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. 1983 Mar 11;11(5):1555–1566. doi: 10.1093/nar/11.5.1555

The sequence of RNA segment 1 of influenza virus A/NT/60/68 and its comparison with the corresponding segment of strains A/PR/8/34 and A/WSN/33.

K L Jones, J A Huddleston, G G Brownlee
PMCID: PMC325815  PMID: 6828387

Abstract

The complete nucleotide sequence of RNA segment 1 of influenza virus A/NT/60/68, corresponding to the PB2 protein, has been determined. It is 2341 nucleotides long, encoding a predicted product of 759 amino acids with a net charge of +27 1/2 at neutral pH. The predicted amino acid sequence has been compared to the equivalent sequences in influenza viruses A/PR/8/34 and A/WSN/33. Evolutionary divergence, assuming a direct lineage from A/PR/8/34 and allowing for "laboratory drift", is 0.08% per year. The alignment of RNA segment 10 of A/NT/60/68 with segments 1 and 3 is completed, confirming that it is a mosaic of regions from these two segments.

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Selected References

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

  1. Allen H., McCauley J., Waterfield M., Gething M. J. Influenza virus RNA segment 7 has the coding capacity for two polypeptides. Virology. 1980 Dec;107(2):548–551. doi: 10.1016/0042-6822(80)90324-4. [DOI] [PubMed] [Google Scholar]
  2. Almond J. W., Barry R. D. Genetic recombination between two strains of fowl plague virus: construction of genetic maps. Virology. 1979 Jan 30;92(2):407–415. doi: 10.1016/0042-6822(79)90145-4. [DOI] [PubMed] [Google Scholar]
  3. Baez M., Taussig R., Zazra J. J., Young J. F., Palese P., Reisfeld A., Skalka A. M. Complete nucleotide sequence of the influenza A/PR/8/34 virus NS gene and comparison with the NS genes of the A/Udorn/72 and A/FPV/Rostock/34 strains. Nucleic Acids Res. 1980 Dec 11;8(23):5845–5858. doi: 10.1093/nar/8.23.5845. [DOI] [PMC free article] [PubMed] [Google Scholar]
  4. Bennink J. R., Yewdell J. W., Gerhard W. A viral polymerase involved in recognition of influenza virus-infected cells by a cytotoxic T-cell clone. Nature. 1982 Mar 4;296(5852):75–76. doi: 10.1038/296075a0. [DOI] [PubMed] [Google Scholar]
  5. Bentley D. R., Brownlee G. G. Sequence of the N2 neuraminidase from influenza virus A/NT/60/68. Nucleic Acids Res. 1982 Aug 25;10(16):5033–5042. doi: 10.1093/nar/10.16.5033. [DOI] [PMC free article] [PubMed] [Google Scholar]
  6. Benton W. D., Davis R. W. Screening lambdagt recombinant clones by hybridization to single plaques in situ. Science. 1977 Apr 8;196(4286):180–182. doi: 10.1126/science.322279. [DOI] [PubMed] [Google Scholar]
  7. Bishop D. H., Huddleston J. A., Brownlee G. G. The complete sequence of RNA segment 2 of influenza A/NT/60/68 P1 protein. Nucleic Acids Res. 1982 Feb 25;10(4):1335–1343. doi: 10.1093/nar/10.4.1335. [DOI] [PMC free article] [PubMed] [Google Scholar]
  8. Bishop D. H., Jones K. L., Huddleston J. A., Brownlee G. G. Influenza A virus evolution: complete sequences of influenza A/NT/60/68 RNA segment 3 and its predicted acidic P polypeptide compared with those of influenza A/PR/8/34. Virology. 1982 Jul 30;120(2):481–489. doi: 10.1016/0042-6822(82)90049-6. [DOI] [PubMed] [Google Scholar]
