Cargando…

Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil

Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) is responsible for causing Coronavirus Disease-2019 (COVID-19), a heterogeneous clinical condition that manifests varying symptom severity according to the demographic profile of the studied population. While many studies have focused on t...

Descripción completa

Detalles Bibliográficos
Autores principales: Dantas, Anna Carolina S., Oliveira, Hellen B. M., Gomes, Camila P., Alves, Daniele L., Infante, Priscilla D. B., Caitité, Rosimara de J. A., Fritsch, Hegger M., Cucco, Marina S., Silva, Lucas S. C., Oliveira, Caline N. T., Bittencourt, Rafaela de S., Amorim, Aline T., Nascimento, Ana Luisa P., Marinho, Francely A. G. C., de Medeiros, Danielle S., de Oliveira, Márcio G. G., Mistro, Sostenes, de Melo, Fabricio F., Pereira, Taiana T. S., Guimarães, Ana M. S., Timenetsky, Jorge, Moreira, Pablo Maciel B., de Oliveira, Sandra Helena P., Alcantara, Luiz C. J., Giovanetti, Marta, Santos, Luciane A., Fonseca, Vagner, Barreto, Fernanda K., Campos, Guilherme B., Marques, Lucas M.
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2022
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9699198/
https://www.ncbi.nlm.nih.gov/pubmed/36366521
http://dx.doi.org/10.3390/v14112424
_version_ 1784839012651892736
author Dantas, Anna Carolina S.
Oliveira, Hellen B. M.
Gomes, Camila P.
Alves, Daniele L.
Infante, Priscilla D. B.
Caitité, Rosimara de J. A.
Fritsch, Hegger M.
Cucco, Marina S.
Silva, Lucas S. C.
Oliveira, Caline N. T.
Bittencourt, Rafaela de S.
Amorim, Aline T.
Nascimento, Ana Luisa P.
Marinho, Francely A. G. C.
de Medeiros, Danielle S.
de Oliveira, Márcio G. G.
Mistro, Sostenes
de Melo, Fabricio F.
Pereira, Taiana T. S.
Guimarães, Ana M. S.
Timenetsky, Jorge
Moreira, Pablo Maciel B.
de Oliveira, Sandra Helena P.
Alcantara, Luiz C. J.
Giovanetti, Marta
Santos, Luciane A.
Fonseca, Vagner
Barreto, Fernanda K.
Campos, Guilherme B.
Marques, Lucas M.
author_facet Dantas, Anna Carolina S.
Oliveira, Hellen B. M.
Gomes, Camila P.
Alves, Daniele L.
Infante, Priscilla D. B.
Caitité, Rosimara de J. A.
Fritsch, Hegger M.
Cucco, Marina S.
Silva, Lucas S. C.
Oliveira, Caline N. T.
Bittencourt, Rafaela de S.
Amorim, Aline T.
Nascimento, Ana Luisa P.
Marinho, Francely A. G. C.
de Medeiros, Danielle S.
de Oliveira, Márcio G. G.
Mistro, Sostenes
de Melo, Fabricio F.
Pereira, Taiana T. S.
Guimarães, Ana M. S.
Timenetsky, Jorge
Moreira, Pablo Maciel B.
de Oliveira, Sandra Helena P.
Alcantara, Luiz C. J.
Giovanetti, Marta
Santos, Luciane A.
Fonseca, Vagner
Barreto, Fernanda K.
Campos, Guilherme B.
Marques, Lucas M.
author_sort Dantas, Anna Carolina S.
collection PubMed
description Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) is responsible for causing Coronavirus Disease-2019 (COVID-19), a heterogeneous clinical condition that manifests varying symptom severity according to the demographic profile of the studied population. While many studies have focused on the spread of COVID-19 in large urban centers in Brazil, few have evaluated medium or small cities in the Northeast region. The aims of this study were: (i) to identify risk factors for mortality from SARS-CoV-2 infection, (ii) to evaluate the gene expression patterns of key immune response pathways using nasopharyngeal swabs of COVID-19 patients, and (iii) to identify the circulating SARS-CoV-2 variants in the residents of a medium-sized city in Northeast Brazil. A total of 783 patients infected with SARS-CoV-2 between May 2020 and August 2021 were included in this study. Clinical-epidemiological data from patients who died and those who survived were compared. Patients were also retrospectively divided into three groups based on disease severity: asymptomatic, mild, and moderate/severe. Samples were added to a qPCR array for analyses of 84 genes involved with immune response pathways and sequenced using the Oxford Nanopore MinION technology. Having pre-existing comorbidity; being male; having cardiovascular disease, diabetes, and/or chronic obstructive pulmonary disease; and PCR cycle threshold (Ct) values under 22 were identified as risk factors for mortality. Analysis of the expression profiles of inflammatory pathway genes showed that the greater the infection severity, the greater the activation of inflammatory pathways, triggering the cytokine storm and downregulating anti-inflammatory pathways. Viral genome analysis revealed the circulation of multiple lineages, such as B.1, B.1.1.28, Alpha, and Gamma, suggesting that multiple introduction events had occurred over time. This study’s findings help identify the specific strains and increase our understanding of the true state of local health. In addition, our data demonstrate that epidemiological and genomic surveillance together can help formulate public health strategies to guide governmental actions.
format Online
Article
Text
id pubmed-9699198
institution National Center for Biotechnology Information
language English
publishDate 2022
publisher MDPI
record_format MEDLINE/PubMed
