Pialoux G, Gauzere BA, Jaureguiberry S, Strobel M. Chikungunya, an epidemic arbovirosis. Lancet Infect Dis. 2007;7:319–27.
Article
PubMed
Google Scholar
Pan American Health Organization. Preparedness and response for Chikungunya virus: introduction in the Americas. Washington, DC: PAHO/CDC; 2011.
Google Scholar
Weaver SC. Arrival of Chikungunya virus in the new world: prospects for spread and impact on public health. PLoS Negl Trop Dis. 2014;8, e2921.
Article
PubMed
PubMed Central
Google Scholar
Tsetsarkin KA, Chen R, Yun R, Rossi SL, Plante KS, Guerbois M, et al. Multi-peaked adaptive landscape for Chikungunya virus evolution predicts continued fitness optimization in Aedes albopictus mosquitoes. Nat Commun. 2014;5:4084.
Article
CAS
PubMed
Google Scholar
Soumahoro MK, Fontenille D, Turbelin C, Pelat C, Boyd A, Flahault A, et al. Imported Chikungunya virus infection. Emerg Infect Dis. 2010;16:162–3.
Article
PubMed
PubMed Central
Google Scholar
Leparc-Goffart I, Nougairede A, Cassadou S, Prat C, de Lamballerie X. Chikungunya in the Americas. Lancet. 2014;383:514.
Article
PubMed
Google Scholar
Pan American Health Organization. Chikungunya. Washington, DC: PAHO. http://www.paho.org/hq/index.php?option=com_topics&view=article&id=343&Itemid=40931.
Brazilian Health Portal. Boletim Epidemiológico. http://portalsaude.saude.gov.br/. 2015.
Roth A, Mercier A, Lepers C, Hoy D, Duituturaga S, Benyon E, et al. Concurrent outbreaks of dengue, Chikungunya and Zika virus infections – an unprecedented epidemic wave of mosquito-borne viruses in the Pacific 2012–2014. Euro Surveill. 2014;19:1.
Article
Google Scholar
Villabona-Arenas CJ, de Oliveira JL, Capra Cde S, Balarini K, Loureiro M, Fonseca CR, et al. Detection of four dengue serotypes suggests rise in hyperendemicity in urban centers of Brazil. PLoS Negl Trop Dis. 2014;8, e2620.
Article
PubMed
PubMed Central
Google Scholar
Rothberg JM, Hinz W, Rearick TM, Schultz J, Mileski W, Davey M, et al. An integrated semiconductor device enabling non-optical genome sequencing. Nature. 2011;475:348–52.
Article
CAS
PubMed
Google Scholar
Chevreux B, Pfisterer T, Drescher B, Driesel AJ, Muller WEG, Wetter T, et al. Using the miraEST assembler for reliable and automated mRNA transcript assembly and SNP detection in sequenced ESTs. Genome Res. 2004;14:1147–59.
Article
CAS
PubMed
PubMed Central
Google Scholar
Benson DA, Clark K, Karsch-Mizrachi I, Lipman DJ, Ostell J, Sayers EW. GenBank. Nucleic Acids Res. 2014;42:D32–7.
Article
CAS
PubMed
Google Scholar
Katoh K, Kuma K, Toh H, Miyata T. MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res. 2005;33:511–8.
Article
CAS
PubMed
PubMed Central
Google Scholar
Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O. New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol. 2010;59:307–21.
Article
CAS
PubMed
Google Scholar
Drummond AJ, Suchard MA, Xie D, Rambaut A. Bayesian phylogenetics with BEAUti and the BEAST 1.7. Mol Biol Evol. 2012;29:1969–73.
Article
CAS
PubMed
PubMed Central
Google Scholar
Darriba D, Taboada GL, Doallo R, Posada D. jModelTest 2: more models, new heuristics and parallel computing. Nat Methods. 2012;9:772.
Article
CAS
PubMed
PubMed Central
Google Scholar
Drummond AJ, Ho SY, Phillips MJ, Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 2006;4, e88.
Article
PubMed
PubMed Central
Google Scholar
Gill MS, Lemey P, Faria NR, Rambaut A, Shapiro B, Suchard MA. Improving Bayesian population dynamics inference: a coalescent-based model for multiple loci. Mol Biol Evol. 2013;30:713–24.
Article
CAS
PubMed
Google Scholar
Drummond AJ, Rambaut A, Shapiro B, Pybus OG. Bayesian coalescent inference of past population dynamics from molecular sequences. Mol Biol Evol. 2005;22:1185–92.
Article
CAS
PubMed
Google Scholar
Honorio NA, Silva Wda C, Leite PJ, Goncalves JM, Lounibos LP, Lourenco-de-Oliveira R. Dispersal of Aedes aegypti and Aedes albopictus (Diptera: Culicidae) in an urban endemic dengue area in the State of Rio de Janeiro, Brazil. Mem Inst Oswaldo Cruz. 2003;98:191–8.
Article
PubMed
Google Scholar
Simini F, Maritan A, Neda Z. Human mobility in a continuum approach. PLoS One. 2013;8, e60069.