  9. Blaas D., Patzelt E., Kuechler E. Cap-recognizing protein of influenza virus. Virology. 1982 Jan 15;116(1):339–348. doi: 10.1016/0042-6822(82)90425-1. [DOI] [PubMed] [Google Scholar]
  10. Both G. W., Sleigh M. J. Complete nucleotide sequence of the haemagglutinin gene from a human influenza virus of the Hong Kong subtype. Nucleic Acids Res. 1980 Jun 25;8(12):2561–2575. doi: 10.1093/nar/8.12.2561. [DOI] [PMC free article] [PubMed] [Google Scholar]
  11. Caton A. J., Robertson J. S. Structure of the host-derived sequences present at the 5' ends of influenza virus mRNA. Nucleic Acids Res. 1980 Jun 25;8(12):2591–2603. doi: 10.1093/nar/8.12.2591. [DOI] [PMC free article] [PubMed] [Google Scholar]
  12. Davis A. R., Nayak D. P., Ueda M., Hiti A. L., Dowbenko D., Kleid D. G. Expression of antigenic determinants of the hemagglutinin gene of a human influenza virus in Escherichia coli. Proc Natl Acad Sci U S A. 1981 Sep;78(9):5376–5380. doi: 10.1073/pnas.78.9.5376. [DOI] [PMC free article] [PubMed] [Google Scholar]
  13. Dhar R., Chanock R. M., Lai C. J. Nonviral oligonucleotides at the 5' terminus of cytoplasmic influenza viral mRNA deduced from cloned complete genomic sequences. Cell. 1980 Sep;21(2):495–500. doi: 10.1016/0092-8674(80)90486-9. [DOI] [PubMed] [Google Scholar]
  14. 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]
  15. Duesberg P. H. Distinct subunits of the ribonucleoprotein of influenza virus. J Mol Biol. 1969 Jun 28;42(3):485–499. doi: 10.1016/0022-2836(69)90237-x. [DOI] [PubMed] [Google Scholar]
  16. Efstratiadis A., Maniatis T., Kafatos F. C., Jeffrey A., Vournakis J. N. Full length and discrete partial reverse transcripts of globin and chorion mRNAs. Cell. 1975 Apr;4(4):367–378. doi: 10.1016/0092-8674(75)90157-9. [DOI] [PubMed] [Google Scholar]
  17. Fields S., Winter G., Brownlee G. G. Structure of the neuraminidase gene in human influenza virus A/PR/8/34. Nature. 1981 Mar 19;290(5803):213–217. doi: 10.1038/290213a0. [DOI] [PubMed] [Google Scholar]
  18. Fields S., Winter G. Nucleotide sequences of influenza virus segments 1 and 3 reveal mosaic structure of a small viral RNA segment. Cell. 1982 Feb;28(2):303–313. doi: 10.1016/0092-8674(82)90348-8. [DOI] [PubMed] [Google Scholar]
  19. Fuhrman S. A., Deininger P. L., LaPorte P., Friedmann T., Geiduschek E. P. Analysis of transcription of the human Alu family ubiquitous repeating element by eukaryotic RNA polymerase III. Nucleic Acids Res. 1981 Dec 11;9(23):6439–6456. doi: 10.1093/nar/9.23.6439. [DOI] [PMC free article] [PubMed] [Google Scholar]
  20. Gething M. J., Sambrook J. Cell-surface expression of influenza haemagglutinin from a cloned DNA copy of the RNA gene. Nature. 1981 Oct 22;293(5834):620–625. doi: 10.1038/293620a0. [DOI] [PubMed] [Google Scholar]
  21. 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]
  22. Hartman J. R., Nayak D. P., Fareed G. C. Human influenza virus hemagglutinin is expressed in monkey cells using simian virus 40 vectors. Proc Natl Acad Sci U S A. 1982 Jan;79(2):233–237. doi: 10.1073/pnas.79.2.233. [DOI] [PMC free article] [PubMed] [Google Scholar]
  23. Heiland I., Gething M. J. Cloned copy of the haemagglutinin gene codes for human influenza antigenic determinants in E. coli. Nature. 1981 Aug 27;292(5826):851–852. doi: 10.1038/292851a0. [DOI] [PubMed] [Google Scholar]
