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Article: Discovery and genomic characterization of a novel bat sapovirus with unusual genomic features and phylogenetic position

TitleDiscovery and genomic characterization of a novel bat sapovirus with unusual genomic features and phylogenetic position
Authors
KeywordsBat
Codon usage
CpG island
DNA base composition
Gene amplification
Issue Date2012
PublisherPublic Library of Science. The Journal's web site is located at http://www.plosone.org/home.action
Citation
PLoS One, 2012, v. 7 n. 4, article no. e34987 How to Cite?
AbstractSapovirus is a genus of caliciviruses that are known to cause enteric disease in humans and animals. There is considerable genetic diversity among the sapoviruses, which are classified into different genogroups based on phylogenetic analysis of the full-length capsid protein sequence. While several mammalian species, including humans, pigs, minks, and dogs, have been identified as animal hosts for sapoviruses, there were no reports of sapoviruses in bats in spite of their biological diversity. In this report, we present the results of a targeted surveillance study in different bat species in Hong Kong. Five of the 321 specimens from the bat species, Hipposideros pomona, were found to be positive for sapoviruses by RT-PCR. Complete or nearly full-length genome sequences of approximately 7.7 kb in length were obtained for three strains, which showed similar organization of the genome compared to other sapoviruses. Interestingly, they possess many genomic features atypical of most sapoviruses, like high G+C content and minimal CpG suppression. Phylogenetic analysis of the viral proteins suggested that the bat sapovirus descended from an ancestral sapovirus lineage and is most closely related to the porcine sapoviruses. Codon usage analysis showed that the bat sapovirus genome has greater codon usage bias relative to other sapovirus genomes. In summary, we report the discovery and genomic characterization of the first bat calicivirus, which appears to have evolved under different conditions after early divergence from other sapovirus lineages.
Persistent Identifierhttp://hdl.handle.net/10722/157688
ISSN
2015 Impact Factor: 3.057
2015 SCImago Journal Rankings: 1.395
PubMed Central ID
ISI Accession Number ID
Funding AgencyGrant Number
Research Grant Council
University of Hong Kong
Tung Wah Group of Hospitals Fund for Research in Infectious Diseases
HKSAR Research Fund for the Control of Infectious Diseases of the Health, Welfare and Food Bureau
Shaw Foundation
Hong Kong Police Force
Funding Information:

This work is partly supported by the Research Grant Council; University Development Fund, The University of Hong Kong; The Tung Wah Group of Hospitals Fund for Research in Infectious Diseases; the HKSAR Research Fund for the Control of Infectious Diseases of the Health, Welfare and Food Bureau; and the Shaw Foundation. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.

References

 

DC FieldValueLanguage
dc.contributor.authorTse, Hen_US
dc.contributor.authorChan, WMen_US
dc.contributor.authorLi, KSMen_US
dc.contributor.authorLau, SKPen_US
dc.contributor.authorWoo, PCYen_US
dc.contributor.authorYuen, KYen_US
dc.date.accessioned2012-08-08T08:52:16Z-
dc.date.available2012-08-08T08:52:16Z-
dc.date.issued2012en_US
dc.identifier.citationPLoS One, 2012, v. 7 n. 4, article no. e34987en_US
dc.identifier.issn1932-6203en_US
dc.identifier.urihttp://hdl.handle.net/10722/157688-
dc.description.abstractSapovirus is a genus of caliciviruses that are known to cause enteric disease in humans and animals. There is considerable genetic diversity among the sapoviruses, which are classified into different genogroups based on phylogenetic analysis of the full-length capsid protein sequence. While several mammalian species, including humans, pigs, minks, and dogs, have been identified as animal hosts for sapoviruses, there were no reports of sapoviruses in bats in spite of their biological diversity. In this report, we present the results of a targeted surveillance study in different bat species in Hong Kong. Five of the 321 specimens from the bat species, Hipposideros pomona, were found to be positive for sapoviruses by RT-PCR. Complete or nearly full-length genome sequences of approximately 7.7 kb in length were obtained for three strains, which showed similar organization of the genome compared to other sapoviruses. Interestingly, they possess many genomic features atypical of most sapoviruses, like high G+C content and minimal CpG suppression. Phylogenetic analysis of the viral proteins suggested that the bat sapovirus descended from an ancestral sapovirus lineage and is most closely related to the porcine sapoviruses. Codon usage analysis showed that the bat sapovirus genome has greater codon usage bias relative to other sapovirus genomes. In summary, we report the discovery and genomic characterization of the first bat calicivirus, which appears to have evolved under different conditions after early divergence from other sapovirus lineages.en_US
dc.languageengen_US
dc.publisherPublic Library of Science. The Journal's web site is located at http://www.plosone.org/home.actionen_US
dc.relation.ispartofPLoS Oneen_US
dc.rightsCreative Commons: Attribution 3.0 Hong Kong License-
dc.subjectBat-
dc.subjectCodon usage-
dc.subjectCpG island-
dc.subjectDNA base composition-
dc.subjectGene amplification-
dc.titleDiscovery and genomic characterization of a novel bat sapovirus with unusual genomic features and phylogenetic positionen_US
dc.typeArticleen_US
dc.identifier.emailTse, H: herman@graduate.hku.hken_US
dc.identifier.emailChan, WM: mbally@hku.hken_US
dc.identifier.emailLi, KSM: kenn105@hkucc.hku.hk-
dc.identifier.emailLau, SKP: skplau@hkucc.hku.hk-
dc.identifier.emailWoo, PCY: pcywoo@hkucc.hku.hk-
dc.identifier.emailYuen, KY: kyyuen@hkucc.hku.hk-
dc.identifier.authorityLau, SKP=rp00486en_US
dc.identifier.authorityYuen, KY=rp00366en_US
dc.description.naturepublished_or_final_versionen_US
dc.identifier.doi10.1371/journal.pone.0034987en_US
dc.identifier.pmid22514697-
dc.identifier.pmcidPMC3325917-
dc.identifier.scopuseid_2-s2.0-84859706024en_US
dc.identifier.hkuros204323-
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-84859706024&selection=ref&src=s&origin=recordpageen_US
dc.identifier.volume7en_US
dc.identifier.issue4, article no. e34987en_US
dc.identifier.eissn1932-6203-
dc.identifier.isiWOS:000305341600103-
dc.publisher.placeUnited Statesen_US
dc.identifier.scopusauthoridYuen, KY=36078079100en_US
dc.identifier.scopusauthoridWoo, PCY=55177222700en_US
dc.identifier.scopusauthoridLau, SKP=7401596211en_US
dc.identifier.scopusauthoridLi, KSM=24759122500en_US
dc.identifier.scopusauthoridChan, WM=55183680600en_US
dc.identifier.scopusauthoridTse, H=55183843500en_US

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