1887

Abstract

Re-emergence of Chikungunya (CHIK), caused by CHIK virus, was recorded in India during 2005–2006 after a gap of 32 years, causing 1.3 million cases in 13 states. Several islands of the Indian Ocean reported similar outbreaks in the same period. These outbreaks were attributed to the African genotype of CHIK virus. To examine relatedness of the Indian isolates (IND-06) with Reunion Island isolates (RU), full-genome sequences of five CHIK virus isolates representative of different Indian states were determined. In addition, an isolate obtained from mosquitoes in the year 2000 (Yawat-2000), identified as being of the African genotype, and two older strains isolated in 1963 and 1973 (of the Asian genotype), were sequenced. The IND-06 isolates shared 99.9 % nucleotide identity with RU isolates, confirming involvement of the same strain in these outbreaks. The IND-06 isolates shared 98.2 % identity with the Yawat-2000 isolate. Of two crucial substitutions reported for RU isolates in the E1 region, M269V was noted in the Yawat-2000 and IND-06 isolates, whereas D284E was seen only in the IND-06 isolates. The A226V shift observed with the progression of the epidemic in Reunion Island, probably associated with adaptation to the mosquito vector, was absent in all of the Indian isolates. Three unique substitutions were noted in the IND-06 isolates: two (T128K and T376M) in the Nsp1 region and one (P23S) in the capsid protein. The two Asian strains showed 99.4 % nucleotide identity to each other, indicating relative stability of the virus. No evidence of recombination of the Asian and African genotypes, or of positive selection was observed. The results may help in understanding the association, if any, of the unique mutations with the explosive nature of the CHIK outbreak.

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2007-07-01
2024-03-29
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References

