Evolutionary dynamics and temporal/geographical correlates of recombination in the human enterovirus echovirus types 9, 11, and 30

Journal of Virology

Volumn 84, Issue 18, 2010, Pages 9292-9300

  McWilliam Leitch, E C ^a   Cabrerizo, M ^b   Cardosa, J ^c   Harvala, H ^d   Ivanova, O E ^e   Kroes, A C M ^f   Lukashev, A ^e   Muir, P ^g   Odoom, J ^h   Roivainen, M ⁱ   Susi, P ^j   Trallero, G ^b   Evans, D J ^k   Simmonds, P ^a  

^a UNIVERSITY OF EDINBURGH   (United Kingdom)

^b INSTITUTO DE SALUD CARLOS III   (Spain)

^c UNIVERSITI MALAYSIA SARAWAK   (Malaysia)

^d ROYAL INFIRMARY OF EDINBURGH   (United Kingdom)

^e CHUMAKOV INSTITUTE OF POLIOMYELITIS AND VIRAL ENCEPHALITIDES   (Russian Federation)

^f LEIDEN UNIVERSITY MEDICAL CENTER   (Netherlands)

^g HPA South West Regional Laboratory ^*  (United Kingdom)

^h University of Ghana   (Ghana)

ⁱ NATIONAL PUBLIC HEALTH INSTITUTE   (Finland)

^j UNIVERSITY OF TURKU   (Finland)

^k UNIVERSITY OF WARWICK   (United Kingdom)

more..

Author keywords

[No Author keywords available]

Indexed keywords

VIRUS PROTEIN; VIRUS RNA;

AFRICA; ARTICLE; ASIA; BAYESIAN LEARNING; CLADISTICS; ECHO VIRUS; ECHOVIRUS INFECTION; ENDEMIC DISEASE; EPIDEMIC; EUROPE; GENETIC ANALYSIS; GENOTYPE; GEOGRAPHIC DISTRIBUTION; HIDDEN MARKOV MODEL; MONTE CARLO METHOD; NONHUMAN; NUCLEOTIDE SEQUENCE; PHYLOGENY; PRIORITY JOURNAL; PROMOTER REGION; SEROTYPE; VIRUS ISOLATION; VIRUS RECOMBINATION; VIRUS TRANSMISSION; CLASSIFICATION; CLUSTER ANALYSIS; ENTEROVIRUS; ENTEROVIRUS INFECTIONS; GENETIC RECOMBINATION; GENETICS; GEOGRAPHY; HUMAN; ISOLATION AND PURIFICATION; MOLECULAR EPIDEMIOLOGY; MOLECULAR EVOLUTION; MOLECULAR GENETICS; SEQUENCE HOMOLOGY; TIME; VIROLOGY;

AFRICA; ASIA; CLUSTER ANALYSIS; ENTEROVIRUS B, HUMAN; ENTEROVIRUS INFECTIONS; EUROPE; EVOLUTION, MOLECULAR; GENOTYPE; GEOGRAPHY; HUMANS; MOLECULAR EPIDEMIOLOGY; MOLECULAR SEQUENCE DATA; RECOMBINATION, GENETIC; RNA, VIRAL; SEQUENCE HOMOLOGY; TIME FACTORS;

EID: 77956019832     PISSN: 0022538X     EISSN: 10985514     Source Type: Journal    
DOI: 10.1128/JVI.00783-10     Document Type: Article

References (33)

