Multiple Introductions Followed by Ongoing Community Spread of SARS-CoV-2 at One of the Largest Metropolitan Areas of Northeast Brazil

被引：34

作者：

Santos Paiva, Marcelo Henrique ^{[1
,2
]}

Duarte Guedes, Duschinka Ribeiro ^{[2
]}

Docena, Cassia ^{[3
]}

Bezerra, Matheus Filgueira ^{[4
]}

Dezordi, Filipe Zimmer ^{[2
,5
]}

Machado, Lais Ceschini ^{[2
]}

Krokovsky, Larissa ^{[2
]}

Helvecio, Elisama ^{[2
]}

da Silva, Alexandre Freitas ^{[2
,5
]}

Silva Vasconcelos, Luydson Richardson ^{[6
]}

Rezende, Antonio Mauro ^{[4
,5
]}

Ribeiro da Silva, Severino Jefferson ^{[7
]}

da Silva Sales, Kamila Gaudencio ^{[8
]}

Lima Figueiredo de Sa, Bruna Santos ^{[4
]}

da Cruz, Derciliano Lopes ^{[2
]}

Cavalcanti, Claudio Eduardo ^{[7
]}

de Menezes Neto, Armando ^{[6
]}

Alves da Silva, Caroline Targino ^{[6
]}

Germano Mendes, Renata Pessoa ^{[6
]}

Lopes da Silva, Maria Almerice ^{[6
]}

Graf, Tiago ^{[9
]}

Resende, Paola Cristina ^{[10
]}

Bello, Gonzalo ^{[11
]}

Barros, Michelle da Silva ^{[8
]}

Correia da Nascimento, Wheverton Ricardo ^{[6
,12
]}

Loyo Arcoverde, Rodrigo Moraes ^{[6
]}

Albuquerque Bezerra, Luciane Caroline ^{[13
]}

Brandao-Filho, Sinval Pinto ^{[6
]}

Junqueira Ayres, Constancia Flavia ^{[2
]}

Wallau, Gabriel Luz ^{[2
,5
]}

机构：

[1] Univ Fed Pernambuco UFPE, Nucleo Ciencias Vida, Ctr Acad Agreste, Rodovia BR-104,Km 59 Nova Caruaru, BR-55002970 Caruaru, Brazil

[2] Fundacao Oswaldo Cruz, Dept Entomol, Inst Aggeu Magalhaes IAM, FIOCRUZ, BR-50670420 Recife, PE, Brazil

[3] Fundacao Oswaldo Cruz, FIOCRUZ, Nucleo Plataformas Tecnol NPT, Inst Aggeu Magalhaes IAM, BR-50670420 Recife, PE, Brazil

[4] Fundacao Oswaldo Cruz, Inst Aggeu Magalhaes IAM, FIOCRUZ, Dept Microbiol, BR-50670420 Recife, PE, Brazil

[5] Fundacao Oswaldo Cruz, FIOCRUZ, Inst Aggeu Magalhaes IAM, Nucleo Bioinformat NBI, BR-50670420 Recife, PE, Brazil

[6] Fundacao Oswaldo Cruz, FIOCRUZ, Inst Aggeu Magalhaes IAM, Dept Parasitol, BR-50670420 Recife, PE, Brazil

[7] Fundacao Oswaldo Cruz, FIOCRUZ, Inst Aggeu Magalhaes IAM, Lab Virol & Terapia Expt LAVITE, BR-50670420 Recife, PE, Brazil

[8] Fundacao Oswaldo Cruz, FIOCRUZ, Inst Aggeu Magalhaes IAM, Dept Imunol, BR-50670420 Recife, PE, Brazil

[9] Fundacao Oswaldo Cruz, Inst Goncalo Moniz, BR-40296710 Salvador, BA, Brazil

[10] Fundacao Oswaldo Cruz, FIOCRUZ, Oswaldo Cruz Inst IOC, Lab Resp Viruses & Measles, BR-21040900 Rio De Janeiro, Brazil

[11] Inst Oswaldo Cruz, FIOCRUZ, Lab AIDS & Imunol Mol, BR-21040900 Rio De Janeiro, Brazil

[12] Univ Fed Pernambuco UFPE, Ctr Ciencias Med, Dept Med Trop, BR-50670901 Recife, PE, Brazil

[13] Secretaria Execut Vigilancia Saude SEVS PE, Secretaria Saude Pernambuco SES PE, BR-50751530 Recife, PE, Brazil

来源：

VIRUSES-BASEL | 2020年 / 12卷 / 12期

关键词：

SARS-CoV2; coronavirus; outbreak; Brazil; phylogenetics; ALIGNMENT; PROTEIN; FORMAT; SPIKE;

D O I：

10.3390/v12121414

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

Multiple epicenters of the SARS-CoV-2 pandemic have emerged since the first pneumonia cases in Wuhan, China, such as Italy, USA, and Brazil. Brazil is the third-most affected country worldwide, but genomic sequences of SARS-CoV-2 strains are mostly restricted to states from the Southeast region. Pernambuco state, located in the Northeast region, is the sixth most affected Brazilian state, but very few genomic sequences from the strains circulating in this region are available. We sequenced 101 strains of SARS-CoV-2 from patients presenting Covid-19 symptoms that reside in Pernambuco. Phylogenetic reconstructions revealed that all genomes belong to the B lineage and most of the samples (88%) were classified as lineage B.1.1. We detected multiple viral introductions from abroad (likely from Europe) as well as six local B.1.1 clades composed by Pernambuco only strains. Local clades comprise sequences from the capital city (Recife) and other country-side cities, corroborating the community spread between different municipalities of the state. These findings demonstrate that different from Southeastern Brazilian states where the epidemics were majorly driven by one dominant lineage (B.1.1.28 or B.1.1.33), the early epidemic phase at the Pernambuco state was driven by multiple B.1.1 lineages seeded through both national and international traveling.

引用

页数：18

共 48 条

[11] Epidemiological and clinical characteristics of the first 557 successive patients with COVID-19 in Pernambuco state, Northeast Brazil [J].