Article
CAS
PubMed
PubMed Central
Google Scholar
Deville P, Linard C, Martin S, Gilbert M, Stevens FR, Gaughan AE, et al. Dynamic population mapping using mobile phone data. PNAS. 2014;111:15888–93.
Article
CAS
PubMed
PubMed Central
Google Scholar
Socioeconomic Data and Applications Center (sedac). Gridded population of the world, version 3 (GPWv3) and the Global Rural–urban Mapping Project (GRUM); 2010. http://sedac.ciesin.columbia.edu/data/collection/gpw-v3.
Global Administrative Areas. http://www.gadm.org.
Nelder JA, Mead R. A simplex method for function minimization. Comput J. 1965;7:308–13.
Article
Google Scholar
Team RC. R: a language and environment for computing. Vienna: R Foundation for Statistical Computing; 2014.
Google Scholar
Carvalho RG, Lourenco-de-Oliveira R, Braga IA. Updating the geographical distribution and frequency of Aedes albopictus in Brazil with remarks regarding its range in the Americas. Mem Inst Oswaldo Cruz. 2014;109:787–96.
Article
PubMed
PubMed Central
Google Scholar
Saúde MD: Dengue: Notificações registradas no Sistema de Informação de Agravos de Notificação – SINAN, Brazil. http://dtr2004.saude.gov.br/sinanweb.
Tsetsarkin KA, Weaver SC. Sequential adaptive mutations enhance efficient vector switching by Chikungunya virus and its epidemic emergence. PLoS Pathog. 2011;7, e1002412.
Article
CAS
PubMed
PubMed Central
Google Scholar
Volk SM, Chen R, Tsetsarkin KA, Adams AP, Garcia TI, Sall AA, et al. Genome-scale phylogenetic analyses of chikungunya virus reveal independent emergences of recent epidemics and various evolutionary rates. J Virol. 2010;84:6497–504.
Article
CAS
PubMed
PubMed Central
Google Scholar
Filipe AF, Pinto MR. Arbovirus studies in Luanda, Angola. 2. Virological and serological studies during an outbreak of dengue-like disease caused by the Chikungunya virus. Bull World Health Organ. 1973;49:37–40.
CAS
PubMed
PubMed Central
Google Scholar
IBGE. Instituto Brasileiro de Geografia e Estatistica (SIDRA) Available at http://www.sidra.ibge.gov.br/bda/tabela/listabl.asp?c=3173&z=t&o=3. Accessed 07 Nov 2014.
Vasconcelos PFC, Travassos da Rosa APA, Degallier N, Travassos da Rosa JFS, Pinheiro FR. Clinical and ecoepidemiological situation of human arboviruses in Brazilian Amazonia. J Braz Assoc Adv Sci. 1992;43:117–24.
Google Scholar
Codeco CT, Lima AW, Araujo SC, Lima JB, Maciel-de-Freitas R, Honorio NA, et al. Surveillance of Aedes aegypti: Comparison of House Index with Four Alternative Traps. PLoS Negl Trop Dis. 2015;9, e0003475.
Article
PubMed
PubMed Central
Google Scholar
Staples JE, Fischer M. Chikungunya virus in the Americas–what a vectorborne pathogen can do. N Engl J Med. 2014;371:887–9.
Article
PubMed
PubMed Central
Google Scholar
Powers AM, Brault AC, Shirako Y, et al. Evolutionary relationships and systematics of the alphaviruses. J Virol. 2001;75:10118–31.
Article
CAS
PubMed
PubMed Central
Google Scholar
Hassing RJ, Leparc-Goffart I, Tolou H, van Doornum G, van Genderen PJ. Cross-reactivity of antibodies to viruses belonging to the Semliki forest serocomplex. Euro surveillance 2010; 15.
Sam IC, Chan YF, Chan SY, Loong SK, Chin HK, Hooi PS, et al. Chikungunya virus of Asian and Central/East African genotypes in Malaysia. J Clin Virol. 2009;46:180–3.
Article
CAS
PubMed
Google Scholar
Vega-Rúa A, Zouache K, Girod R, Failloux A-B, Lourenço-de-Oliveira R. High level of vector competence of Aedes aegypti and Aedes albopictus from ten American countries as a crucial factor in the spread of Chikungunya virus. J Virol. 2014;88:6294–306.
Article
PubMed
PubMed Central
Google Scholar
Coelho GE. Challenges in the control of Aedes aegypti. Rev Inst Med Trop Sao Paulo. 2012;54:S13–14.
Article
PubMed
Google Scholar
Wesolowski A, Eagle N, Tatem AJ, Smith DL, Noor AM, Snow RW, et al. Quantifying the impact of human mobility on malaria. Science. 2012;338:267–70.
Article
CAS
PubMed
PubMed Central
Google Scholar
Apandi Y, Nazni WA, Noor Azleen ZA, Vythilingam I, Noorazian MY, Azahari AH, et al. The first isolation of Chikungunya virus from non-human primates in Malaysia. J Gen Molec Virol. 2009;1:35–9.
Google Scholar
Taylor RM, FdC J, et al. An epidemiological study of jungle yellow fever in an endemic area in Brazil; epidemiology of human infections; investigation of vertebrate hosts and arthropod vectors. AmJTrop Med Hyg. 1946;26:69.
CAS
Google Scholar