Comparative full-length genome sequence analysis of 14 SARS coronavirus isolates and common mutations associated with putative origins of infection

Lancet

Volumn 361, Issue 9371, 2003, Pages 1779-1785

  Ruan, YiJun ^a   Wei, Chia Lin ^a   Ee, Ling Ai ^b   Vega, Vinsensius B ^a   Thoreau, Herve ^a   Yun, Se Thoe Su ^b   Chia, Jer Ming ^a   Ng, Patrick ^a   Chiu, Kuo Ping ^a   Lim, Landri ^a   Tao, Zhang ^a   Peng, Chan Kwai ^b   Ean, Lynette Oon Lin ^b   Lee, Ng Mah ^c   Sin, Leo Yee ^d   Ng, Lisa F P ^a   Ren, Ee Chee ^a   Stanton, Lawrence W ^a   Long, Philip M ^a   Liu, Edison T ^a,e  

^a GENOME INSTITUTE OF SINGAPORE   (Singapore)

^b SINGAPORE GENERAL HOSPITAL   (Singapore)

^c NATIONAL UNIVERSITY OF SINGAPORE   (Singapore)

^d TAN TOCK SENG HOSPITAL   (Singapore)

^e Singapore Science Park II   (Singapore)

Author keywords

[No Author keywords available]

Indexed keywords

ARTICLE; CORONAVIRUS; EPIDEMIC; GENE SEQUENCE; GENOTYPE; GEOGRAPHY; HUMAN; IMMUNOLOGY; NONHUMAN; NUCLEOTIDE SEQUENCE; PRIORITY JOURNAL; SARS CORONAVIRUS; VIRUS ISOLATION; VIRUS MUTATION;

EID: 0037686664     PISSN: 01406736     EISSN: None     Source Type: Journal    
DOI: 10.1016/S0140-6736(03)13414-9     Document Type: Article

References (24)

1. WHO. Cumulative number of reported probable cases of severe acute respiratory syndrome (SARS). http://www.who.int/csr/sarscountry/2003_04_24/en/ (accessed April 19, 2003).
2. Drosten C, Gunther S and Preiser W, et al. Identification of a novel coronavirus in patients with severe acute respiratory syndrome. N Engl J Med 2003 (published online April 10, 10.1056/NEJMoa030781 ).
3. Ksiazek TG, Erdman D, Goldsmith CS, et al. A novel coronavirus associated with severe acute respiratory syndrome. N Engl J Med 2003; (published online April 10, DOI: 10.1056/NEJMoa030747 ).
4. Peiris J.S.M., Lai S.T., Poon L.L.M., et al. Coronavirus as a possible cause of severe acute respiratory syndrome. Lancet. 361:2003;1319-1325.
5. Kuo L., Godeke G.J., Raamsman M.J., Masters P.S., Rottier P.J. Retargeting of coronavirus by substitution of the spike glycoprotein ectodomain: crossing the host cell species barrier. J Virol. 74:2000;1393-1406.
6. Sanchez C.M., Izeta A., Sanchez-Morgado J.M., et al. Targeted recombination demonstrates that the spike gene of transmissible gastroenteritis coronavirus is a determinant of its enteric tropism and virulence. J Virol. 73:1999;7607-7618.
7. Phillips J.J., Chua M.M., Lavi E., Weiss S.R. Pathogenesis of chimeric MHV4/MHV-A59 recombinant viruses: the murine coronavirus spike protein is a major determinant of neurovirulence. J Virol. 73:1999;7752-7760.
8. Bergmann C.C., Yao Q., Lin M., Stohlman S.A. The JHM strain of mouse hepatitis virus induces a spike protein-specific Db-restricted cytotoxic T cell response. J Gen Virol. 77:1996;315-325.
9. Gomez N., Carrillo C., Salinas J., Parra F., Borca M. V., Escribano J.M. Expression of immunogenic glycoprotein S polypeptides from transmissible gastroenteritis coronavirus in transgenic plants. Virology. 249:1998;352-358.
10. Jackwood M.W., Hilt D.A. Production and immunogenicity of multiple antigenic peptide (MAP) constructs derived from the S1 glycoprotein of infectious bronchitis virus (IBV). Adv Exp Med Biol. 308:1995;213-219.
11. Ndifuna A., Waters A. K., Zhou M., Collison E.W. Recombinant nucleocapsid protein is potentially an inexpensive, effective serodiagnostic reagent for IBV. J Virol Methods. 70:1998;37-44.
12. Callenbaut P., Enjuanes L., Pensaert M. An adenovirus recombinant expression the spike glycoprotein of porcine respiratory coronavirus is immunogenic in swine. J Gen Virol. 77:1998;309-313.
13. Homberger F.R. Nucleotide sequence comparison of the membrane protein genes of three enterotropic strains of mouse hepatitis virus. Virus Res. 31:1994;49-56.
14. WHO. Severe acute respiratory syndrome (SARS). Wkly Epidemiol Rec 2003; 78: 81-88. http://www.who.int/wer/pdf/2003/wer7812.pdf (accessed April 27, 2003).
15. US CDC and WHO. Update: Outbreak of severe acute respiratory syndrome, worldwide. MMWR Morb Mortal Wkly Rep 2003; 52: 269-72. ( http://www.cdc.gov/mmwr/preview/mmwrhtml/mm5212a1.htm accessed March 28, 2003).
16. http://www.who.int/cdsdiagnostics (accessed April 5, 2003).
17. Michael Smith Genome Science Centre. http://www.bcgsc.bc.ca (accessed April 13, 2003).
18. Thompson J.D., Higgins D.G., Gibson T.J. CLUSTAL-W - Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:1994;4673-4680.
19. Gish W. WU-BLAST (1996-2003). http://blast.wustl.edu (accessed April 25, 2003).
20. Swofford D L. PAUP. Phylogenetic analysis using parsimony (and other methods). Version 4. Sunderland, Massachusetts: Sinauer Associates,. 2003.
21. Marra MA, Jones SJM, Astell CR, et al. The genome sequence of the SARS-associated coronavirus. Published online May 1, 2003: http://www.sciencemag.org/cgi/rapidpdf/1085953v1.pdf (accessed May 7, 2003).
22. Rowe C.L., Fleming J.O., Nathan M.J., Sgro J.Y., Palmenberg A.C., Baker S.C. Generation of coronavirus spike deletion variants by high-frequency recombination at regions of predicted RNA secondary structure. J Virol. 71:1997;6183-6190.
23. Lee C.W., Jackwood M.W. Origin and evolution of Georgia 98 (GA98), a new serotype of avian infectious bronchitis virus. Virus Res. 80:2001;33-39.
24. Bush R.M., Smith C.B., Cox N.J., Fitch W.M. Effects of passage history and sampling bias on phylogenetic reconstruction of human influenza A evolution. Proc Natl Acad Sci USA. 97:2000;6974-6980.