Correlation of phylogenetic clade diversification and in vitro infectivity differences among Cosmopolitan genotype strains of Chikungunya virus

Infection, Genetics and Evolution

Volumn 37, Issue , 2016, Pages 174-184

  Abraham, Rachy ^a   Manakkadan, Anoop ^a,b   Mudaliar, Prashant ^a   Joseph, Iype ^a   Sivakumar, Krishnankutty Chandrika ^a   Nair, Radhakrishnan Reghunathan ^a   Sreekumar, Easwaran ^a  

^a RAJIV GANDHI CENTRE FOR BIOTECHNOLOGY   (India)

^b Department of Physics   (India)

Author keywords

Bayesian analysis; Chikungunya; Infection kinetics; Mammalian cell

Indexed keywords

ARTICLE; CHIKUNGUNYA VIRUS; CLADISTICS; CONTROLLED STUDY; CYTOPATHOGENIC EFFECT; GENE MUTATION; GENE SEQUENCE; GENETIC CODE; GENOTYPE; IN VITRO STUDY; MOLECULAR PHYLOGENY; NONHUMAN; PRIORITY JOURNAL; SEQUENCE ANALYSIS; VERO CELL LINE; VIRUS GENE; VIRUS INFECTIVITY; VIRUS ISOLATION; VIRUS STRAIN; CELL LINE; CHIKUNGUNYA; CLASSIFICATION; GENETIC SELECTION; GENETICS; HUMAN; ISOLATION AND PURIFICATION; MOLECULAR EVOLUTION; MUTATION; PHYLOGENY; VIROLOGY;

VIRUS ENVELOPE PROTEIN; VIRUS RNA;

CELL LINE; CHIKUNGUNYA FEVER; CHIKUNGUNYA VIRUS; EVOLUTION, MOLECULAR; GENOTYPE; HUMANS; IN VITRO TECHNIQUES; MUTATION; PHYLOGENY; RNA, VIRAL; SELECTION, GENETIC; VIRAL ENVELOPE PROTEINS;

EID: 84947968280     PISSN: 15671348     EISSN: 15677257     Source Type: Journal    
DOI: 10.1016/j.meegid.2015.11.019     Document Type: Article

References (41)

