Identification of optimal regions for phylogenetic studies on VP1 gene of foot-and-mouth disease virus: Analysis of types A and O Argentinean viruses

Veterinary Research

Volumn 32, Issue 1, 2001, Pages 31-45

  Núñez, Jose I ^a,b   Martín, Maria J ^c   Piccone, Maria E ^d   Carrillo, Elisa ^d   Palma, Eduardo L ^d   Dopazo, Joaquin ^e,f   Sobrino, Francisco ^a,b  

^a CENTRO DE BIOLOGÍA MOLECULAR SEVERO OCHOA   (Spain)

^b INIA   (Spain)

^c EUROPEAN BIOINFORMATICS INSTITUTE   (United Kingdom)

^d INSTITUTO NACIONAL DE TECNOLOGÍA AGROPECUARIA INTA   (Argentina)

^e GLAXOSMITHKLINE   (Spain)

^f Ctro Nac de Invest Oncologicas   (Spain)

Author keywords

Foot and mouth disease virus; Informative region; Molecular epidemiology; Phylogenetic analysis

Indexed keywords

FOOT-AND-MOUTH DISEASE VIRUS;

CAPSID PROTEIN; COMPLEMENTARY DNA; VIRUS PROTEIN; VIRUS RNA; VP1 PROTEIN, FOOT AND MOUTH DISEASE VIRUS; VP1 PROTEIN, FOOT-AND-MOUTH DISEASE VIRUS;

AMINO ACID SEQUENCE; ANIMAL; APHTHOVIRUS; ARTICLE; CHEMISTRY; CLASSIFICATION; GENETICS; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; POLYMERASE CHAIN REACTION; SEROTYPING; VIRUS CAPSID;

AMINO ACID SEQUENCE; ANIMALS; APHTHOVIRUS; BASE SEQUENCE; CAPSID; CAPSID PROTEINS; DNA, COMPLEMENTARY; MOLECULAR SEQUENCE DATA; PHYLOGENY; POLYMERASE CHAIN REACTION; RNA, VIRAL; SEROTYPING; VIRAL PROTEINS;

EID: 0035229818     PISSN: 09284249     EISSN: None     Source Type: Journal    
DOI: 10.1051/vetres:2001107     Document Type: Article

References (39)

