Molecular evolution of the insect-specific flaviviruses

Journal of General Virology

Volumn 93, Issue 2, 2012, Pages

  Cook, Shelley ^a   Moureau, Gregory ^b   Kitchen, Andrew ^c   Gould, Ernest A ^b,d   de Lamballerie, Xavier ^b   Holmes, Edward C ^c,e   Harbach, Ralph E ^a  

^a DEPARTMENT OF LIFE SCIENCES   (United Kingdom)

^b Aix Marseille University IRD 190 Inserm 1207   (France)

^c PENNSYLVANIA STATE UNIVERSITY   (United States)

^d CENTRE FOR ECOLOGY AND HYDROLOGY   (United Kingdom)

^e NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BIODIVERSITY; FLAVIVIRUS; GENE SEQUENCE; HOST SELECTION; INSECT SPECIFIC FLAVIVIRUS; MOLECULAR EVOLUTION; NONHUMAN; PHYLOGENY; PRIORITY JOURNAL; REVIEW; SPECIES INTRODUCTION; VIROGENESIS; VIRUS GENE; VIRUS RECOMBINATION; ANIMAL; CLASSIFICATION; CLUSTER ANALYSIS; GENETICS; INSECT; ISOLATION AND PURIFICATION; VIROLOGY;

CELL FUSING AGENT VIRUS; FLAVIVIRIDAE; FLAVIVIRUS; HEXAPODA;

VIRUS RNA;

ANIMALS; CLUSTER ANALYSIS; EVOLUTION, MOLECULAR; FLAVIVIRUS; INSECTS; PHYLOGENY; RNA, VIRAL;

EID: 84855914415     PISSN: 00221317     EISSN: 14652099     Source Type: Journal    
DOI: 10.1099/vir.0.036525-0     Document Type: Review

References (57)