1. Abraham R., Prashant M., Padmanabhan A., Sreekumar E. Induction of cytopathogenicity in human glioblastoma cells by Chikungunya virus. PLoS One 2013, 8(9).
2. Arankalle V.A., Shrivastava S., Cherian S., Gunjikar R.S., Walimbe A.M., Jadhav S.M., Sudeep A.B., Mishra A.C. Genetic divergence of Chikungunya viruses in India (1963-2006) with special reference to the 2005-2006 explosive epidemic. J. Gen. Virol. 2007, 88:1967-1976.
3. Betts M.J., Russell R.B. Amino acid properties and consequences of substitutions. Bioinform. Genet. 2003, 317:289.
4. Cherian S.S., Walimbe A.M., Jadhav S.M., Gandhe S.S., Hundekar S.L., Mishra A.C., Arankalle V.A. Evolutionary rates and timescale comparison of Chikungunya viruses inferred from the whole genome/E1 gene with special reference to the 2005-07 outbreak in the Indian subcontinent. Infect. Genet. Evol. 2009, 9:16-23.
5. de Lamballerie X., Leroy E., Charrel R.N., Ttsetsarkin K., Higgs S., Gould E.A. Chikungunya virus adapts to tiger mosquito via evolutionary convergence: a sign of things to come?. Virol. J. 2008, 5:33.
6. Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 2007, 7:214.
7. Dubrulle M., Mousson L., Moutailler S., Vazeille M., Failloux A.B. Chikungunya virus and Aedes mosquitoes: saliva is infectious as soon as two days after oral infection. PLoS One 2009, 4.
8. Gardner C.L., Hritz J., Sun C., Vanlandingham D.L., Song T.Y., Ghedin E., Higgs S., Klimstra W.B., Ryman K.D. Deliberate attenuation of Chikungunya virus by adaptation to heparan sulfate-dependent infectivity: a model for rational arboviral vaccine design. PLoS Negl. Trop. Dis. 2014, 8.
9. Grandadam M., Caro V., Plumet S., Thiberge J.M., Souares Y., Failloux A.B., Tolou H.J., Budelot M., Cosserat D., Leparc-Goffart I., Despres P. Chikungunya virus, southeastern France. Emerg. Infect. Dis. 2011, 17:910-913.
10. Hall T.A. BioEdit: A User-Friendly Biological Sequence Alignment Editor and Analysis Program for Windows 95/98/NT. Nucleic Acids Symposium Series 1999, 95-98.
11. Hapuarachchi H.C., Bandara K.B., Sumanadasa S.D., Hapugoda M.D., Lai Y.L., Lee K.S., Tan L.K., Lin R.T., Ng L.F., Bucht G., Abeyewickreme W., Ng L.C. Re-emergence of Chikungunya virus in south-east Asia: virological evidence from Sri Lanka and Singapore. J. Gen. Virol. 2010, 91:1067-1076.
12. Holmes E.C. RNA virus genomics: a world of possibilities. J. Clin. Invest. 2009, 119:2488-2495.
13. Huang J.H., Yang C.F., Su C.L., Chang S.F., Cheng C.H., Yu S.K., Lin C.C., Shu P.Y. Imported Chikungunya virus strains, Taiwan, 2006-2009. Emerg. Infect. Dis. 2009, 15:1854-1856.
14. Kam Y.W., Lum F.M., Teo T.H., Lee W.W., Simarmata D., Harjanto S., Chua C.L., Chan Y.F., Wee J.K., Chow A., Lin R.T., Leo Y.S., Le Grand R., Sam I.C., Tong J.C., Roques P., Wiesmuller K.H., Renia L., Rotzschke O., Ng L.F. Early neutralizing IgG response to Chikungunya virus in infected patients targets a dominant linear epitope on the E2 glycoprotein. EMBO Mol. Med. 2012, 4:330-343.
15. Kumar N.P., Joseph R., Kamaraj T., Jambulingam P. A226V mutation in virus during the 2007 Chikungunya outbreak in Kerala, India. J. Gen. Virol. 2008, 89:1945-1948.
16. Kumar N.P., Suresh A., Vanamail P., Sabesan S., Krishnamoorthy K.G., Mathew J., Jose V.T., Jambulingam P. Chikungunya virus outbreak in Kerala, India, 2007: a seroprevalence study. Mem. Inst. Oswaldo Cruz 2011, 106:912-916.
17. Lanciotti R.S., Valadere A.M. Transcontinental movement of Asian genotype Chikungunya virus. Emerg. Infect. Dis. 2014, 20:1400-1402.
18. Lauring A.S., Andino R. Quasispecies theory and the behavior of RNA viruses. PLoS Pathog. 2010, 6.
19. Lee C.Y., Kam Y.W., Fric J., Malleret B., Koh E.G., Prakash C., Huang W., Lee W.W., Lin C., Lin R.T., Renia L., Wang C.I., Ng L.F., Warter L. Chikungunya virus neutralization antigens and direct cell-to-cell transmission are revealed by human antibody-escape mutants. PLoS Pathog. 2011, 7.
20. Lu X., Li X., Mo Z., Jin F., Wang B., Huang J., Huang J., Zhao H., Shi L. Chikungunya emergency in China: microevolution and genetic analysis for a local outbreak. Virus Genes 2014, 48:15-22.
21. Myles K.M., Pierro D.J., Olson K.E. Deletions in the putative cell receptor-binding domain of Sindbis virus strain MRE16 E2 glycoprotein reduce midgut infectivity in Aedes aegypti. J. Virol. 2003, 77:8872-8881.
