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. 1983 May 25;11(10):3351–3362. doi: 10.1093/nar/11.10.3351

Cloning and sequence of UK bovine rotavirus gene segment 7: marked sequence homology with simian rotavirus gene segment 8.

M L Dyall-Smith, T C Elleman, P A Hoyne, I H Holmes, A A Azad
PMCID: PMC325968  PMID: 6304629

Abstract

The genome of the UK bovine rotavirus, which consists of eleven segments of dsRNA was polyadenylated and reverse-transcribed into cDNA. Complementary cDNA strands were annealed and the termini of the duplexes completed using DNA polymerase I. Full-length DNA copies of RNA segments 7, 8 and 9 were cloned into the Pst I site of pBR322 and a clone containing the entire gene 7 was identified and sequenced. Gene 7 is 1059 nucleotides in length and contains a single long open reading frame capable of coding for a protein of 317 amino-acids. The known gene product of segment 7 is a protein with an estimated molecular weight of 33,000 daltons. When the UK bovine rotavirus gene 7 sequence was compared with the published data for the homologous gene (segment 8) of the simian rotavirus SA11, it was found to be identical to it in size and the arrangement of the proposed coding and non-coding regions, and very similar in nucleotide sequence (88% homology). Most of the base changes are silent and the predicted amino-acid sequences are almost identical (96% homology).

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Selected References

These references are in PubMed. This may not be the complete list of references from this article.

