SARS-CoV-2 introduction and lineage dynamics across three epidemic peaks in Southern Brazil: massive spread of P.1

被引：13

作者：

Muterle Varela, Ana Paula ^{[1
]}

Prichula, Janira ^{[1
]}

Mayer, Fabiana Quoos ^{[2
]}

Salvato, Richard Steiner ^{[3
]}

Sant'Anna, Fernando Hayashi ^{[4
]}

Gregianini, Tatiana Schaffer ^{[3
]}

Martins, Leticia Garay ^{[5
]}

Seixas, Adriana ^{[1
]}

Gorini da Veiga, Ana Beatriz ^{[1
]}

机构：

[1] Univ Fed Ciencias Saude Porto Alegre UFCSPA, Rua Sarmento Leite 245, BR-90050170 Porto Alegre, RS, Brazil

[2] Ctr Pesquisa Saude Anim, Inst Pesquisas Vet Desiderio Finamor, Dept Diagnost & Pesquisa Agr, Secretaria Agr Pecuaria & Desenvolvimento Rural, Estr Conde 6000, BR-92990000 Eldorado Do Sul, RS, Brazil

[3] Ctr Estadual Vigilancia Saude Secretaria Saude Es, Lab Cent Saude Publ, Av Ipiranga 5400, BR-90610000 Porto Alegre, RS, Brazil

[4] Hosp Moinhos Vento, PROADI SUS, Rua Ramiro Barcelos 910, Porto Alegre, RS, Brazil

[5] Ctr Estadual Vigilancia Saude Secretaria Saude Es, Av Ipiranga 5400, BR-90610000 Porto Alegre, RS, Brazil

来源：

INFECTION GENETICS AND EVOLUTION | 2021年 / 96卷

关键词：

Severe acute respiratory syndrome coronavirus 2; Genomic diversity; P.1; lineage; Epidemic peaks; Brazil; READ ALIGNMENT;

D O I：

10.1016/j.meegid.2021.105144

中图分类号：

R51 [传染病];

学科分类号：

100401 ;

摘要：

Genomic surveillance of SARS-CoV-2 is paramount for understanding viral dynamics, contributing to disease control. This study analyzed SARS-CoV-2 genomic diversity in Rio Grande do Sul (RS), Brazil, including the first reported case in each Regional Health Coordination and cases from three epidemic peaks. Ninety SARS-CoV-2 genomes from RS were sequenced and analyzed through comparison with SARS-CoV-2 datasets available in GISAID for phylogenetic inference and mutation analysis. Among the first reported cases, we found the following lineages: B.1 (33.3%), B.1.1.28 (26.7%), B.1.1 (13.3%), B.1.1.33 (10.0%), and A (6.7%), evidencing SARS-CoV-2 introduction by both international origin and community-driven transmission. We found predominance of B.1.1.33 (50.0%) and B.1.1.28 (35.0%) during the first epidemic peak (July-August 2020), emergence of P.2 (55.6%) in the second peak (November-December 2020), and massive spread of P.1 and related sequences (78.4%), such as P.1-like-II, P.1.1 and P.1.2 in the third peak (February-April, 2021). Eighteen novel mutation combinations were found among P.1 genomes, and 22 different spike mutations and/or deletions among P.1 and related sequences. This study shows the dispersion of SARS-CoV-2 lineages in Southern Brazil and describes SARS-CoV-2 diversity during three epidemic peaks, highlighting the spread of P.1 and the high genetic diversity of currently circulating lineages. Genomic monitoring of SARS-CoV-2 is essential to guide health authorities' decisions to control COVID-19 in Brazil.

引用

页数：10

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