22. Niyas K.P., Abraham R., Unnikrishnan R.N., Mathew T., Nair S., Manakkadan A., Issac A., Sreekumar E. Molecular characterization of Chikungunya virus isolates from clinical samples and adult Aedes albopictus mosquitoes emerged from larvae from Kerala, South India. Virol. J. 2010, 7:189.
23. Powers A.M., Brault A.C., Tesh R.B., Weaver S.C. Re-emergence of Chikungunya and O'nyong-nyong viruses: evidence for distinct geographical lineages and distant evolutionary relationships. J. Gen. Virol. 2000, 81:471-479.
24. Powers A.M., Logue C.H. Changing patterns of Chikungunya virus: re-emergence of a zoonotic arbovirus. J. Gen. Virol. 2007, 88:2363-2377.
25. Sahu A., Das B., Das M., Patra A., Biswal S., Kar S.K., Hazra R.K. Genetic characterization of E2 region of Chikungunya virus circulating in Odisha, Eastern India from 2010 to 2011. Infect. Genet. Evol. 2013, 18:113-124.
26. Schuffenecker I., Iteman I., Michault A., Murri S., Frangeul L., Vaney M.C., Lavenir R., Pardigon N., Reynes J.M., Pettinelli F., Biscornet L., Diancourt L., Michel S., Duquerroy S., Guigon G., Frenkiel M.P., Brehin A.C., Cubito N., Despres P., Kunst F., Rey F.A., Zeller H., Brisse S. Genome microevolution of Chikungunya viruses causing the Indian Ocean outbreak. PLoS Med. 2006, 3.
27. Shrinet J., Jain S., Sharma A., Singh S.S., Mathur K., Rana V., Bhatnagar R.K., Gupta B., Gaind R., Deb M., Sunil S. Genetic characterization of Chikungunya virus from New Delhi reveal emergence of a new molecular signature in Indian isolates. Virol. J. 2012, 9:100.
28. Smith T.J., Cheng R.H., Olson N.H., Peterson P., Chase E., Kuhn R.J., Baker T.S. Putative receptor binding sites on alphaviruses as visualized by cryoelectron microscopy. Proc. Natl. Acad. Sci. U. S. A. 1995, 92:10648-10652.
29. Snyder J.E., Kulcsar K.A., Schultz K.L., Riley C.P., Neary J.T., Marr S., Jose J., Griffin D.E., Kuhn R.J. Functional characterization of the alphavirus TF protein. J. Virol. 2013, 87:8511-8523.
30. Sreekumar E., Issac A., Nair S., Hariharan R., Janki M.B., Arathy D.S., Regu R., Mathew T., Anoop M., Niyas K.P., Pillai M.R. Genetic characterization of 2006-2008 isolates of Chikungunya virus from Kerala, South India, by whole genome sequence analysis. Virus Genes 2010, 40:14-27.
31. Strauss J.H., Strauss E.G. The alphaviruses: gene expression, replication, and evolution. Microbiol. Rev. 1994, 58:491-562.
32. Sumathy K., Ella K.M. Genetic diversity of Chikungunya virus, India 2006-2010: evolutionary dynamics and serotype analyses. J. Med. Virol. 2012, 84:462-470.
33. Tamura K., Stecher G., Peterson D., Filipski A., Kumar S. MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. Mol. Biol. Evol. 2013, 30:2725-2729.
34. Tang B.L. The cell biology of Chikungunya virus infection. Cell. Microbiol. 2012, 14:1354-1363.
35. Tsetsarkin K.A., Chen R., Yun R., Rossi S.L., Plante K.S., Guerbois M., Forrester N., Perng G.C., Sreekumar E., Leal G., Huang J., Mukhopadhyay S., Weaver S.C. Multi-peaked adaptive landscape for Chikungunya virus evolution predicts continued fitness optimization in Aedes albopictus mosquitoes. Nat. Commun. 2014, 5:4084.
36. Tsetsarkin K.A., McGee C.E., Volk S.M., Vanlandingham D.L., Weaver S.C., Higgs S. Epistatic roles of E2 glycoprotein mutations in adaption of Chikungunya virus to Aedes albopictus and Ae. aegypti mosquitoes. PLoS One 2009, 4.
37. Tsetsarkin K.A., Vanlandingham D.L., McGee C.E., Higgs S. A single mutation in Chikungunya virus affects vector specificity and epidemic potential. PLoS Pathog. 2007, 3.
38. Tsetsarkin K.A., Weaver S.C. Sequential adaptive mutations enhance efficient vector switching by Chikungunya virus and its epidemic emergence. PLoS Pathog. 2011, 7.
39. Vazeille M., Moutailler S., Coudrier D., Rousseaux C., Khun H., Huerre M., Thiria J., Dehecq J.S., Fontenille D., Schuffenecker I., Despres P., Failloux A.B. Two Chikungunya isolates from the outbreak of La Reunion (Indian Ocean) exhibit different patterns of infection in the mosquito, Aedes albopictus. PLoS One 2007, 2.
40. Voss J.E., Vaney M.C., Duquerroy S., Vonrhein C., Girard-Blanc C., Crublet E., Thompson A., Bricogne G., Rey F.A. Glycoprotein organization of Chikungunya virus particles revealed by X-ray crystallography. Nature 2010, 468:709-712.
41. Wikan N., Sakoonwatanyoo P., Ubol S., Yoksan S., Smith D.R. Chikungunya virus infection of cell lines: analysis of the east, central and South African lineage. PLoS One 2012, 7.