Persistence of chikungunya ECSA genotype and local outbreak in an upper medium class neighborhood in Northeast Brazil

Autoři: Jaqueline Goes de Jesus aff001;  Gabriel da Luz Wallau aff002;  Maricelia Lima Maia aff003;  Joilson Xavier aff005;  Maria Aparecida Oliveira Lima aff003;  Vagner Fonseca aff005;  Alvaro Salgado de Abreu aff005;  Stephane Fraga de Oliveira Tosta aff005;  Helineide Ramos do Amaral aff003;  Italo Andrade Barbosa Lima aff001;  Paloma Viana Silva aff001;  Daiana Carlos dos Santos aff001;  Aline Sousa de Oliveira aff001;  Siane Campos de Souza aff001;  Melissa Barreto Falcão aff004;  Erenilde Cerqueira aff003;  Laís Ceschini Machado aff002;  Mariana Carolina Sobral aff002;  Tatiana Maria Teodoro Rezende aff002;  Mylena Ribeiro Pereira aff007;  Felicidade Mota Pereira aff008;  Zuinara Pereira Gusmão Maia aff008;  Rafael Freitas de Oliveira França aff007;  André Luiz de Abreu aff009;  Carlos Frederico Campelo de Albuquerque e Melo aff010;  Nuno Rodrigues Faria aff011;  Rivaldo Venâncio da Cunha aff012;  Marta Giovanetti aff005;  Luiz Carlos Junior Alcantara aff005
Působiště autorů: Laboratório de Patologia Experimental, Instituto Gonçalo Moniz, Fundação Oswaldo Cruz, Salvador, Brazil aff001;  Departamento de Entomologia, Instituto Aggeu Magalhães, Fundação Oswaldo Cruz, Recife, Brazil aff002;  Universidade Estadual de Feira de Santana, Feira de Santana, Brazil aff003;  Secretaria de Saúde de Feira de Santana, Ministério da Saúde, Feira de Santana, Brazil aff004;  Laboratório de Genética Celular e Molecular, ICB, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brazil aff005;  KwaZulu-Natal Research Innovation and Sequencing Platform (KRISP), College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa aff006;  Departamento de Virologia, Instituto Aggeu Magalhaes, Fundação Oswaldo Cruz, Recife, Brazil aff007;  Laboratório Central de Saúde Pública da Bahia, Salvador, Bahia, Brazil aff008;  Secretaria de Vigilância em Saúde, Coordenação Geral de Laboratórios de Saúde Pública, Ministério da Saúde, Brasília, Brazil aff009;  Organização Pan-Americana da Saúde/Organização Mundial da Saúde—(OPAS/OMS), Brasília, Brazil aff010;  Department of Zoology, University of Oxford, Oxford, United Kingdom aff011;  Departamento de Clínica Médica, Faculdade de Medicina, Universidade Federal do Mato Grosso do Sul, Campo Grande, Brazil aff012;  Fundação Oswaldo Cruz, Rio de Janeiro, Brazil aff013;  Laboratório de Flavivírus, Instituto Oswaldo Cruz, Fundação Oswaldo Cruz, Rio de Janeiro, Brazil aff014
Vyšlo v časopise: PLoS ONE 15(1)
Kategorie: Research Article


The chikungunya East/Central/South/Africa virus lineage (CHIKV-ECSA) was first detected in Brazil in the municipality of Feira de Santana (FS) by mid 2014. Following that, a large number of CHIKV cases have been notified in FS, which is the second-most populous city in Bahia state, northeastern Brazil, and plays an important role on the spread to other Brazilian states due to climate conditions and the abundance of competent vectors. To better understand CHIKV dynamics in Bahia state, we generated 5 complete genome sequences from a local outbreak raised in Serraria Brasil, a neighbourhood in FS, by next-generation sequencing using Illumina approach. Phylogenetic reconstructions revealed that the new FS genomes belongs to the ECSA genotype and falls within a single strongly supported monophyletic clade that includes other older CHIKV sequences from the same location, suggesting the persistence of the virus during distinct epidemic seasons. We also performed minor variants analysis and found a small number of SNPs per sample (b_29L and e_45SR = 16 SNPs, c_29SR = 29 and d_45PL and f_45FL = 21 SNPs). Out of the 93 SNPs found, 71 are synonymous, 21 are non-synonymous and one generated a stop codon. Although those mutations are not related to the increase of virus replication and/or infectivity, some SNPs were found in non-structural proteins which may have an effect on viral evasion from the mammal immunological system. These findings reinforce the needing of further studies on those variants and of continued genomic surveillance strategies to track viral adaptations and to monitor CHIKV epidemics for improved public health control.

Klíčová slova:

Arboviral infections – Brazil – Genome analysis – Chikungunya infection – Chikungunya virus – Infectious disease surveillance – Phylogenetic analysis – Sequence alignment


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