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Article: The complete genome sequence of severe acute respiratory syndrome coronavirus strain HKU-39849 (HK-39)

TitleThe complete genome sequence of severe acute respiratory syndrome coronavirus strain HKU-39849 (HK-39)
Authors
Keywords5′-RACE assay
Coronavirus
Genomic sequence
SARS
Subgenomic transcripts
Issue Date2003
PublisherSociety for Experimental Biology and Medicine. The Journal's web site is located at http://www.ebmonline.org/
Citation
Experimental Biology And Medicine, 2003, v. 228 n. 7, p. 866-873 How to Cite?
AbstractThe complete genomic nucleotide sequence (29.7kb) of a Hong Kong severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) strain HK-39 is determined. Phylogenetic analysis of the genomic sequence reveals it to be a distinct member of the Coronaviridae family. 5′ RACE assay confirms the presence of at least six subgenomic transcripts all containing the predicted intergenic sequences. Five open reading frames (ORFs), namely ORF1a, 1b, S, M, and N, are found to be homologues to other CoV members, and three more unknown ORFs (X1, X2, and X3) are unparalleled in all other known CoV species. Optimal alignment and computer analysis of the homologous ORFs has predicted the characteristic structural and functional domains on the putative genes. The overall nucleotides conservation of the homologous ORFs is low (<5%) compared with other known CoVs, implying that HK-39 is a newly emergent SARS-CoV phylogenetically distant from other known members. SimPlot analysis supports this finding, and also suggests that this novel virus is not a product of a recent recombinant from any of the known characterized CoVs. Together, these results confirm that HK-39 is a novel and distinct member of the Coronaviridae family, with unknown origin. The completion of the genomic sequence of the virus will assist in tracing its origin.
Persistent Identifierhttp://hdl.handle.net/10722/78959
ISSN
2015 Impact Factor: 2.542
2015 SCImago Journal Rankings: 0.991
References

 

