Mem Inst Oswaldo Cruz, Rio de Janeiro, FAST TRACK
Short communication

Genomic and phylogenetic characterization of an imported case of SARS-CoV-2 in Amazonas State, Brazil [ACCEPTED ARTICLES / PRELIMINARY VERSION]

Valdinete Alves do Nascimento1,2, André Lima Guerra Corado1,2, Fernanda Oliveira do Nascimento1,3, Ágatha Kelly Araújo da Costa1,3, Debora Camila Gomes Duarte1, Michele Silva de Jesus 1, Sérgio Luiz Bessa Luz1,3, Luciana Mara Fé Gonçalves4, Cristiano Fernandes da Costa4, Edson Delatorre5, Felipe Gomes Naveca1,2,3,6,+

1Instituto Leônidas e Maria Deane, Fiocruz, Amazonas, Brasil
2Programa de Pós-Graduação em Biologia Celular e Molecular Fundação, Instituto Oswaldo Cruz, Fiocruz, Rio de Janeiro, Brasil
3Programa de Pós-Graduação em Biologia da Interação Patógeno-Hospedeiro, Instituto Leônidas e Maria Deane, Amazonas, Brasil
4Fundação de Vigilância em Saúde do Amazonas, Amazonas, Brasil
5Departamento de Biologia, Centro de Ciências Exatas, Naturais e da Saúde, Universidade Federal do Espírito Santo, Espírito Santo, Brasil
6Rede Genômica em Saúde do Estado do Amazonas, Amazonas, Brasil

DOI: 10.1590/0074-02760200310
ABSTRACT

A new coronavirus (SARS-CoV-2) is currently causing a life-threatening pandemic. In this study, we report the complete genome sequencing and genetic characterization of a SARS-CoV-2 detected in Manaus, Amazonas, Brazil, and the protocol we designed to generate high-quality SARS-CoV-2 full genome data. The isolate was obtained from an asymptomatic carrier returning from Madrid, Spain. Nucleotide sequence analysis showed a total of nine mutations in comparison with the original Human case in Wuhan, China, and support this case as belonging to the recently proposed lineage A.2. Phylogeographic analysis further confirmed the likely European origin of this case. To our knowledge, this is the first SARS-CoV-2 genome obtained from the North Brazilian Region. We believe that the information generated in this study may contribute to the ongoing efforts toward the SARS-CoV-2 emergence.

+ Corresponding author: felipe.naveca@fiocruz.br
ORCID https://orcid.org/0000-0002-2888-1060
Received 14 June 2020
Accepted 15 June 2020

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