  24. Horisberger M. A. The large P proteins of influenza A viruses are composed of one acidic and two basic polypeptides. Virology. 1980 Nov;107(1):302–305. doi: 10.1016/0042-6822(80)90296-2. [DOI] [PubMed] [Google Scholar]
  25. Huddleston J. A., Brownlee G. G. The sequence of the nucleoprotein gene of human influenza A virus, strain A/NT/60/68. Nucleic Acids Res. 1982 Feb 11;10(3):1029–1038. doi: 10.1093/nar/10.3.1029. [DOI] [PMC free article] [PubMed] [Google Scholar]
  26. Inglis S. C., Carroll A. R., Lamb R. A., Mahy B. W. Polypeptides specified by the influenza virus genome I. Evidence for eight distinct gene products specified by fowl plague virus. Virology. 1976 Oct 15;74(2):489–503. doi: 10.1016/0042-6822(76)90355-x. [DOI] [PubMed] [Google Scholar]
  27. Inglis S. C., Carroll A. R., Lamb R. A., Mahy B. W. Polypeptides specified by the influenza virus genome I. Evidence for eight distinct gene products specified by fowl plague virus. Virology. 1976 Oct 15;74(2):489–503. doi: 10.1016/0042-6822(76)90355-x. [DOI] [PubMed] [Google Scholar]
  28. Kaptein J. S., Nayak D. P. Complete nucleotide sequence of the polymerase 3 gene of human influenza virus A/WSN/33. J Virol. 1982 Apr;42(1):55–63. doi: 10.1128/jvi.42.1.55-63.1982. [DOI] [PMC free article] [PubMed] [Google Scholar]
  29. Krug R. M., Broni B. A., Bouloy M. Are the 5' ends of influenza viral mRNAs synthesized in vivo donated by host mRNAs? Cell. 1979 Oct;18(2):329–334. doi: 10.1016/0092-8674(79)90052-7. [DOI] [PubMed] [Google Scholar]
  30. Krug R. M. Priming of influenza viral RNA transcription by capped heterologous RNAs. Curr Top Microbiol Immunol. 1981;93:125–149. doi: 10.1007/978-3-642-68123-3_6. [DOI] [PubMed] [Google Scholar]
  31. Lamb R. A., Lai C. J., Choppin P. W. Sequences of mRNAs derived from genome RNA segment 7 of influenza virus: colinear and interrupted mRNAs code for overlapping proteins. Proc Natl Acad Sci U S A. 1981 Jul;78(7):4170–4174. doi: 10.1073/pnas.78.7.4170. [DOI] [PMC free article] [PubMed] [Google Scholar]
  32. Lamb R. A., Lai C. J. Sequence of interrupted and uninterrupted mRNAs and cloned DNA coding for the two overlapping nonstructural proteins of influenza virus. Cell. 1980 Sep;21(2):475–485. doi: 10.1016/0092-8674(80)90484-5. [DOI] [PubMed] [Google Scholar]
  33. Maxam A. M., Gilbert W. Sequencing end-labeled DNA with base-specific chemical cleavages. Methods Enzymol. 1980;65(1):499–560. doi: 10.1016/s0076-6879(80)65059-9. [DOI] [PubMed] [Google Scholar]
  34. 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]
  35. Moss B. A., Brownlee G. G. Sequence of DNA complementary to a small RNA segment of influenza virus A/NT/60/68. Nucleic Acids Res. 1981 Apr 24;9(8):1941–1947. doi: 10.1093/nar/9.8.1941. [DOI] [PMC free article] [PubMed] [Google Scholar]
  36. Nichol S. T., Penn C. R., Mahy B. W. Evidence for the involvement of influenza A (fowl plague Rostock) virus protein P2 in ApG and mRNA primed in vitro RNA synthesis. J Gen Virol. 1981 Dec;57(Pt 2):407–413. doi: 10.1099/0022-1317-57-2-407. [DOI] [PubMed] [Google Scholar]
  37. Palese P. The genes of influenza virus. Cell. 1977 Jan;10(1):1–10. doi: 10.1016/0092-8674(77)90133-7. [DOI] [PubMed] [Google Scholar]
