Cloning and sequencing of a 8.4-kb region from the 3′-end of a Taiwanese virulent isolate of the coronavirus transmissible gastroenteritis virus (original) (raw)

Abstract

The nucleotide sequence (8396 nucleotides) was determined, from the 3′-end of the putative polymerase gene to the poly(A) tail, for a Taiwanese virulent isolate, TFI, of transmissible gastroenteritis virus (TGEV). The TFI nucleotide sequence had very high identity to the British virulent field isolate FS772/70 (98.3%), the attenuated Purdue 115 (96.7%) and from the S gene to ORF-4 gene region, to the low passaged virulent Miller (98.3%) strains of TGEV. Comparison of the TFI S protein sequence with those determined from other TGEV strains and those of the TGEV variant, porcine respiratory coronavirus, isolated from Europe and North America showed that they had changed very little over a period of 4 decades. The two extra amino acids found to be present in the spike proteins of the virulent FS772/70 and Miller strains when compared to the avirulent Purdue strain were found to be present in the TFI strain. The genomic organisation of the TFI strain was the same as that of the other TGEV viruses.

Keywords: Transmissible gastroenteritis virus (TGEV), Coronavirus, Porcine, Swine

References

  1. Britton P., Page K.W. Sequence of the S gene from a virulent British field isolate of transmissible gastroenteritis virus. Virus Res. 1990;18:71–80. doi: 10.1016/0168-1702(90)90090-X. [DOI] [PMC free article] [PubMed] [Google Scholar]
  2. Britton P., Mawditt K.L., Page K.W. The cloning and sequencing of the virion protein genes from a British isolate of porcine respiratory coronavirus: comparison with transmissible gastroenteritis virus genes. Virus Res. 1991;21:181–198. doi: 10.1016/0168-1702(91)90032-Q. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Britton P., Kottier S., Chen C.-M., Pocock D.H., Salmon H., Aynaud J.M. The use of PCR genome mapping for the characterisation of TGEV strains. In: Laude H., Vautherot J.F., editors. Coronaviruses: Molecular Biology and Virus-Host Interactions. Vol. 342. Plenum Press; New York: 1993. pp. 29–34. (Adv. Exp. Med. Biol.). [DOI] [PubMed] [Google Scholar]
  4. Chen C.M., Tien S.C., Wu J.L., Chu R.M. The phenotype of Taiwan field isolated transmissible gastroenteritis virus (TGEV) is different from the other TGEV. J. Chin. Soc. Vet. Sci. 1989;15:11–18. [Google Scholar]
  5. Correa I., Gebauer F., Bullido M.J., Sune C., Baay M.F.D., Zwaagstra K.A., Posthumus W.P.A., Lenstra J.A., Enjuanes L. Localisation of antigenic sites of the E2 glycoprotein of transmissible gastroenteritis virus. J. Gen. Virol. 1990;71:271–279. doi: 10.1099/0022-1317-71-2-271. [DOI] [PubMed] [Google Scholar]
  6. Delmas B., Rasschaert D., Godet M., Gelfi J., Laude H. Four Major Antigenic Sites of the Coronavirus Transmissible Gastroenteritis Virus Are Located on the Amino-Terminal Half of Spike Glycoprotein S. J. Gen. Virol. 1990;71:1313–1323. doi: 10.1099/0022-1317-71-6-1313. [DOI] [PubMed] [Google Scholar]
  7. Devereux J., Haeberli P., Smithies O. A comprehensive set of sequence analysis programs for the VAX. Nucleic Acids Res. 1984;12:387–395. doi: 10.1093/nar/12.1part1.387. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Eck R.V., Dayhoff M.O. National Biomedical Research Foundation; Maryland, Silver Spring: 1966. Atlas of Protein Sequence and Structure 1966. [Google Scholar]
  9. Felsenstein J. Phylogenies from molecular sequences: inferences and reliability. Am. Rev. Genet. 1988;22:512–565. doi: 10.1146/annurev.ge.22.120188.002513. [DOI] [PubMed] [Google Scholar]
  10. Fitch W.M., Margoliash E. Construction of phylogenetic trees. Science. 1967;155:279–284. doi: 10.1126/science.155.3760.279. [DOI] [PubMed] [Google Scholar]
  11. Higgins D.G., Sharp P.M. CLUSTAL: a package for performing multiple sequence alignment on a microcomputer. Gene. 1988;73:237–244. doi: 10.1016/0378-1119(88)90330-7. [DOI] [PubMed] [Google Scholar]
  12. Page K.W., Mawditt K.L., Britton P. Sequence comparison of the 5′ end of mRNA 3 from transmissible gastroenteritis virus and porcine respiratory coronavirus. J. Gen. Virol. 1991;72:579–587. doi: 10.1099/0022-1317-72-3-579. [DOI] [PubMed] [Google Scholar]
  13. Posthumus W.P.A., Lenstra J.A., Schaaper W.M.M., van Nieuwstadt A.P., Enjuanes L., Meloen R.H. Analysis and simulation of a neutralising epitope of transmissible gastroenteritis virus. J. Virol. 1990;64:3304–3309. doi: 10.1128/jvi.64.7.3304-3309.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  14. Rasschaert D., Laude H. The predicted primary structure of the peplomer protein E2 of the porcine coronavirus transmissible gastroenteritis virus. J. Gen. Virol. 1987;68:1883–1890. doi: 10.1099/0022-1317-68-7-1883. [DOI] [PubMed] [Google Scholar]
  15. Rasschaert D., Duarte M., Laude H. Porcine respiratory coronavirus differs from transmissible gastroenteritis virus by a few genomic deletions. J. Gen. Virol. 1990;71:2599–2607. doi: 10.1099/0022-1317-71-11-2599. [DOI] [PubMed] [Google Scholar]
  16. Sánchez C.M., Gebauer F., Suñé C., Mendez A., Dopazo J., Enjuanes L. Genetic evolution and tropism of transmissible gastroenteritis coronavirus. Virology. 1992;190:92–105. doi: 10.1016/0042-6822(92)91195-Z. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Staden R. Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing. Nucleic Acids Res. 1982;10:4731–4751. doi: 10.1093/nar/10.15.4731. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Wang L., Junker D., Hock L., Ebiary E., Collisson E.W. Evolutionary implications of genetic variations in the S1 gene of infectious bronchitis virus. Virus Res. 1994;34:327–338. doi: 10.1016/0168-1702(94)90132-5. [DOI] [PMC free article] [PubMed] [Google Scholar]
  19. Wesley R.D. Nucleotide sequence of the E2-peplomer protein gene and partial nucleotide sequence of the upstream polymerase gene of transmissible gastroenteritis virus (Miller strain) In: Cavanagh D., Brown T.D.K., editors. Coronaviruses and their Diseases. Vol. 276. Plenum Press; New York: 1990. pp. 301–306. (Adv. Exp. Med. Biol). [DOI] [PubMed] [Google Scholar]
  20. Wesley R.D., Woods R.D., Cheung A.K. Genetic-basis for the pathogenesis of transmissible gastroenteritis virus. J. Virol. 1990;64:4761–4766. doi: 10.1128/jvi.64.10.4761-4766.1990. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Wesley R.D., Woods R.D., Cheung A.K. Genetic analysis of porcine respiratory coronavirus, an attenuated variant of transmissible gastroenteritis virus. J. Virol. 1991;65:3369–3373. doi: 10.1128/jvi.65.6.3369-3373.1991. [DOI] [PMC free article] [PubMed] [Google Scholar]