Nucleotide and predicted amino acid sequence-based analysis of the avian metapneumovirus type C cell attachment glycoprotein gene: Phylogenetic analysis and molecular epidemiology of U.S. pneumoviruses

Journal of Clinical Microbiology

Volumn 41, Issue 4, 2003, Pages 1730-1735

  Alvarez, Rene ^a   Lwamba, Humphrey M ^b   Kapczynski, Darrell R ^a   Njenga, M Kariuki ^b   Seal, Bruce S ^a  

^a AGRICULTURAL RESEARCH SERVICE   (United States)

^b UNIVERSITY OF MINNESOTA   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

CELL ATTACHMENT GLYCOPROTEIN; COMPLEMENTARY DNA; UNCLASSIFIED DRUG; VIRUS GLYCOPROTEIN; VIRUS PROTEIN; VIRUS RNA;

AMINO ACID SEQUENCE; ARTICLE; AVIAN PNEUMOVIRUS; METAPNEUMOVIRUS; NONHUMAN; NUCLEOTIDE SEQUENCE; OPEN READING FRAME; PHYLOGENY; PNEUMOVIRINAE; PRIORITY JOURNAL; RHINITIS; SEROTYPE; TRACHEITIS; UNITED STATES; VIRUS CELL INTERACTION; VIRUS CLASSIFICATION; VIRUS GENE; VIRUS INFECTION;

AMINO ACID SEQUENCE; ANIMALS; BASE SEQUENCE; CERCOPITHECUS AETHIOPS; EPIDEMIOLOGY, MOLECULAR; HUMANS; METAPNEUMOVIRUS; MOLECULAR SEQUENCE DATA; PARAMYXOVIRIDAE INFECTIONS; PHYLOGENY; PNEUMOVIRINAE; POULTRY DISEASES; TURKEYS; UNITED STATES; VERO CELLS; VIRAL ENVELOPE PROTEINS;

AVES; AVIAN METAPNEUMOVIRUS TYPE C; HUMAN METAPNEUMOVIRUS; HUMAN RESPIRATORY SYNCYTIAL VIRUS; METAPNEUMOVIRUS; MOROCCAN PEPPER VIRUS; PNEUMOVIRINAE; RESPIRATORY SYNCYTIAL VIRUS; RNA VIRUSES;

EID: 12444303198     PISSN: 00951137     EISSN: None     Source Type: Journal    
DOI: 10.1128/JCM.41.4.1730-1735.2003     Document Type: Article

References (48)

