 1980s, genotype B to the 1990s, and genotype C to the late 1990s to early 2000s, while the recombinant genotype D strains were detected as early as 2004. This represents the first study to describe natural recombination in HCoV-OC43 and the evolution of different genotypes over time, leading to the emergence of novel genotype D, which is associated with pneumonia in our elderly population. © 2011, American Society for Microbiology.en_HK
dc.languageengen_US
dc.publisherAmerican Society for Microbiology. The Journal's web site is located at http://jvi.asm.org/en_HK
dc.relation.ispartofJournal of Virologyen_HK
dc.rightsJournal of Virology. Copyright © American Society for Microbiology.-
dc.rightsCopyright © American Society for Microbiology, [Journal of Virology, 2011, v. 85 n. 21, p. 11325-11337]-
dc.subject.meshCommon Cold - virologyen_US
dc.subject.meshCoronavirus Infections - virologyen_US
dc.subject.meshCoronavirus OC43, Human - classification - genetics - isolation and purificationen_US
dc.subject.meshEvolution, Molecularen_US
dc.subject.meshRecombination, Geneticen_US
dc.titleMolecular epidemiology of human coronavirus OC43 reveals evolution of different genotypes over time and recent emergence of a novel genotype due to natural recombinationen_HK
dc.typeArticleen_HK
dc.identifier.emailLau, SKP: skplau@hkucc.hku.hken_HK
dc.identifier.emailYip, CCY: yipcyril@hku.hken_HK
dc.identifier.emailTse, H: htse@hkucc.hku.hken_HK
dc.identifier.emailLau, YL: lauylung@hku.hken_HK
dc.identifier.emailWoo, PCY: pcywoo@hkucc.hku.hken_HK
dc.identifier.emailYuen, KY: kyyuen@hkucc.hku.hken_HK
dc.identifier.authorityLau, SKP=rp00486en_HK
dc.identifier.authorityYip, CCY=rp01721en_HK
dc.identifier.authorityTse, H=rp00519en_HK
dc.identifier.authorityLau, YL=rp00361en_HK
dc.identifier.authorityWoo, PCY=rp00430en_HK
dc.identifier.authorityYuen, KY=rp00366en_HK
dc.description.naturelink_to_OA_fulltexten_US
dc.identifier.doi10.1128/JVI.05512-11en_HK
dc.identifier.pmid21849456-
dc.identifier.pmcidPMC3194943-
dc.identifier.scopuseid_2-s2.0-80055111481en_HK
dc.identifier.hkuros204108-
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-80055111481&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume85en_HK
dc.identifier.issue21en_HK
dc.identifier.spage11325en_HK
dc.identifier.epage11337en_HK
dc.identifier.isiWOS:000296254400039-
dc.publisher.placeUnited Statesen_HK
dc.identifier.scopusauthoridLau, SKP=7401596211en_HK
dc.identifier.scopusauthoridLee, P=36189338700en_HK
dc.identifier.scopusauthoridTsang, AKL=7006979247en_HK
dc.identifier.scopusauthoridYip, CCY=14016999800en_HK
dc.identifier.scopusauthoridTse, H=7006070596en_HK
dc.identifier.scopusauthoridLee, RA=7408203830en_HK
dc.identifier.scopusauthoridSo, LY=36784797000en_HK
dc.identifier.scopusauthoridLau, YL=7201403380en_HK
dc.identifier.scopusauthoridChan, KH=7406034307en_HK
dc.identifier.scopusauthoridWoo, PCY=7201801340en_HK
dc.identifier.scopusauthoridYuen, KY=36078079100en_HK

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