spelling pubmed-96991982022-11-26 Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil Dantas, Anna Carolina S. Oliveira, Hellen B. M. Gomes, Camila P. Alves, Daniele L. Infante, Priscilla D. B. Caitité, Rosimara de J. A. Fritsch, Hegger M. Cucco, Marina S. Silva, Lucas S. C. Oliveira, Caline N. T. Bittencourt, Rafaela de S. Amorim, Aline T. Nascimento, Ana Luisa P. Marinho, Francely A. G. C. de Medeiros, Danielle S. de Oliveira, Márcio G. G. Mistro, Sostenes de Melo, Fabricio F. Pereira, Taiana T. S. Guimarães, Ana M. S. Timenetsky, Jorge Moreira, Pablo Maciel B. de Oliveira, Sandra Helena P. Alcantara, Luiz C. J. Giovanetti, Marta Santos, Luciane A. Fonseca, Vagner Barreto, Fernanda K. Campos, Guilherme B. Marques, Lucas M. Viruses Article Severe Acute Respiratory Syndrome Coronavirus-2 (SARS-CoV-2) is responsible for causing Coronavirus Disease-2019 (COVID-19), a heterogeneous clinical condition that manifests varying symptom severity according to the demographic profile of the studied population. While many studies have focused on the spread of COVID-19 in large urban centers in Brazil, few have evaluated medium or small cities in the Northeast region. The aims of this study were: (i) to identify risk factors for mortality from SARS-CoV-2 infection, (ii) to evaluate the gene expression patterns of key immune response pathways using nasopharyngeal swabs of COVID-19 patients, and (iii) to identify the circulating SARS-CoV-2 variants in the residents of a medium-sized city in Northeast Brazil. A total of 783 patients infected with SARS-CoV-2 between May 2020 and August 2021 were included in this study. Clinical-epidemiological data from patients who died and those who survived were compared. Patients were also retrospectively divided into three groups based on disease severity: asymptomatic, mild, and moderate/severe. Samples were added to a qPCR array for analyses of 84 genes involved with immune response pathways and sequenced using the Oxford Nanopore MinION technology. Having pre-existing comorbidity; being male; having cardiovascular disease, diabetes, and/or chronic obstructive pulmonary disease; and PCR cycle threshold (Ct) values under 22 were identified as risk factors for mortality. Analysis of the expression profiles of inflammatory pathway genes showed that the greater the infection severity, the greater the activation of inflammatory pathways, triggering the cytokine storm and downregulating anti-inflammatory pathways. Viral genome analysis revealed the circulation of multiple lineages, such as B.1, B.1.1.28, Alpha, and Gamma, suggesting that multiple introduction events had occurred over time. This study’s findings help identify the specific strains and increase our understanding of the true state of local health. In addition, our data demonstrate that epidemiological and genomic surveillance together can help formulate public health strategies to guide governmental actions. MDPI 2022-10-31 /pmc/articles/PMC9699198/ /pubmed/36366521 http://dx.doi.org/10.3390/v14112424 Text en © 2022 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
Dantas, Anna Carolina S.
Oliveira, Hellen B. M.
Gomes, Camila P.
Alves, Daniele L.
Infante, Priscilla D. B.
Caitité, Rosimara de J. A.
Fritsch, Hegger M.
Cucco, Marina S.
Silva, Lucas S. C.
Oliveira, Caline N. T.
Bittencourt, Rafaela de S.
Amorim, Aline T.
Nascimento, Ana Luisa P.
Marinho, Francely A. G. C.
de Medeiros, Danielle S.
de Oliveira, Márcio G. G.
Mistro, Sostenes
de Melo, Fabricio F.
Pereira, Taiana T. S.
Guimarães, Ana M. S.
Timenetsky, Jorge
Moreira, Pablo Maciel B.
de Oliveira, Sandra Helena P.
Alcantara, Luiz C. J.
Giovanetti, Marta
Santos, Luciane A.
Fonseca, Vagner
Barreto, Fernanda K.
Campos, Guilherme B.
Marques, Lucas M.
Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title_full Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title_fullStr Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title_full_unstemmed Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title_short Retrospective Analysis of the SARS-CoV-2 Infection Profile in COVID-19 Positive Patients in Vitoria da Conquista, Northeast Brazil
title_sort retrospective analysis of the sars-cov-2 infection profile in covid-19 positive patients in vitoria da conquista, northeast brazil
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9699198/
https://www.ncbi.nlm.nih.gov/pubmed/36366521
http://dx.doi.org/10.3390/v14112424
work_keys_str_mv AT dantasannacarolinas retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT oliveirahellenbm retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT gomescamilap retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT alvesdanielel retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT infantepriscilladb retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT caititerosimaradeja retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT fritschheggerm retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT cuccomarinas retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT silvalucassc retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT oliveiracalinent retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT bittencourtrafaelades retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT amorimalinet retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT nascimentoanaluisap retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT marinhofrancelyagc retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT demedeirosdanielles retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT deoliveiramarciogg retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT mistrosostenes retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT demelofabriciof retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT pereirataianats retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT guimaraesanams retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT timenetskyjorge retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT moreirapablomacielb retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT deoliveirasandrahelenap retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT alcantaraluizcj retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT giovanettimarta retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT santoslucianea retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT fonsecavagner retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT barretofernandak retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT camposguilhermeb retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil
AT marqueslucasm retrospectiveanalysisofthesarscov2infectionprofileincovid19positivepatientsinvitoriadaconquistanortheastbrazil