1. Alexander, D. J. 1997. Newcastle disease and other Paramyxoviridae infections, p. 541-569. In B. W. Calnek, H. J. Barnes, C. W. Beard, L. McDougald, and Y. M. Saif, Jr. (ed.), Diseases of poultry, 10th ed. Iowa State University, Ames, Iowa.
2. Altschul, S. F., T. L. Madden, A. A. Schaffer, J. Zhang, Z. Zhang, W. Miller, and D. J. Lipman. 1997. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 25:3389-3402.
3. Barnes, W. M. 1994. PCR amplification of up to 35-kb DNA with high fidelity and high yield from lambda bacteriophage templates. Proc. Natl. Acad. Sci. USA 91:2216-2220.
4. Bayon-Auboyer, M. H., C. Arnauld, D. Toquin, and N. Eterradossi. 2000. Nucleotide sequences of the F, L and G protein genes of two non-A/non-B avian pneumoviruses (APV) reveal a novel APV subgroup. J. Gen. Virol. 81:2723-2733.
5. Beck, A., N. Zorn, M. C. Bussat, J. F. Haeuw, N. Corvaia, T. N. Nguyen, A. Van Dorsselaer, and J. Y. Bonnefoy. 2000. Synthesis and characterization of respiratory syncytial virus protein G related peptides containing two disulphide bridges. Dev. Biol. 103:231-236.
6. Bush, R. M., W. M. Fitch, C. A. Bender, and N. J. Cox. 1999. Positive selection on the H3 hemagglutinin gene of human influenza virus A. Mol. Biol. Evol. 16:1457-1465.
7. Cane, P. A., and C. R. Pringle. 1995. Evolution of subgroup A respiratory syncytial virus: evidence for progressive accumulation of amino acid changes in the attachment protein. J. Virol. 69:2918-2925.
8. Cavanagh, D., and T. Barrett. 1988. Pneumovirus-like characteristics of the mRNA and proteins of turkey rhinotracheitis virus. Virus Res. 11:241-256.
9. Collins, M. S., R. E. Gough, and D. J. Alexander. 1993. Antigenic differentiation of avian pneumovirus isolates using polyclonal antisera and mouse monoclonal antibodies. Avian Pathol. 22:469-479.
10. Collins, M. S., R. E. Gough, S. A. Lister, N. Chettle, and R. Eddy. 1986. Further characterisation of a virus associated with turkey rhinotracheitis. Vet. Rec. 119:606.
11. Collins, P. L., K. McIntosh, and R. M. Chanock. 1996. Respiratory syncytial virus, p. 1313-1351. In B. N. Fields, D. M. Knipe, and P. M. Howley (ed.), Fields virology, 3rd ed. Lippincott-Raven, Philadelphia, Pa.
12. Cook, J. K. 2000. Avian pneumovirus infections of turkeys and chickens. Vet. J. 160:118-125.
13. Cook, J. K., M. B. Huggins, S. J. Orbell, and D. A. Senne. 1999. Preliminary antigenic characterization of an avian pneumovirus isolated from commercial turkeys in Colorado, USA. Avian Pathol. 28:607-617.
14. Cook, J. K., B. V. Jones, M. M. Ellis, L. Ling, and D. Cavanagh. 1993. Antigenic differentiation of strains of turkey rhinotracheitis virus using monoclonal antibodies. Avian Pathol. 22:257-273.
15. Dar, A. M., S. Munir, S. M. Goyal, M. S. Abrahamsen, and V. Kapur. 2001. Sequence analysis of the nucleocapsid and phosphoprotein genes of avian pneumoviruses circulating in the US. Virus Res. 79:15-25.
16. Feldman, S. A., R. M. Hendry, and J. A. Beeler. 1999. Identification of a linear heparin binding domain for human respiratory syncytial virus attachment glycoprotein G. J. Virol. 73:6610-6617.
17. Garcia, O., M. Martin, J. Dopazo, J. Arbiza, S. Frabasile, J. Russi, M. Hortal, P. Perez-Brena, I. Martinez, B. Garcia-Barreno, et al. 1994. Evolutionary pattern of human respiratory syncytial virus (subgroup A): cocirculating lineages and correlation of genetic and antigenic changes in the G glycoprotein. J. Virol. 68:5448-5459.
18. Hedges, S. B. 1992. The number of replications needed for accurate estimation of the bootstrap P value in phylogenetic studies. Mol. Biol. Evol. 9:366-369.
19. Howe, M. 2002. Australian find suggests worldwide reach for metapneumovirus. Lancet Infect. Dis. 2:202.
20. Ina, Y. 1996. Pattern of synonymous and nonsynonymous substitutions: an indicator of mechanisms of molecular evolution. J. Genet. 75:91-115.
21. Johnson, P. R., M. K. Spriggs, R. A. Olmsted, and P. L. Collins. 1987. The G glycoprotein of human respiratory syncytial viruses of subgroups A and B: extensive sequence divergence between antigenically related proteins. Proc. Natl. Acad. Sci. USA 84:5625-5629.
22. Jones, L. P., H. Q. Zheng, R. A. Karron, T. C. Peret, C. Tsou, and L. J. Anderson. 2002. Multiplex assay for detection of strain-specific antibodies against the two variable regions of the G protein of respiratory syncytial virus. Clin. Diagn. Lab. Immunol. 9:633-638.
23. Jones, R. C. 1996. Avian pneumovirus infection: questions still unanswered. Avian Pathol. 25:639-648.
24. Juhasz, K., and A. J. Easton. 1994. Extensive sequence variation in the attachment (G) protein gene of avian pneumovirus: evidence for two distinct subgroups. J. Gen. Virol. 75:2873-2880.