1. Antona, D., N. Leveque, J. J. Chomel, S. Dubrou, D. Levy-Bruhl, and B. Lina. 2007. Surveillance of enteroviruses in France, 2000-2004. Eur. J. Clin. Microbiol. Infect. Dis. 26:403-412.
2. Ashwell, M. J., D. W. Smith, P. A. Phillips, and I. L. Rouse. 1996. Viral meningitis due to echovirus types 6 and 9: epidemiological data from Western Australia. Epidemiol. Infect. 117:507-512.
3. Blomqvist, S., A. Paananen, C. Savolainen-Kopra, T. Hovi, and M. Roivainen. 2008. Eight years of experience with molecular identification of human enteroviruses. J. Clin. Microbiol. 46:2410-2413.
4. Bouslama, L., D. Rezig, A. Ben Yahia, M. Aouni, and H. Triki. 2007. Phylogenetic analysis of echovirus 11 in the 3′ end of the VP1. Intervirology 50:108-114. (Pubitemid 46245723)
5. Brown, B. A., M. S. Oberste, J. P. Alexander, Jr., M. L. Kennett, and M. A. Pallansch. 1999. Molecular epidemiology and evolution of enterovirus 71 strains isolated from 1970 to 1998. J. Virol. 73:9969-9975.
6. Calvert, J., T. Chieochansin, K. Benschop, E. C. McWilliam-Leitch, J. F. Drexler, K. Grywna, H. da Costa Ribeiro, C. Drosten, H. Harvala, Y. Poovorawan, K. Wolthers, and P. Simmonds. 2010. Recombination dynamics of human parechoviruses: investigation of type-specific differences in frequency and epidemiological correlates. J. Gen. Virol. 91:1229-1238.
7. Chevaliez, S., A. Szendroi, V. Caro, J. Balanant, S. Guillot, G. Berencsi, and F. Delpeyroux. 2004. Molecular comparison of echovirus 11 strains circulating in Europe during an epidemic of multisystem hemorrhagic disease of infants indicates that evolution generally occurs by recombination. Virology 325:56-70.
8. Dalwai, A., S. Ahmad, A. Pacsa, and W. Al Nakib. 2009. Echovirus type 9 is an important cause of viral encephalitis among infants and young children in Kuwait. J. Clin. Virol. 44:48-51.
9. Drummond, A. J., S. Y. Ho, M. J. Phillips, and A. Rambaut. 2006. Relaxed phylogenetics and dating with confidence. PLoS. Biol. 4:e88.
10. Drummond, A. J., and A. Rambaut. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7:214.
11. Hara, K., T. Kashiwagi, Y. Ohtsu, K. Masunaga, Y. Akasu-Tsuji, N. Tsumura, H. Kato, J. Iwahashi, N. Hamada, M. Toyoda, and T. Toyoda. 2001. Molecular evolution of human echovirus 9 isolated from patients with aseptic meningitis in northern Kyushu during the summer of 1997. Microbiol. Immunol. 45:717-720.
12. Kapoor, A., D. D. Patel, S. Kumar, A. Ayyagari, and T. N. Dhole. 2004. Molecular characterization of echovirus 11 isolates from India. Indian J. Med. Res. 119:149-156.
13. Kew, O., M. N. Mulders, G. Y. Lipskaya, E. E. da Silva, and M. A. Pallansch. 1995. Molecular epidemiology of polioviruses. Semin. Virol. 6:401-414.
14. Khetsuriani, N., A. Lamonte-Fowlkes, S. Oberst, and M. A. Pallansch. 2006. Enterovirus surveillance - United States, 1970-2005. MMWR Surveill. Summ. 55:1-20.
15. Lashkevich, V. A., G. A. Koroleva, A. N. Lukashev, E. V. Denisova, and L. A. Katargina. 2004. Enterovirus uveitis. Rev. Med. Virol. 14:241-254.
16. Leitch, E. C., H. Harvala, I. Robertson, I. Ubillos, K. Templeton, and P. Simmonds. 2009. Direct identification of human enterovirus serotypes in cerebrospinal fluid by amplification and sequencing of the VP1 region. J. Clin. Virol. 44:119-124.