1. Aaskov, J., Buzacott, K., Thu, H. M., Lowry, K. & Holmes, E. C. (2006). Long-term transmission of defective RNA viruses in humans and Aedes mosquitoes. Science 311, 236-238.
2. Aranda, C., Sánchez-Seco, M. P., Cá ceres, F., Escosa, R., Gá lvez, J. C., Masiá, M., Marqué s, E., Ruíz, S., Alba, A. & other authors (2009). Detection and monitoring of mosquito flaviviruses in Spain between 2001 and 2005. Vector Borne Zoonotic Dis 9, 171-178
3. Billoir, F., de Chesse, R., Tolou, H., de Micco, P., Gould, E. A. & de Lamballerie, X. (2000). Phylogeny of the genus Flavivirus using complete coding sequences of arthropod-borne viruses and viruses with no known vector. J Gen Virol 81, 781-790
4. Bolling, B. G., Eisen, L., Moore, C. G. & Blair, C. D. (2011). Insectspecific flaviviruses from Culex mosquitoes in Colorado, with evidence of vertical transmission. Am J Trop Med Hyg 85, 169-177
5. Brackney, D. E., Scott, J. C., Sagawa, F., Woodward, J. E., Miller, N. A., Schilkey, F. D., Mudge, J., Wilusz, J., Olson, K. E. & other authors (2010). C6/36 Aedes albopictus cells have a dysfunctional antiviral RNA interference response. PLoS Negl Trop Dis 4, e856.
6. Calzolari, M., Bonilauri, P., Bellini, R., Caimi, M., Defilippo, F., Maioli, G., Albieri, A., Medici, A., Veronesi, R. & other authors (2010). Arboviral survey of mosquitoes in two northern Italian regions in 2007 and 2008. Vector Borne Zoonotic Dis 10, 875-884
7. Cammisa-Parks, H., Cisar, L. A., Kane, A. & Stollar, V. (1992). The complete nucleotide sequence of cell fusing agent (CFA): homology between the nonstructural proteins encoded by CFA and the nonstructural proteins encoded by arthropod-borne flaviviruses. Virology 189, 511-524
8. Castresana, J. (2000). Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis. Mol Biol Evol 17, 540-552
9. Charleston, M. A. & Robertson, D. L. (2002). Preferential host switching by primate lentiviruses can account for phylogenetic similarity with the primate phylogeny. Syst Biol 51, 528-535
10. Cook, S. & Holmes, E. C. (2006). A multigene analysis of the phylogenetic relationships among the flaviviruses (family: Flaviviridae) and the evolution of vector transmission. Arch Virol 151, 309-325
11. Cook, S., Bennett, S. N., Holmes, E. C., De Chesse, R., Moureau, G. & de Lamballerie, X. (2006). Isolation of a new strain of the flavivirus cell fusing agent virus in a natural mosquito population from Puerto Rico. J Gen Virol 87, 735-748
12. Cook, S., Moureau, G., Harbach, R. E., Mukwaya, L., Goodger, K., Ssenfuka, F., Gould, E., Holmes, E. C. & de Lamballerie, X. (2009). Isolation of a novel species of flavivirus and a new strain of Culex flavivirus (Flaviviridae) from a natural mosquito population in Uganda. J Gen Virol 90, 2669-2678
13. Crabtree, M. B., Sang, R. C., Stollar, V., Dunster, L. M. & Miller, B. R. (2003). Genetic and phenotypic characterization of the newly described insect flavivirus, Kamiti River virus. Arch Virol 148, 1095-1118
14. Crabtree, M. B., Nga, P. T. & Miller, B. R. (2009). Isolation and characterization of a new mosquito flavivirus, Quang Binh virus, from Vietnam. Arch Virol 154, 857-860
15. Crochu, S., Cook, S., Attoui, H., Charrel, R. N., De Chesse, R., Belhouchet, M., Lemasson, J. J., de Micco, P. & de Lamballerie, X. (2004). Sequences of flavivirus-related RNA viruses persist in DNA form integrated in the genome of Aedes spp. mosquitoes. J Gen Virol 85, 1971-1980.
16. de Lamballerie, X., Crochu, S., Billoir, F., Neyts, J., de Micco, P., Holmes, E. C. & Gould, E. A. (2002). Genome sequence analysis of Tamana bat virus and its relationship with the genus Flavivirus. J Gen Virol 83, 2443-2454
17. Drummond, A. J. & Rambaut, A. (2007). BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol Biol 7, 214.
18. Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Res 32, 1792-1797