1. Armstrong R.M., Samuel A.R., Carpenter W.C., Kant R., Knowles N.J., A comparative study of serological and biochemical methods for strain differentiation of foot-and-mouth disease type A virus, Vet. Microbiol. 39 (1994) 285-298.
2. Baxt B., Vakharia V.N., Moore D.M., Franke A.J., Morgan, D.O., Analysis of neutralizing antigenic sites on the surface of type A12 foot and mouth disease virus, J. Virol. 63 (1989) 2143-2151.
3. Beck E., Strohmaier, K., Subtyping of european foot-and-mouth disease virus strains by nucleotide sequence determination, J. Virol. 61 (1987) 1621-1629.
4. Carrillo C., Dopazo J., Moya A., González M., Martínez M.A., Sáiz J.C., Sobrino F., Comparison of vaccine strains and the virus causing the 1986 foot-and-mouth disease outbreak in Spain: an epizootiological analysis, Virus Res. 15 (1990) 45-56.
5. Cheung A., Delamater J., Weiss J., Küpper H., Comparison of the major antigenic determinants of different serotypes of foot-and-mouth disease virus, J. Virol. 48 (1983) 451-459.
6. Dawe P.S., Flanagan F.O., Madekurozwa R.L., Sorensen K.J., Anderson B.C., Foggin C.M., Ferris N.P., Knowles N.J., Natural transmission of foot-and-mouth disease virus from African buffalo (Syncerus caffer) to cattle in a wildlife area of Zimbabwe, Vet. Rec. 134 (1994) 230-232.
7. Domingo E., Mateu M.G., Martínez M.A., Dopazo J., Moya A., Sobrino F., Genetic variability and antigenic diversity of foot-and-mouth disease virus, in: Kurstak E., Marusyk R.G., Murphy S.A., Van-Regenmortel M.H.V. (Eds.), Applied virology research, Vol. 2, Virus variation and epidemiology, Plenum Publishing Corp., New York, 1990, pp. 233-266.
8. Domingo E., Escarmís C., Martínez M.A., Martínez-Salas E., Mateu M.G., Foot-and-mouth disease virus populations are quasispecies, Curr. Top. Microbiol. Immunol. 176 (1992) 33-47.
9. Dopazo J., Sobrino F., Palma E.L., Domingo E., Moya, A., Gene encoding capsid protein VP1 of foot-and-mouth disease virus: a quasispecies model of molecular evolution, Proc. Natl. Acad. Sci. USA 85 (1988) 6811-6815.
10. Dopazo J., Rodrigo M.J., Rodríguez A., Sáiz J.C., Sobrino, F., Aphthovirus evolution, in: Gibbs A., García-Arenal F., Calisher C.H. (Eds.), Molecular evolution of viruses, Cambridge University Press, 1995, pp. 310-320.
11. Felsenstein J., Confidence limits on phylogenies: an approach using the boostrap, Evolution 39 (1985) 783-791.
12. Forss S., Strebel K., Beck E., Schaller, H., Nucleotide sequence and genome organization of foot-and-mouth disease virus, Nucleic Acids Res. 2 (1984) 6587-6601.
13. Higgins D., Bleasby A., Fuchs R., Clustal V: improved software for multiple sequence alignment, CABIOS 8 (1992) 189-191.
14. Kitching R.P., A recent history of foot-and-mouth disease virus, J. Comp. Pathol. 118 (1998) 89-108.
15. Kitching R.P., Knowles N.J., Samuel A.R., Donaldson A.I., Development of foot-and-mouth disease virus strain characterization - a review, Trop. Anim. Health Prod. 21 (1989) 153-166.
16. Kitson J.D.A., Mc Cahon D., Belsham G.J., Sequence analysis of monoclonal antibody resistant mutant of type O foot-and-mouth disease virus: Evidence for the involvement of the three surface exposed capsid protein in four antigenic sites, Virology 179 (1990) 26-34.
17. Krebs O., Berger H.-G., Marquardt O., The capsid protein-encoding region of foot-and-mouth disease virus O2 Brescia, Arch. Virol. 120 (1991) 135-143.
18. Krebs O., Berger H.-G., Niedbalski W., Marquardt U., Foot-and-mouth disease virus O1 Lombardy is biochemically related to O2 isolates, Virus Genes 5 (1991) 255-266.
19. Leister D., Adam K.H., Marquardt O., Co-replication of several isotypes of foot-and-mouth disease virus, J. Gen. Virol. 74 (1993) 2753-2757.
20. Makoff A.J., Paynter C.A., Rowlands D.J., Boothroyd J.C., Comparison of the amino acid sequence of the major immunogen from three serotypes of foot-and-mouth disease virus, Nucleic Acids Res. 10 (1982) 8285-8295.
