tetano
Editor, Senior Moderator
J Med Virol
. 2022 Jan 20.
doi: 10.1002/jmv.27607. Online ahead of print.
SARS-CoV-2 intralineage variation and temporal patterns of COVID-19 risk factors in three cities of Southeastern Brazil: age, sex, and race
André Eterovic[SUP] 1 [/SUP], Márcia Aparecida Sperança[SUP] 2 [/SUP], Ivana Barros de Campos[SUP] 3 [/SUP], Daniela Rodrigues Colpas[SUP] 3 [/SUP], Itatiana Ferreira Rodart[SUP] 3 [/SUP], Andréia Moreira Dos Santos Carmo[SUP] 3 [/SUP], Elaine Cristina de Mattos[SUP] 3 [/SUP], Vilma Dos Santos Menezes Gaiotto Daros[SUP] 3 [/SUP], Maria Cecilia Cergole-Novella[SUP] 3 [/SUP]
Affiliations
Abstract
The Santo André Regional Center from Adolfo Lutz Institute evaluated 91,537 samples by RT-PCR to detect SARS-CoV-2 from March 2020 to April 2021. The age, sex, and race of patients from three cities in southeastern Brazil, namely São Bernardo do Campo (SBC), Diadema and Mauá were assessed in association to the rate of positive results using generalized linear models. Circulating lineages were obtained from GISAID and intra lineage genetic variation was investigated employing Lasergene software. A declining number of reported cases around the Oct-Nov 2020 separate two epidemic waves in the three cities. Mauá differed by the highest positive RT-PCR scores in Jan and Feb. GISAID classification of 38 SARS-CoV-2 complete genomic sequences showed circulation of lineages P.1, B.1.1.28, P.2, B.1.1.332; P.1, P.2, B.1.1.28, B.1.1.33; and P.1, P.2 in SBC, Diadema and Mauá, respectively. Intra lineage variation revealed a significant amino-acid substitution in the ORF3a encoding protein (A33S) present in four out of six (67%) P.1 Mauá isolates. As ORF3a encodes a non-selective Ca2+ permeable cation channel, supposed to interfere in airway homeostasis, specific mutations could increase its pathogenic effect resulting in a higher number of symptomatic individuals explaining why the second wave was more intense in Mauá city. This article is protected by copyright. All rights reserved.
Keywords: COVID-19; Coronavirus infection; Epidemiology; Pandemic; Public health; RT-PCR.
. 2022 Jan 20.
doi: 10.1002/jmv.27607. Online ahead of print.
SARS-CoV-2 intralineage variation and temporal patterns of COVID-19 risk factors in three cities of Southeastern Brazil: age, sex, and race
André Eterovic[SUP] 1 [/SUP], Márcia Aparecida Sperança[SUP] 2 [/SUP], Ivana Barros de Campos[SUP] 3 [/SUP], Daniela Rodrigues Colpas[SUP] 3 [/SUP], Itatiana Ferreira Rodart[SUP] 3 [/SUP], Andréia Moreira Dos Santos Carmo[SUP] 3 [/SUP], Elaine Cristina de Mattos[SUP] 3 [/SUP], Vilma Dos Santos Menezes Gaiotto Daros[SUP] 3 [/SUP], Maria Cecilia Cergole-Novella[SUP] 3 [/SUP]
Affiliations
- PMID: 35060147
- DOI: 10.1002/jmv.27607
Abstract
The Santo André Regional Center from Adolfo Lutz Institute evaluated 91,537 samples by RT-PCR to detect SARS-CoV-2 from March 2020 to April 2021. The age, sex, and race of patients from three cities in southeastern Brazil, namely São Bernardo do Campo (SBC), Diadema and Mauá were assessed in association to the rate of positive results using generalized linear models. Circulating lineages were obtained from GISAID and intra lineage genetic variation was investigated employing Lasergene software. A declining number of reported cases around the Oct-Nov 2020 separate two epidemic waves in the three cities. Mauá differed by the highest positive RT-PCR scores in Jan and Feb. GISAID classification of 38 SARS-CoV-2 complete genomic sequences showed circulation of lineages P.1, B.1.1.28, P.2, B.1.1.332; P.1, P.2, B.1.1.28, B.1.1.33; and P.1, P.2 in SBC, Diadema and Mauá, respectively. Intra lineage variation revealed a significant amino-acid substitution in the ORF3a encoding protein (A33S) present in four out of six (67%) P.1 Mauá isolates. As ORF3a encodes a non-selective Ca2+ permeable cation channel, supposed to interfere in airway homeostasis, specific mutations could increase its pathogenic effect resulting in a higher number of symptomatic individuals explaining why the second wave was more intense in Mauá city. This article is protected by copyright. All rights reserved.
Keywords: COVID-19; Coronavirus infection; Epidemiology; Pandemic; Public health; RT-PCR.