  1. Burke D. S., Nisalak A., Nimmannitya S. 1985; Disappearance of Chikungunya virus from Bangkok. Trans R Soc Trop Med Hyg 79:419–420
    [Google Scholar]
  2. Khan A. H., Morita K., del Carmen Parquet M., Hasebe F., Mathenge E. G., Igarashi A. 2002; Complete nucleotide sequence of chikungunya virus and evidence for an internal polyadenylation site. J Gen Virol 83:3075–3084
    [Google Scholar]
  3. Kit L. S. 2002; Emerging and re-emerging diseases in Malaysia. Asia Pac J Public Health 14:6–8 [CrossRef]
    [Google Scholar]
  4. Kumar S., Tamura K., Nei M. 2004; mega3: integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment. Brief Bioinform 5:150–163 [CrossRef]
    [Google Scholar]
  5. Laras K., Sukri N. C., Larasati R. P., Bangs M. J., Kosim R., Djauzi, Wandra T., Master J., Kosasih H. other authors 2005; Tracking the re-emergence of epidemic chikungunya virus in Indonesia. Trans R Soc Trop Med Hyg 99:128–141 [CrossRef]
    [Google Scholar]
  6. Mackenzie J. S., Chua K. B., Daniels P. W., Eaton B. T., Field H. E., Hall R. A., Halpin K., Johansen C. A., Kirkland P. D. other authors 2001; Emerging viral diseases of Southeast Asia and the Western Pacific. Emerg Infect Dis 7 (Suppl.), 497–504 [CrossRef]
    [Google Scholar]
  7. Nei M., Gojobori T. 1986; Simple methods for estimating the numbers of synonymous and nonsynonymous nucleotide substitutions. Mol Biol Evol 3:418–426
    [Google Scholar]
  8. Neogi D. K., Bhattacharya N., Mukherjee K. K., Chakraborty M. S., Banerjee P., Mitra K., Lahiri M., Chakravarti S. K. 1995; Serosurvey of chikungunya antibody in Calcutta metropolis. J Commun Dis 27:19–22
    [Google Scholar]
  9. Padbidri V. S., Gnaneswar T. T. 1979; Epidemiological investigations of chikungunya epidemic at Barsi, Maharashtra state, India. J Hyg Epidemiol Microbiol Immunol 23:445–451
    [Google Scholar]
  10. Pastorino B., Muyembe-Tamfum J. J., Bessaud M., Tock F., Tolou H., Durand J. P., Peyrefitte C. N. 2004; Epidemic resurgence of Chikungunya virus in Democratic Republic of the Congo: identification of a new central African strain. J Med Virol 74:277–282 [CrossRef]
    [Google Scholar]
  11. Pavri K. M. 1986; Disappearance of Chikungunya virus from India and South East Asia. Trans R Soc Trop Med Hyg 80:491
    [Google Scholar]
  12. Powers A. M., Brault A. C., Tesh R. B., Weaver S. C. 2000; Re-emergence of chikungunya and o’nyong-nyong viruses: evidence for distinct geographical lineages and distant evolutionary relationships. J Gen Virol 81:471–479
    [Google Scholar]
  13. Rao T. R. 1966; Recent epidemics caused by Chikungunya virus in India, 1963–1965. Sci Cult 32:215–220
    [Google Scholar]
  14. Rodrigues F. M., Patankar M. R., Banerjee K., Bhatt P. N., Goverdhan M. K., Pavri K. M., Vittal M. 1972; Etiology of the 1965 epidemic of febrile illness in Nagpur city, Maharashtra State, India. Bull World Health Organ 46:173–179
    [Google Scholar]
  15. Ross R. W. 1956; A laboratory technique for studying the insect transmission of animal viruses, employing a bat-wing membrane, demonstrated with two African viruses. J Hyg (Lond) 54:192–200 [CrossRef]
    [Google Scholar]
  16. Salminen M. O., Carr J. K., Burke D. S., McCutchan F. E. 1995; Identification of breakpoints in intergenotypic recombinants of HIV type 1 by bootscanning. AIDS Res Hum Retroviruses 11:1423–1425 [CrossRef]
    [Google Scholar]
  17. Schuffenecker I., Iteman I., Michault A., Murri S., Frangeul L., Vaney M. C., Lavenir R., Pardigon N., Reynes J. M. other authors 2006; Genome microevolution of chikungunya viruses causing the Indian Ocean outbreak. PLoS Med 3:e263 [CrossRef]
    [Google Scholar]
  18. Shah K. V., Gibbs C. J. Jr, Banerjee G. 1964; Virological investigation of the epidemic of haemorrhagic fever in Calcutta: isolation of three strains of chikungunya virus. Indian J Med Res 52:676–683
    [Google Scholar]
  19. Suzuki Y., Gojobori T. 1999; A method for detecting positive selection at single amino acid sites. Mol Biol Evol 16:1315–1328 [CrossRef]
    [Google Scholar]
  20. Thaikruea L., Charearnsook O., Reanphumkarnkit S., Dissomboon P., Phonjan R., Ratchbud S., Kounsang Y., Buranapiyawong D. 1997; Chikungunya in Thailand: a re-emerging disease?. Southeast Asian J Trop Med Public Health 28:359–364
    [Google Scholar]
  21. Thompson J. D., Gibson T. J., Plewniak F., Jeanmougin F., Higgins D. G. 1997; The clustal_x windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25:4876–4882 [CrossRef]
    [Google Scholar]
  22. WHO 2006; Outbreak news. Wkly Epidemiol Rec 81:105–116
    [Google Scholar]
  23. Yang Z. H. 1997; paml: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci 13:555–556
    [Google Scholar]
  24. Yang Z., Nielsen R., Goldman N., Pedersen A. M. K. 2000; Codon-substitution models for heterogenous selection pressure at amino acid sites. Genetics 155:431–449
    [Google Scholar]
  25. Yang Z., Wong W. S., Nielsen R. 2005; Bayes empirical Bayes inference of amino acid sites under positive selection. Mol Biol Evol 22:1107–1118 [CrossRef]
    [Google Scholar]
  26. Yergolkar P. N., Tandale B. V., Arankalle V. A., Sathe P. S., Sudeep A., Gandhe S. S., Gokhle M. D., Jacob G. P., Hundekar S. L., Mishra A. C. 2006; Chikungunya outbreaks caused by African genotype, India. Emerg Infect Dis 12:1580–1583 [CrossRef]
    [Google Scholar]
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