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Phylogenetic analysis and sequence comparisons of structural and non-structural SARS coronavirus proteins in Taiwan.
Infect Genet Evol. 2005 Apr; 5(3):261-9.IG

Abstract

Taiwan experienced a large number of severe acute respiratory syndrome (SARS) viral infections between March and July 2003; by September of that year, 346 SARS cases were confirmed by RT-PCR or serological tests. In order to better understand evolutionary relationships among SARS coronaviruses (SCoVs) from different international regions, we performed phylogenetic comparisons of full-length genomic and protein sequences from 45 human SCoVs (including 12 from Taiwan) and two civet SCoVs. All the Taiwanese SARS-CoV strains which associated with nosocomial infection formed a monophyletic clade within the late phase of the SARS epidemic. This Taiwanese clade could be further divided into two epidemic waves. Taiwan SCoVs in the first wave clustered with three isolates from the Amoy Gardens housing complex in Hong Kong indicating their possible origin. Of the 45 human SCoVs, one isolate from Guangdong province, China, exhibited an extra 29-nucleotide fragment between Orf 10 and Orf 11--similar to the civet SCoV genome. Nucleotide and protein sequence comparisons suggested that all SCoVs of late epidemic came from human-to-human transmission, while certain SCoVs of early epidemic might have originated in animals.

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Authors+Show Affiliations

Lan YC
AIDS Prevention and Research Center, Institute of Public Health, National Yang-Ming University, Taipei 112, Taiwan.
Liu HF
No affiliation info available
Shih YP
No affiliation info available
Yang JY
No affiliation info available
Chen HY
No affiliation info available
Chen YM
No affiliation info available

MeSH

Amino Acid SequenceMolecular Sequence DataPhylogenySevere acute respiratory syndrome-related coronavirusSequence Homology, Amino AcidSevere Acute Respiratory SyndromeTaiwanViral Nonstructural ProteinsViral Structural Proteins

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't

Language

eng

PubMed ID

15737918

Citation

Lan, Yu-Ching, et al. "Phylogenetic Analysis and Sequence Comparisons of Structural and Non-structural SARS Coronavirus Proteins in Taiwan." Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, vol. 5, no. 3, 2005, pp. 261-9.
Lan YC, Liu HF, Shih YP, et al. Phylogenetic analysis and sequence comparisons of structural and non-structural SARS coronavirus proteins in Taiwan. Infect Genet Evol. 2005;5(3):261-9.
Lan, Y. C., Liu, H. F., Shih, Y. P., Yang, J. Y., Chen, H. Y., & Chen, Y. M. (2005). Phylogenetic analysis and sequence comparisons of structural and non-structural SARS coronavirus proteins in Taiwan. Infection, Genetics and Evolution : Journal of Molecular Epidemiology and Evolutionary Genetics in Infectious Diseases, 5(3), 261-9.
Lan YC, et al. Phylogenetic Analysis and Sequence Comparisons of Structural and Non-structural SARS Coronavirus Proteins in Taiwan. Infect Genet Evol. 2005;5(3):261-9. PubMed PMID: 15737918.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Phylogenetic analysis and sequence comparisons of structural and non-structural SARS coronavirus proteins in Taiwan. AU - Lan,Yu-Ching, AU - Liu,Hsin-Fu, AU - Shih,Yi-Ping, AU - Yang,Jyh-Yuan, AU - Chen,Hour-Young, AU - Chen,Yi-Ming Arthur, Y1 - 2004/12/07/ PY - 2004/01/14/received PY - 2004/08/07/accepted PY - 2005/3/2/pubmed PY - 2005/5/11/medline PY - 2005/3/2/entrez SP - 261 EP - 9 JF - Infection, genetics and evolution : journal of molecular epidemiology and evolutionary genetics in infectious diseases JO - Infect Genet Evol VL - 5 IS - 3 N2 - Taiwan experienced a large number of severe acute respiratory syndrome (SARS) viral infections between March and July 2003; by September of that year, 346 SARS cases were confirmed by RT-PCR or serological tests. In order to better understand evolutionary relationships among SARS coronaviruses (SCoVs) from different international regions, we performed phylogenetic comparisons of full-length genomic and protein sequences from 45 human SCoVs (including 12 from Taiwan) and two civet SCoVs. All the Taiwanese SARS-CoV strains which associated with nosocomial infection formed a monophyletic clade within the late phase of the SARS epidemic. This Taiwanese clade could be further divided into two epidemic waves. Taiwan SCoVs in the first wave clustered with three isolates from the Amoy Gardens housing complex in Hong Kong indicating their possible origin. Of the 45 human SCoVs, one isolate from Guangdong province, China, exhibited an extra 29-nucleotide fragment between Orf 10 and Orf 11--similar to the civet SCoV genome. Nucleotide and protein sequence comparisons suggested that all SCoVs of late epidemic came from human-to-human transmission, while certain SCoVs of early epidemic might have originated in animals. SN - 1567-1348 UR - https://www.unboundmedicine.com/medline/citation/15737918/Phylogenetic_analysis_and_sequence_comparisons_of_structural_and_non_structural_SARS_coronavirus_proteins_in_Taiwan_ DB - PRIME DP - Unbound Medicine ER -