DC FieldValueLanguage
dc.contributor.authorZeng, FYen_HK
dc.contributor.authorChan, CWMen_HK
dc.contributor.authorChan, MNen_HK
dc.contributor.authorChen, JDen_HK
dc.contributor.authorChow, KYCen_HK
dc.contributor.authorHon, CCen_HK
dc.contributor.authorHui, KHen_HK
dc.contributor.authorLi, Jen_HK
dc.contributor.authorLi, VYYen_HK
dc.contributor.authorWang, CYen_HK
dc.contributor.authorWang, PYen_HK
dc.contributor.authorGuan, Yen_HK
dc.contributor.authorZheng, Ben_HK
dc.contributor.authorPoon, LLMen_HK
dc.contributor.authorChan, KHen_HK
dc.contributor.authorYuen, KYen_HK
dc.contributor.authorPeiris, JSMen_HK
dc.contributor.authorLeung, FCen_HK
dc.date.accessioned2010-09-06T07:48:53Z-
dc.date.available2010-09-06T07:48:53Z-
dc.date.issued2003en_HK
dc.identifier.citationExperimental Biology And Medicine, 2003, v. 228 n. 7, p. 866-873en_HK
dc.identifier.issn1535-3702en_HK
dc.identifier.urihttp://hdl.handle.net/10722/78959-
dc.description.abstractThe complete genomic nucleotide sequence (29.7kb) of a Hong Kong severe acute respiratory syndrome (SARS) coronavirus (SARS-CoV) strain HK-39 is determined. Phylogenetic analysis of the genomic sequence reveals it to be a distinct member of the Coronaviridae family. 5′ RACE assay confirms the presence of at least six subgenomic transcripts all containing the predicted intergenic sequences. Five open reading frames (ORFs), namely ORF1a, 1b, S, M, and N, are found to be homologues to other CoV members, and three more unknown ORFs (X1, X2, and X3) are unparalleled in all other known CoV species. Optimal alignment and computer analysis of the homologous ORFs has predicted the characteristic structural and functional domains on the putative genes. The overall nucleotides conservation of the homologous ORFs is low (<5%) compared with other known CoVs, implying that HK-39 is a newly emergent SARS-CoV phylogenetically distant from other known members. SimPlot analysis supports this finding, and also suggests that this novel virus is not a product of a recent recombinant from any of the known characterized CoVs. Together, these results confirm that HK-39 is a novel and distinct member of the Coronaviridae family, with unknown origin. The completion of the genomic sequence of the virus will assist in tracing its origin.en_HK
dc.languageengen_HK
dc.publisherSociety for Experimental Biology and Medicine. The Journal's web site is located at http://www.ebmonline.org/en_HK
dc.relation.ispartofExperimental Biology and Medicineen_HK
dc.subject5′-RACE assayen_HK
dc.subjectCoronavirusen_HK
dc.subjectGenomic sequenceen_HK
dc.subjectSARSen_HK
dc.subjectSubgenomic transcriptsen_HK
dc.titleThe complete genome sequence of severe acute respiratory syndrome coronavirus strain HKU-39849 (HK-39)en_HK
dc.typeArticleen_HK
dc.identifier.openurlhttp://library.hku.hk:4550/resserv?sid=HKU:IR&issn=1535-3702&volume=228&spage=866&epage=873&date=2003&atitle=The+Complete+Genome+Sequence+of+Severe+Acute+Respiratory+Syndrome+Coronavirus+Strain+HKU-39849+(HK-39)en_HK
dc.identifier.emailHui, KH: rkhhui@hkucc.hku.hken_HK
dc.identifier.emailGuan, Y: yguan@hkucc.hku.hken_HK
dc.identifier.emailZheng, B: bzheng@hkucc.hku.hken_HK
dc.identifier.emailPoon, LLM: llmpoon@hkucc.hku.hken_HK
dc.identifier.emailYuen, KY: kyyuen@hkucc.hku.hken_HK
dc.identifier.emailPeiris, JSM: malik@hkucc.hku.hken_HK
dc.identifier.emailLeung, FC: fcleung@hkucc.hku.hken_HK
dc.identifier.authorityHui, KH=rp00711en_HK
dc.identifier.authorityGuan, Y=rp00397en_HK
dc.identifier.authorityZheng, B=rp00353en_HK
dc.identifier.authorityPoon, LLM=rp00484en_HK
dc.identifier.authorityYuen, KY=rp00366en_HK
dc.identifier.authorityPeiris, JSM=rp00410en_HK
dc.identifier.authorityLeung, FC=rp00731en_HK
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.scopuseid_2-s2.0-0041466151en_HK
dc.identifier.hkuros93314en_HK
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-0041466151&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume228en_HK
dc.identifier.issue7en_HK
dc.identifier.spage866en_HK
dc.identifier.epage873en_HK
dc.publisher.placeUnited Statesen_HK
dc.identifier.scopusauthoridZeng, FY=7202911544en_HK
dc.identifier.scopusauthoridChan, CWM=7404813871en_HK
dc.identifier.scopusauthoridChan, MN=36941301400en_HK
dc.identifier.scopusauthoridChen, JD=8320191000en_HK
dc.identifier.scopusauthoridChow, KYC=7202180875en_HK
dc.identifier.scopusauthoridHon, CC=7003617137en_HK
dc.identifier.scopusauthoridHui, KH=7103304764en_HK
dc.identifier.scopusauthoridLi, J=27171035300en_HK
dc.identifier.scopusauthoridLi, VYY=7202621838en_HK
dc.identifier.scopusauthoridWang, CY=8266261300en_HK
dc.identifier.scopusauthoridWang, PY=13907209900en_HK
dc.identifier.scopusauthoridGuan, Y=7202924055en_HK
dc.identifier.scopusauthoridZheng, B=7201780588en_HK
dc.identifier.scopusauthoridPoon, LLM=7005441747en_HK
dc.identifier.scopusauthoridChan, KH=35338760600en_HK
dc.identifier.scopusauthoridYuen, KY=36078079100en_HK
dc.identifier.scopusauthoridPeiris, JSM=7005486823en_HK
dc.identifier.scopusauthoridLeung, FC=7103078633en_HK

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