  1. Alwine J. C., Kemp D. J., Parker B. A., Reiser J., Renart J., Stark G. R., Wahl G. M. Detection of specific RNAs or specific fragments of DNA by fractionation in gels and transfer to diazobenzyloxymethyl paper. Methods Enzymol. 1979;68:220–242. doi: 10.1016/0076-6879(79)68017-5. [DOI] [PubMed] [Google Scholar]
  2. Arias C. F., López S., Espejo R. T. Gene protein products of SA11 simian rotavirus genome. J Virol. 1982 Jan;41(1):42–50. doi: 10.1128/jvi.41.1.42-50.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  3. Bastardo J. W., McKimm-Breschkin J. L., Sonza S., Mercer L. D., Holmes I. H. Preparation and characterization of antisera to electrophoretically purified SA11 virus polypeptides. Infect Immun. 1981 Dec;34(3):641–647. doi: 10.1128/iai.34.3.641-647.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Bentley D. L., Rabbitts T. H. Human immunoglobulin variable region genes--DNA sequences of two V kappa genes and a pseudogene. Nature. 1980 Dec 25;288(5792):730–733. doi: 10.1038/288730a0. [DOI] [PubMed] [Google Scholar]
  5. Bird A. P. DNA methylation and the frequency of CpG in animal DNA. Nucleic Acids Res. 1980 Apr 11;8(7):1499–1504. doi: 10.1093/nar/8.7.1499. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Both G. W., Bellamy A. R., Street J. E., Siegman L. J. A general strategy for cloning double-stranded RNA: nucleotide sequence of the Simian-11 rotavirus gene 8. Nucleic Acids Res. 1982 Nov 25;10(22):7075–7088. doi: 10.1093/nar/10.22.7075. [DOI] [PMC free article] [PubMed] [Google Scholar]
  7. Casadaban M. J., Cohen S. N. Analysis of gene control signals by DNA fusion and cloning in Escherichia coli. J Mol Biol. 1980 Apr;138(2):179–207. doi: 10.1016/0022-2836(80)90283-1. [DOI] [PubMed] [Google Scholar]
  8. Cohen J., Laporte J., Charpilienne A., Scherrer R. Activation of rotavirus RNA polymerase by calcium chelation. Arch Virol. 1979;60(3-4):177–186. doi: 10.1007/BF01317489. [DOI] [PubMed] [Google Scholar]
  9. Duckworth M. L., Gait M. J., Goelet P., Hong G. F., Singh M., Titmas R. C. Rapid synthesis of oligodeoxyribonucleotides VI. Efficient, mechanised synthesis of heptadecadeoxyribonucleotides by an improved solid phase phosphotriester route. Nucleic Acids Res. 1981 Apr 10;9(7):1691–1706. doi: 10.1093/nar/9.7.1691. [DOI] [PMC free article] [PubMed] [Google Scholar]
  10. Dyall-Smith M. L., Holmes I. H. Gene-coding assignments of rotavirus double-stranded RNA segments 10 and 11. J Virol. 1981 Jun;38(3):1099–1103. doi: 10.1128/jvi.38.3.1099-1103.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Emtage J. S., Tacon W. C., Catlin G. H., Jenkins B., Porter A. G., Carey N. H. Influenza antigenic determinants are expressed from haemagglutinin genes cloned in Escherichia coli. Nature. 1980 Jan 10;283(5743):171–174. doi: 10.1038/283171a0. [DOI] [PubMed] [Google Scholar]
  12. Ericson B. L., Graham D. Y., Mason B. B., Estes M. K. Identification, synthesis, and modifications of simian rotavirus SA11 polypeptides in infected cells. J Virol. 1982 Jun;42(3):825–839. doi: 10.1128/jvi.42.3.825-839.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Flewett T. H., Thouless M. E., Pilfold J. N., Bryden A. S., Candeias J. A. More serotypes of human rotavirus. Lancet. 1978 Sep 16;2(8090):632–632. doi: 10.1016/s0140-6736(78)92854-4. [DOI] [PubMed] [Google Scholar]
  14. Goldbach R. W., Borst P., Bollen-de Boer J. E., van Bruggen E. F. The organization of ribosomal RNA genes in the mitochondrial DNA of Tetrahymena pyriformis strain ST. Biochim Biophys Acta. 1978 Nov 21;521(1):169–186. doi: 10.1016/0005-2787(78)90260-5. [DOI] [PubMed] [Google Scholar]
  15. Gomatos P. J., Stamatos N. M., Sarkar N. H. Small reovirus-specific particle with polycytidylate-dependent RNA polymerase activity. J Virol. 1980 Nov;36(2):556–565. doi: 10.1128/jvi.36.2.556-565.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  16. Greenberg H. B., Wyatt R. G., Kapikian A. Z., Kalica A. R., Flores J., Jones R. Rescue and serotypic characterization of noncultivable human rotavirus by gene reassortment. Infect Immun. 1982 Jul;37(1):104–109. doi: 10.1128/iai.37.1.104-109.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  17. Grunstein M., Hogness D. S. Colony hybridization: a method for the isolation of cloned DNAs that contain a specific gene. Proc Natl Acad Sci U S A. 1975 Oct;72(10):3961–3965. doi: 10.1073/pnas.72.10.3961. [DOI] [PMC free article] [PubMed] [Google Scholar]
  18. Hell A., Young B. D., Birnie G. D. Synthesis of DNAs complementary to human ribosomal RNAs polyadenylated in vitro. Biochim Biophys Acta. 1976 Aug 2;442(1):37–49. doi: 10.1016/0005-2787(76)90173-8. [DOI] [PubMed] [Google Scholar]
  19. Holmes I. H. Viral gastroenteritis. Prog Med Virol. 1979;25:1–36. [PubMed] [Google Scholar]
  20. Imai M., Richardson M. A., Ikegami N., Shatkin A. J., Furuichi Y. Molecular cloning of double-stranded RNA virus genomes. Proc Natl Acad Sci U S A. 1983 Jan;80(2):373–377. doi: 10.1073/pnas.80.2.373. [DOI] [PMC free article] [PubMed] [Google Scholar]
  21. Ish-Horowicz D., Burke J. F. Rapid and efficient cosmid cloning. Nucleic Acids Res. 1981 Jul 10;9(13):2989–2998. doi: 10.1093/nar/9.13.2989. [DOI] [PMC free article] [PubMed] [Google Scholar]
  22. Kalica A. R., Greenberg H. B., Wyatt R. G., Flores J., Sereno M. M., Kapikian A. Z., Chanock R. M. Genes of human (strain Wa) and bovine (strain UK) rotaviruses that code for neutralization and subgroup antigens. Virology. 1981 Jul 30;112(2):385–390. doi: 10.1016/0042-6822(81)90285-3. [DOI] [PubMed] [Google Scholar]
  23. Laemmli U. K. Cleavage of structural proteins during the assembly of the head of bacteriophage T4. Nature. 1970 Aug 15;227(5259):680–685. doi: 10.1038/227680a0. [DOI] [PubMed] [Google Scholar]