19. Farfan-Ale, J. A., Loroñ o-Pino, M. A., Garcia-Rejon, J. E., Hovav, E., Powers, A. M., Lin, M., Dorman, K. S., Platt, K. B., Bartholomay, L. C. & other authors (2009). Detection of RNA from a novel West Nilelike virus and high prevalence of an insect-specific flavivirus in mosquitoes in the Yucatan Peninsula of Mexico. Am J Trop Med Hyg 80, 85-95
20. Farfan-Ale, J. A., Loroño-Pino, M. A, Garcia-Rejon, J.E.,Soto, V., Lin,M., Staley, M., Dorman, K. S., Bartholomay, L. C., Hovav, E. & Blitvich, B. J (2010) Detection of flaviviruses and orthobunyaviruses inmosquitoes in the Yucatan Peninsula of Mexico in 2008. Vector Borne Zoonotic Dis 10, 777-783
21. Fauquet, C. M. & Fargette, D. (2005). International Committee on Taxonomy of Viruses and the 3,142 unassigned species. Virol J 2, 64.
22. Firth, A. E. & Atkins, J. F. (2009). A conserved predicted pseudoknot in the NS2A-encoding sequence of West Nile and Japanese encephalitis flaviviruses suggests NS1' may derive from ribosomal frameshifting. Virol J 6, 14.
23. Firth, A. E., Blitvich, B. J., Wills, N. M., Miller, C. L. & Atkins, J. F. (2010). Evidence for ribosomal frameshifting and a novel overlapping gene in the genomes of insect-specific flaviviruses. Virology 399, 153-166
24. Gaunt, M. W., Sall, A. A., de Lamballerie, X., Falconar, A. K., Dzhivanian, T. I. & Gould, E. A. (2001). Phylogenetic relationships of flaviviruses correlate with their epidemiology, disease association and biogeography. J Gen Virol 82, 1867-1876
25. Gould, E. A., Moss, S. R. & Turner, S. L. (2004). Evolution and dispersal of encephalitic flaviviruses. Arch Virol Suppl 18, 65-84
26. Harbach, R. E. & Kitching, I. J. (1998). Phylogeny and classification of the Culicidae (Diptera). Syst Entomol 23, 327-370
27. Hoshino, K., Isawa, H., Tsuda, Y., Yano, K., Sasaki, T., Yuda, M., Takasaki, T., Kobayashi, M. & Sawabe, K. (2007). Genetic characterization of a new insect flavivirus isolated from Culex pipiens mosquito in Japan. Virology 359, 405-414
28. Hoshino, K., Isawa, H., Tsuda, Y., Sawabe, K. & Kobayashi, M. (2009). Isolation and characterization of a new insect flavivirus from Aedes albopictus and Aedes flavopictus mosquitoes in Japan. Virology 391, 119-129
29. Huelsenbeck, J. P. & Ronquist, F. (2001). MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17, 754-755
30. Kihara, Y., Satho, T., Eshita, Y., Sakai, K., Kotaki, A., Takasaki, T., Rongsriyam, Y., Komalamisra, N., Srisawat, R. & Lapcharoen, P. (2007). Rapid determination of viral RNA sequences in mosquitoes collected in the field. J Virol Methods 146, 372-374
31. Kim, D. Y., Guzman, H., Bueno, R., Jr, Dennett, J. A., Auguste, A. J., Carrington, C. V., Popov, V. L., Weaver, S. C., Beasley, D. W. & Tesh, R. B. (2009). Characterization of Culex flavivirus (Flaviviridae) strains isolated from mosquitoes in the United States and Trinidad. Virology 386, 154-159
32. Kuno, G. (2007). Host range specificity of flaviviruses: correlation with in vitro replication. J Med Entomol 44, 93-101
33. Kuno, G. & Chang, G. J. (2005). Biological transmission of arboviruses: reexamination of and new insights into components, mechanisms, and unique traits as well as their evolutionary trends. Clin Microbiol Rev 18, 608-637
34. Kuno, G., Chang, G. J., Tsuchiya, K. R., Karabatsos, N. & Cropp, C. B. (1998). Phylogeny of the genus Flavivirus. J Virol 72, 73-83
35. Lobo, F. P., Mota, B. E., Pena, S. D., Azevedo, V., Macedo, A. M., Tauch, A., Machado, C. R. & Franco, G. R. (2009). Virus-host coevolution: common patterns of nucleotide motif usage in Flaviviridae and their hosts. PLoS One 4, e6282.
36. Martin, D. P., Lemey, P., Lott, M., Moulton, V., Posada, D. & Lefeuvre, P. (2010). RDP3: a flexible and fast computer program for analyzing recombination. Bioinformatics 26, 2462-2463
37. Morales-Betoulle,M. E., Monzó n Pineda, M. L., Sosa, S.M., Panella, N., López, M. R., Cordón-Rosales, C., Komar, N., Powers, A. & Johnson, B. W. (2008). Culex flavivirus isolates from mosquitoes in Guatemala. J Med Entomol 45, 1187-1190