21. Marquardt O., Haas B., VP1-coding sequences in recent isolates of foot-and-mouth disease virus types A, O and Asia 1, Virus Genes 16 (1998) 185-193.
22. Martín M.J., González-Candelas F., Sobrino F., Dopazo J., A method for determining the position and size of optimal sequence regions for phylogenetic analysis, J. Mol. Evol. 41 (1995) 1128-1138.
23. Martín M.J., Núñez J.I., Sobrino F., Dopazo J., A procedure for detecting selection in highly variable viral genomes: evidence of positive selection in antigenic regions of capsid protein VP1 of foot-and-mouth disease virus, J. Virol. Methods 74 (1998) 215-221.
24. Martínez M. A., Dopazo J., Hernández J., Mateu M.G., Sobrino F., Domingo E., Knowles N.J., Evolution of capsid protein genes of foot-and-mouth disease virus: antigenic variation without accumulation of amino acid substitutions over six decades, J. Virol. 66 (1992) 3557-3565.
25. Mateu M.G., Antibody recognition of picornaviruses and escape from neutralization: a structural view, Virus Res. 38 (1995) 1-24.
26. Mbayed V., Schiappacassi M., Corominas A., Campos R., Characteristic in vitro evolution pattern of foot-and-mouth disease virus A81/Castellanos/Arg/87, Virus Res. 48 (1997) 157-163.
27. Pattnaik B., Venkataramanan R., Tosh C., Sanyal A., Hemadri D., Samuel A.R., Knowles N.J., Kitching R.P., Genetic heterogeneity of Indian field isolates of foot-and-mouth disease virus serotype O as revealed by partial sequencing of ID gene, Virus Res. 55 (1998) 115-127.
28. Pereira H.G., Foot-and-mouth disease, in: Gibbs E.P.J. (Ed.). Virus disease of food animals, Vol. 2, Academic Press Inc., London, 1981, pp. 333-363.
29. Rieder Rojas E., Carrillo E., Schiappacassi M., Campos R., Modification of foot-and-mouth disease virus O1 Caseros after serial passages in the presence of antiviral polyclonal sera, J. Virol. 66 (1992) 3368-3372.
30. Robertson B.H., Grubman M.J., Weddell G.N., Moore D.M., Welsh J.D., Fisher T., Dowbenko D.J., Yansura D.G., Small B., Kleid, D.G., Nucleotide and amino acid sequence coding for polypeptides of foot-and-mouth disease virus type A12, J. Virol. 54 (1985) 651-660.
31. Saitou N., Nei M., The neighbour-joining method: a new method for reconstructing phylogenetic trees, Mol. Biol. Evol. 241 (1987) 425-436.
32. Sáiz J.C., González M.J., Borca M.V., Sobrino F., Moore D.M., Identification of neutralizing antigenic sites on VP1 and VP2 of type A5 foot-and-mouth disease virus defined by neutralizing resistant variants, J. Virol. 65 (1991) 2518-2524.
33. Sáiz J.C., Sobrino F., Dopazo J., Molecular evolution of foot-and-mouth disease virus type O, J. Gen. Virol. 74 (1993) 2281-2285.
34. Samuel A.R., Knowles N.J., Kitching R.P., Hafez S.M., Molecular analysis of foot-and-mouth disease type O viruses isolated in Saudi Arabia between 1983 and 1995, Epidemiol. Infect. 119 (1997) 381-389.
35. Samuel A.R., Knowles N.J., Mackay D.K., Genetic analyses of type O viruses responsible for epidemics of foot-and-mouth disease in North Africa, Epidemiol. Infect. 122 (1999) 529-538.
36. Taboga O., Tami C., Carrillo E., Núñez J.I., Rodríguez, A., Sáiz J.C., Blanco E., Valero M.L., Roig X., Camarero J.A., Andreu D., Mateu M.G., Giralt E., Domingo E., Sobrino F., Palma E.L., A large scale evaluation of peptide vaccines against foot-and-mouth disease: lack of solid protection in cattle and isolation of scape mutants, J. Virol. 71 (1997) 2606-2614.
37. Thomas A.A.M., Woortmeijer R.J., Puijk W., Barteling S.J., Antigenic sites on foot-and-mouth disease virus type A10, J. Virol. 62 (1988) 2782-2789.
38. Vosloo W., Knowles N.J., Thomson G.G., Genetic relationships between southern African SAT-2 isolates of foot-and-mouth disease virus, Epidemiol. Infect. 109 (1992) 547-558.
39. Weddell G.N., Yansura D.G., Dowbenko D.J., Hoatlin M.E., Grubman M.J., Moore D.M., Kleid D.G., Sequence variation in the gene of the immunogenic capsid protein VP1 of foot-and-mouth disease virus type A, Proc. Natl. Acad. Sci. USA 82 (1985) 2618-2622.