  24. Li J. K., Keene J. D., Scheible P. P., Joklik W. K. Nature of the 3'-terminal sequences of the plus and minus strands of the S1 gene of reovirus serotypes 1, 2 and 3. Virology. 1980 Aug;105(1):41–51. doi: 10.1016/0042-6822(80)90154-3. [DOI] [PubMed] [Google Scholar]
  25. Mason B. B., Graham D. Y., Estes M. K. In vitro transcription and translation of simian rotavirus SA11 gene products. J Virol. 1980 Mar;33(3):1111–1121. doi: 10.1128/jvi.33.3.1111-1121.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. McCrae M. A., McCorquodale J. G. The molecular biology of rotaviruses. II. Identification of the protein-coding assignments of calf rotavirus genome RNA species. Virology. 1982 Mar;117(2):435–443. doi: 10.1016/0042-6822(82)90482-2. [DOI] [PubMed] [Google Scholar]
  27. McMaster G. K., Carmichael G. G. Analysis of single- and double-stranded nucleic acids on polyacrylamide and agarose gels by using glyoxal and acridine orange. Proc Natl Acad Sci U S A. 1977 Nov;74(11):4835–4838. doi: 10.1073/pnas.74.11.4835. [DOI] [PMC free article] [PubMed] [Google Scholar]
  28. Messing J., Crea R., Seeburg P. H. A system for shotgun DNA sequencing. Nucleic Acids Res. 1981 Jan 24;9(2):309–321. doi: 10.1093/nar/9.2.309. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Rigby P. W., Dieckmann M., Rhodes C., Berg P. Labeling deoxyribonucleic acid to high specific activity in vitro by nick translation with DNA polymerase I. J Mol Biol. 1977 Jun 15;113(1):237–251. doi: 10.1016/0022-2836(77)90052-3. [DOI] [PubMed] [Google Scholar]
  30. Robertson J. S. 5' and 3' terminal nucleotide sequences of the RNA genome segments of influenza virus. Nucleic Acids Res. 1979 Aug 24;6(12):3745–3757. doi: 10.1093/nar/6.12.3745. [DOI] [PMC free article] [PubMed] [Google Scholar]
  31. Rodger S. M., Bishop R. F., Birch C., McLean B., Holmes I. H. Molecular epidemiology of human rotaviruses in Melbourne, Australia, from 1973 to 1979, as determined by electrophoresis of genome ribonucleic acid. J Clin Microbiol. 1981 Feb;13(2):272–278. doi: 10.1128/jcm.13.2.272-278.1981. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Rodger S. M., Holmes I. H. Comparison of the genomes of simian, bovine, and human rotaviruses by gel electrophoresis and detection of genomic variation among bovine isolates. J Virol. 1979 Jun;30(3):839–846. doi: 10.1128/jvi.30.3.839-846.1979. [DOI] [PMC free article] [PubMed] [Google Scholar]
  33. Sanger F., Nicklen S., Coulson A. R. DNA sequencing with chain-terminating inhibitors. Proc Natl Acad Sci U S A. 1977 Dec;74(12):5463–5467. doi: 10.1073/pnas.74.12.5463. [DOI] [PMC free article] [PubMed] [Google Scholar]
  34. Scholtissek C. The genome of the influenza virus. Curr Top Microbiol Immunol. 1978;80:139–169. doi: 10.1007/978-3-642-66956-9_5. [DOI] [PubMed] [Google Scholar]
  35. Schroeder B. A., Street J. E., Kalmakoff J., Bellamy A. R. Sequence relationships between the genome segments of human and animal rotavirus strains. J Virol. 1982 Aug;43(2):379–385. doi: 10.1128/jvi.43.2.379-385.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Seed B. Diazotizable arylamine cellulose papers for the coupling and hybridization of nucleic acids. Nucleic Acids Res. 1982 Mar 11;10(5):1799–1810. doi: 10.1093/nar/10.5.1799. [DOI] [PMC free article] [PubMed] [Google Scholar]
  37. Sippel A. E. Purification and characterization of adenosine triphosphate: ribonucleic acid adenyltransferase from Escherichia coli. Eur J Biochem. 1973 Aug 1;37(1):31–40. doi: 10.1111/j.1432-1033.1973.tb02953.x. [DOI] [PubMed] [Google Scholar]
  38. Skehel J. J., Hay A. J. Nucleotide sequences at the 5' termini of influenza virus RNAs and their transcripts. Nucleic Acids Res. 1978 Apr;5(4):1207–1219. doi: 10.1093/nar/5.4.1207. [DOI] [PMC free article] [PubMed] [Google Scholar]
  39. Smith M. L., Lazdins I., Holmes I. H. Coding assignments of double-stranded RNA segments of SA 11 rotavirus established by in vitro translation. J Virol. 1980 Mar;33(3):976–982. doi: 10.1128/jvi.33.3.976-982.1980. [DOI] [PMC free article] [PubMed] [Google Scholar]
  40. Street J. E., Croxson M. C., Chadderton W. F., Bellamy A. R. Sequence diversity of human rotavirus strains investigated by northern blot hybridization analysis. J Virol. 1982 Aug;43(2):369–378. doi: 10.1128/jvi.43.2.369-378.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  41. Thouless M. E. Rotavirus polypeptides. J Gen Virol. 1979 Jul;44(1):187–197. doi: 10.1099/0022-1317-44-1-187. [DOI] [PubMed] [Google Scholar]
  42. Winter G., Fields S. Cloning of influenza cDNA ino M13: the sequence of the RNA segment encoding the A/PR/8/34 matrix protein. Nucleic Acids Res. 1980 May 10;8(9):1965–1974. doi: 10.1093/nar/8.9.1965. [DOI] [PMC free article] [PubMed] [Google Scholar]
  43. Winter G., Fields S., Gait M. J., Brownlee G. G. The use of synthetic oligodeoxynucleotide primers in cloning and sequencing segment of 8 influenza virus (A/PR/8/34). Nucleic Acids Res. 1981 Jan 24;9(2):237–245. doi: 10.1093/nar/9.2.237. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Woode G. N., Bridger J. C., Hall G., Dennis M. J. The isolation of a reovirus-like agent associated with diarrhoea in colostrum-deprived calves in Great Britain. Res Vet Sci. 1974 Jan;16(1):102–105. [PubMed] [Google Scholar]
  45. Wyatt R. G., Greenberg H. B., James W. D., Pittman A. L., Kalica A. R., Flores J., Chanock R. M., Kapikian A. Z. Definition of human rotavirus serotypes by plaque reduction assay. Infect Immun. 1982 Jul;37(1):110–115. doi: 10.1128/iai.37.1.110-115.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]

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