38. Moureau, G., Ninove, L., Izri, A., Cook, S., de Lamballerie, X. & Charrel, R. N. (2010). Flavivirus RNA in phlebotomine sandflies. Vector Borne Zoonotic Dis 10, 195-197
39. Pabbaraju, K., Ho, K. C., Wong, S., Fox, J. D., Kaplen, B., Tyler, S., Drebot, M. & Tilley, P. A. (2009). Surveillance of mosquito-borne viruses in Alberta using reverse transcription polymerase chain reaction with generic primers. J Med Entomol 46, 640-648
40. Posada, D. & Crandall, K. A. (1998). MODELTEST: testing the model of DNA substitution. Bioinformatics 14, 817-818
41. Pybus, O. G., Rambaut, A., Holmes, E. C. & Harvey, P. H. (2002). New inferences from tree shape: numbers of missing taxa and population growth rates. Syst Biol 51, 881-888
42. Ramsden, C., Holmes, E. C. & Charleston, M. A. (2009). Hantavirus evolution in relation to its rodent and insectivore hosts: no evidence for codivergence. Mol Biol Evol 26, 143-153
43. Reinert, J. F., Harbach, R. E. & Kitching, I. J. (2009). Phylogeny and classification of tribe Aedini (Diptera: Culicidae). Zool J Linn Soc 157, 700-794
44. Roehrig, J. T., Hunt, A. R., Johnson, A. J. & Hawkes, R. A. (1989). Synthetic peptides derived from the deduced amino acid sequence of the E-glycoprotein of Murray Valley encephalitis virus elicit antiviral antibody. Virology 171, 49-60
45. Roiz, D., Vá zquez, A., Seco, M. P., Tenorio, A. & Rizzoli, A. (2009). Detection of novel insect flavivirus sequences integrated in Aedes albopictus (Diptera: Culicidae) in Northern Italy. Virol J 6, 93.
46. Rossi, G. C. & Harbach, R. E. (2008). Phytotelmatomyia, a new neotropical subgenus of Culex (Diptera: Culicidae). Zootaxa 1879, 1-17
47. Sánchez-Seco, M. P., Vá zquez, A., Collao, X., Herná ndez, L., Aranda, C., Ruiz, S., Escosa, R., Marqué s, E., Bustillo, M. A. & other authors (2010). Surveillance of arboviruses in Spanish wetlands: detection of new flavi-and phleboviruses. Vector Borne Zoonotic Dis 10, 203-206
48. Sang, R. C., Gichogo, A., Gachoya, J., Dunster, M. D., Ofula, V., Hunt, A. R., Crabtree, M. B., Miller, B. R. & Dunster, L. M. (2003). Isolation of a new flavivirus related to cell fusing agent virus (CFAV) from fieldcollected flood-water Aedes mosquitoes sampled from a dambo in central Kenya. Arch Virol 148, 1085-1093
49. Scott, J. C., Brackney, D. E., Campbell, C. L., Bondu-Hawkins, V., Hjelle, B., Ebel, G. D., Olson, K. E. & Blair, C. D. (2010). Comparison of dengue virus type 2-specific small RNAs from RNA interferencecompetent and -incompetent mosquito cells. PLoS Negl Trop Dis 4, e848.
50. St John, O. (2007). Phylogeny of the genus Culex (Diptera: Culicidae). MRes thesis, Imperial College, London, UK.
51. *and other methods). Sunderland, MA: Sinauer Associates.
52. Stollar, V. & Thomas, V. L. (1975). An agent in the Aedes aegypti cell line (Peleg) which causes fusion of Aedes albopictus cells. Virology 64, 367-377
53. Taucher, C., Berger, A. & Mandl, C. W. (2010). A trans-complementing recombination trap demonstrates a low propensity of flaviviruses for intermolecular recombination. J Virol 84, 599-611
54. Thompson, J. D., Higgins, D. G. & Gibson, T. J. (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
55. Tolou, H. J., Couissinier-Paris, P., Durand, J. P., Mercier, V., de Pina, J. J., de Micco, P., Billoir, F., Charrel, R. N. & de Lamballerie, X. (2001). Evidence for recombination in natural populations of dengue virus type 1 based on the analysis of complete genome sequences. J Gen Virol 82, 1283-1290
56. Twiddy, S. S. & Holmes, E. C. (2003). The extent of homologous recombination in members of the genus Flavivirus. J Gen Virol 84, 429-440
57. Uzcategui, N. Y., Camacho, D., Comach, G., Cuello de Uzcategui, R., Holmes, E. C. & Gould, E. A. (2001). Molecular epidemiology of dengue type 2 virus in Venezuela: evidence for in situ virus evolution and recombination. J Gen Virol 82, 2945-2953.