25. Kumar, S., K. Tamura, and M. Nei. 1993. MEGA: molecular evolutionary genetics analysis, version 1.01. The Pennsylvania State University, University Park, Pa.
26. Langedijk, J. P., A. H. Brandenburg, W. G. Middel, A. Osterhaus, R. H. Meloen, and J. T. van Oirschot. 1997. A subtype-specific peptide-based enzyme immunoassay for detection of antibodies to the G protein of human respiratory syncytial virus is more sensitive than routine serological tests. J. Clin. Microbiol. 35:1656-1660.
27. Langedijk, J. P., W. M. Schaaper, R. H. Meloen, and J. T. van Oirschot. 1996. Proposed three-dimensional model for the attachment protein G of respiratory syncytial virus. J. Gen. Virol. 77:1249-1257.
28. Li, J., R. Ling, J. S. Randhawa, K. Shaw, P. J. Davis, K. Juhasz, C. R. Pringle, A. J. Easton, and D. Cavanagh. 1996. Sequence of the nucleocapsid protein gene of subgroup A and B avian pneumoviruses. Virus Res. 41:185-191.
29. Ling, R., A. J. Easton, and C. R. Pringle. 1992. Sequence analysis of the 22K, SH and G genes of turkey rhinotracheitis virus and their intergenic regions reveals a gene order different from that of other pneumoviruses. J. Gen. Virol. 73:1709-1715.
30. Ling, R., and C. R. Pringle. 1988. Turkey rhinotracheitis virus: in vivo and in vitro polypeptide synthesis. J. Gen. Virol. 69:917-923.
31. Mead, D. A., N. K. Pey, C. Herrnstadt, R. A. Marcil, and L. M. Smith. 1991. A universal method for the direct cloning of PCR amplified nucleic acid. Bio/Technology 9:657-663.
32. Myers, T. W., and D. H. Gelfand. 1991. Reverse transcription and DNA amplification by a Thermus thermophilus DNA polymerase. Biochemistry 30:7661-7666.
33. Nei, M., and T. Gojobori. 1986. Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol. Biol. Evol. 3:418-426.
34. Nissen, M. D., D. J. Siebert, I. M. Mackay, T. P. Sloots, and S. J. Withers. 2002. Evidence of human metapneumovirus in Australian children. Med. J. Aust. 176:188.
35. Peret, T. C., G. Boivin, Y. Li, M. Couillard, C. Humphrey, A. D. Osterhaus, D. D. Erdman, and L. J. Anderson. 2002. Characterization of human metapneumoviruses isolated from patients in North America. J. Infect. Dis. 185: 1660-1663.
36. Pringle, C. R. 1998. Virus taxonomy-San Diego 1998. Arch. Virol. 143:1449-1459.
37. Randhawa, J. S., A. C. Marriott, C. R. Pringle, and A. J. Easton. 1997. Rescue of synthetic minireplicons establishes the absence of the NS1 and NS2 genes from avian pneumovirus. J. Virol. 71:9849-9854.
38. Randhawa, J. S., S. D. Wilson, K. P. Tolley, D. Cavanagh, C. R. Pringle, and A. J. Easton. 1996. Nucleotide sequence of the gene encoding the viral polymerase of avian pneumovirus. J. Gen. Virol. 77:3047-3051.
39. Seal, B. S. 2000. Avian pneumoviruses and emergence of a new type in the United States of America. Anim. Health Res. Rev. 1:67-72.
40. Seal, B. S. 1998. Matrix protein gene nucleotide and predicted amino acid sequence demonstrate that the first US avian pneumovirus isolate is distinct from European strains. Virus Res. 58:45-52.
41. Seal, B. S., H. S. Sellers, and R. J. Meinersmann. 2000. Fusion protein predicted amino acid sequence of the first US avian pneumovirus isolate and lack of heterogeneity among other US isolates. Virus Res. 66:139-147.
42. Seibert, S. A., C. Y. Howell, M. K. Hughes, and A. L. Hughes. 1995. Natural selection on the gag, pol, and env genes of human immunodeficiency virus 1 (HIV-1). Mol. Biol. Evol. 12:803-813.
43. Shin, H. J., K. T. Cameron, J. A. Jacobs, E. A. Turpin, D. A. Halvorson, S. M. Goyal, K. V. Nagaraja, M. C. Kumar, D. C. Lauer, B. S. Seal, and M. K. Njenga. 2002. Molecular epidemiology of subgroup C avian pneumoviruses isolated in the United States and comparison with subgroup A and B viruses. J. Clin. Microbiol. 40:1687-1693.
44. Swofford, D. 1998. PAUP*4.0: phylogenetic analysis using parsimony. Smithsonian Institution. Sinauer Associates, Inc., Sunderland, Mass.
45. Thompson, J. D., D. G. Higgins, and T. J. Gibson. 1994. CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 22:4673-4680.
46. Tripp, R. A., L. P. Jones, L. M. Haynes, H. Zheng, P. M. Murphy, and L. J. Anderson. 2001. CX3C chemokine mimicry by respiratory syncytial virus G glycoprotein. Nat. Immunol. 2:732-738.
47. van den Hoogen, B. G., T. M. Bestebroer, A. D. Osterhaus, and R. A. Fouchier. 2002. Analysis of the genomic sequence of a human metapneumovirus. Virology 295:119-132.
48. van den Hoogen, B. G., J. C. de Jong, J. Groen, T. Kuiken, R. de Groot, R. A. Fouchier, and A. D. Osterhaus. 2001. A newly discovered human pneumovirus isolated from young children with respiratory tract disease. Nat. Med. 7:719-724.