  38. Penn C. R., Blaas D., Kuechler E., Mahy B. W. Identification of the cap-binding protein of two strains of influenza A/FPV. J Gen Virol. 1982 Sep;62(Pt 1):177–180. doi: 10.1099/0022-1317-62-1-177. [DOI] [PubMed] [Google Scholar]
  39. Plotch S. J., Bouloy M., Ulmanen I., Krug R. M. A unique cap(m7GpppXm)-dependent influenza virion endonuclease cleaves capped RNAs to generate the primers that initiate viral RNA transcription. Cell. 1981 Mar;23(3):847–858. doi: 10.1016/0092-8674(81)90449-9. [DOI] [PubMed] [Google Scholar]
  40. Radloff R., Bauer W., Vinograd J. A dye-buoyant-density method for the detection and isolation of closed circular duplex DNA: the closed circular DNA in HeLa cells. Proc Natl Acad Sci U S A. 1967 May;57(5):1514–1521. doi: 10.1073/pnas.57.5.1514. [DOI] [PMC free article] [PubMed] [Google Scholar]
  41. Rochovansky O. M. RNA synthesis by ribonucleoprotein-polymerase complexes isolated from influenza virus. Virology. 1976 Sep;73(2):327–338. doi: 10.1016/0042-6822(76)90394-9. [DOI] [PubMed] [Google Scholar]
  42. 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]
  43. Sonenberg N., Morgan M. A., Merrick W. C., Shatkin A. J. A polypeptide in eukaryotic initiation factors that crosslinks specifically to the 5'-terminal cap in mRNA. Proc Natl Acad Sci U S A. 1978 Oct;75(10):4843–4847. doi: 10.1073/pnas.75.10.4843. [DOI] [PMC free article] [PubMed] [Google Scholar]
  44. Sonenberg N., Rupprecht K. M., Hecht S. M., Shatkin A. J. Eukaryotic mRNA cap binding protein: purification by affinity chromatography on sepharose-coupled m7GDP. Proc Natl Acad Sci U S A. 1979 Sep;76(9):4345–4349. doi: 10.1073/pnas.76.9.4345. [DOI] [PMC free article] [PubMed] [Google Scholar]
  45. Staden R. Automation of the computer handling of gel reading data produced by the shotgun method of DNA sequencing. Nucleic Acids Res. 1982 Aug 11;10(15):4731–4751. doi: 10.1093/nar/10.15.4731. [DOI] [PMC free article] [PubMed] [Google Scholar]
  46. Tyrrell D. A., Smith J. W. Vaccination against influenza A. Br Med Bull. 1979 Jan;35(1):77–85. doi: 10.1093/oxfordjournals.bmb.a071546. [DOI] [PubMed] [Google Scholar]
  47. Ulmanen I., Broni B. A., Krug R. M. Role of two of the influenza virus core P proteins in recognizing cap 1 structures (m7GpppNm) on RNAs and in initiating viral RNA transcription. Proc Natl Acad Sci U S A. 1981 Dec;78(12):7355–7359. doi: 10.1073/pnas.78.12.7355. [DOI] [PMC free article] [PubMed] [Google Scholar]
  48. Winter G., Fields S., Brownlee G. G. Nucleotide sequence of the haemagglutinin gene of a human influenza virus H1 subtype. Nature. 1981 Jul 2;292(5818):72–75. doi: 10.1038/292072a0. [DOI] [PubMed] [Google Scholar]
  49. 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]
  50. Winter G., Fields S. Nucleotide sequence of human influenza A/PR/8/34 segment 2. Nucleic Acids Res. 1982 Mar 25;10(6):2135–2143. doi: 10.1093/nar/10.6.2135. [DOI] [PMC free article] [PubMed] [Google Scholar]
  51. Winter G., Fields S. The structure of the gene encoding the nucleoprotein of human influenza virus A/PR/8/34. Virology. 1981 Oct 30;114(2):423–428. doi: 10.1016/0042-6822(81)90223-3. [DOI] [PubMed] [Google Scholar]

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