17. Lemey, P., A. Rambaut, A. J. Drummond, and M. A. Suchard. 2009. Bayesian phylogeography finds its roots. PLoS. Comput. Biol. 5:e1000520.
18. Lindberg, A. M., P. Andersson, C. Savolainen, M. N. Mulders, and T. Hovi. 2003. Evolution of the genome of human enterovirus B: incongruence between phylogenies of the VP1 and 3CD regions indicates frequent recombination within the species. J. Gen. Virol. 84:1223-1235.
19. Lukashev, A. N., V. A. Lashkevich, O. E. Ivanova, G. A. Koroleva, A. E. Hinkkanen, and J. Ilonen. 2003. Recombination in circulating enteroviruses. J. Virol. 77:10423-10431.
20. Lukashev, A. N., V. A. Lashkevich, O. E. Ivanova, G. A. Koroleva, A. E. Hinkkanen, and J. Ilonen. 2005. Recombination in circulating human enterovirus B: independent evolution of structural and non-structural genome regions. J. Gen. Virol. 86:3281-3290.
21. Lukashev, A. N., V. A. Lashkevich, G. A. Koroleva, J. Ilonen, G. G. Karganova, V. I. Reznik, and A. E. Hinkkanen. 2003. Molecular epidemiology of enteroviruses causing uveitis and multisystem hemorrhagic disease of infants. Virology 307:45-53.
22. McWilliam Leitch, E. C., J. Bendig, M. Cabrerizo, J. Cardosa, T. Hyypia, O. E. Ivanova, A. Kelly, A. C. Kroes, A. Lukashev, A. Macadam, P. McMinn, M. Roivainen, G. Trallero, D. J. Evans, and P. Simmonds. 2009. Transmission networks and population turnover of echovirus 30. J. Virol. 83:2109-2118.
23. Modlin, J. F. 1996. Update on enterovirus infections in infants and children. Adv. Pediatr. Infect. Dis. 12:155-180.
24. Nelsen-Salz, B., O. Schildgen, M. Klein, D. Hadaschik, H. J. Eggers, and H. Zimmermann. 1999. Determinants of pathogenicity of echovirus 9 in man: significance of a functional RGD-motif. Zentrabl. Bakteriol. 289:347-354.
25. Oberste, M. S., W. A. Nix, D. R. Kilpatrick, M. R. Flemister, and M. A. Pallansch. 2003. Molecular epidemiology and type-specific detection of echovirus 11 isolates from the Americas, Europe, Africa, Australia, southern Asia and the Middle East. Virus Res. 91:241-248.
26. Oprisan, G., M. Combiescu, S. Guillot, V. Caro, A. Combiescu, F. Delpeyroux, and R. Crainic. 2002. Natural genetic recombination between co-circulating heterotypic enteroviruses. J. Gen. Virol. 83:2193-2200.
27. Santti, J., T. Hyypia, L. Kinnunen, and M. Salminen. 1999. Evidence of recombination among enteroviruses. J. Virol. 73:8741-8749.
28. Shapiro, B., A. Rambaut, and A. J. Drummond. 2006. Choosing appropriate substitution models for the phylogenetic analysis of protein-coding sequences. Mol. Biol. Evol. 23:7-9.
29. Simmonds, P., and D. B. Smith. 1999. Structural constraints on RNA virus evolution. J. Virol. 73:5787-5794.
30. Simmonds, P., and J. Welch. 2006. Frequency and dynamics of recombination within different species of human enteroviruses. J. Virol. 80:483-493.
31. Takeda, N., M. Tanimura, and K. Miyamura. 1994. Molecular evolution of the major capsid protein VP1 of enterovirus 70. J. Virol. 68:854-862. (Pubitemid 24022188)
32. Tamura, K., J. Dudley, M. Nei, and S. Kumar. 2007. MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599.
33. Trallero, G., A. Avellon, A. Otero, T. de Miguel, C. Perez, N. Rabella, G. Rubio, J. E. Echevarria, and M. Cabrerizo. 2010. Enteroviruses in Spain over the decade 1998-2007: virological and epidemiological studies. J. Clin. Virol. 47:170-176.