Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)

ABSTRACT Surveillance of Rotavirus A (RVA) throughout the national territory is important to establish a more complete epidemiological-molecular scenario of this virus circulation in Brazil. The aim of the present study was to investigate the genetic diversity of RVA strains circulating in Tocantins State (Northern Brazil) during six years of post-vaccination follow-up (2010-2016). A total of 248 stool samples were screened by next generation sequencing and 107 (43.1%) nearly full length RVA genome sequences were obtained; one sample was co-infected with two RVA strains (G2/G8P[4]). Six G and P genotypes combinations were detected: G12P[8] strains (78.6%), as well as the G3P[8] (9.3%) and G1P[8] (0.9%) were associated with a Wa-like genogroup backbone. All G2P[4] (5.6%) and G8P[4] (2.8%) strains, including the mixed G2/G8P[4] infection (0.9%) showed the DS-1-like genetic background. The two G12P[4] strains (1.9%) were associated with distinct genetic backbones: Wa-like and DS-1-like. The phylogenetic analysis revealed the circulation of lineages G1-I, G2-IV, G3-III, G8-I and G12-III, and P[4]-V and P[8]-III of the VP7 and VP4 genes, respectively. Conserved clustering pattern and low genetic diversity were observed regarding VP1-VP3 and VP6, as well as NSP1-5 segments. We identified the same RVA circulation pattern reported in other Brazilian regions in the period of 2010-2016, suggesting that rural and low-income areas may not have a different RVA genotypic distribution compared to other parts of the country. The unique presentation of whole-genome data of RVA strains detected in the Tocantins State provides a baseline for monitoring variations in the genetic composition of RVA in this area.

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Main Authors: Silva-Sales,Marcelle, Leal,Elcio, Milagres,Flavio Augusto de Pádua, Brustulin,Rafael, Morais,Vanessa dos Santos, Marcatti,Roberta, Araújo,Emerson Luiz Lima, Witkin,Steven S., Deng,Xutao, Sabino,Ester Cerdeira, Delwart,Eric, Luchs,Adriana, Costa,Antonio Charlys da
Format: Digital revista
Language:English
Published: Instituto de Medicina Tropical de São Paulo 2020
Online Access:http://old.scielo.br/scielo.php?script=sci_arttext&pid=S0036-46652020000100248
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spelling oai:scielo:S0036-466520200001002482020-12-15Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)Silva-Sales,MarcelleLeal,ElcioMilagres,Flavio Augusto de PáduaBrustulin,RafaelMorais,Vanessa dos SantosMarcatti,RobertaAraújo,Emerson Luiz LimaWitkin,Steven S.Deng,XutaoSabino,Ester CerdeiraDelwart,EricLuchs,AdrianaCosta,Antonio Charlys da Acute gastroenteritis Rotavirus A Brazil Post-vaccine Genomic Constellation ABSTRACT Surveillance of Rotavirus A (RVA) throughout the national territory is important to establish a more complete epidemiological-molecular scenario of this virus circulation in Brazil. The aim of the present study was to investigate the genetic diversity of RVA strains circulating in Tocantins State (Northern Brazil) during six years of post-vaccination follow-up (2010-2016). A total of 248 stool samples were screened by next generation sequencing and 107 (43.1%) nearly full length RVA genome sequences were obtained; one sample was co-infected with two RVA strains (G2/G8P[4]). Six G and P genotypes combinations were detected: G12P[8] strains (78.6%), as well as the G3P[8] (9.3%) and G1P[8] (0.9%) were associated with a Wa-like genogroup backbone. All G2P[4] (5.6%) and G8P[4] (2.8%) strains, including the mixed G2/G8P[4] infection (0.9%) showed the DS-1-like genetic background. The two G12P[4] strains (1.9%) were associated with distinct genetic backbones: Wa-like and DS-1-like. The phylogenetic analysis revealed the circulation of lineages G1-I, G2-IV, G3-III, G8-I and G12-III, and P[4]-V and P[8]-III of the VP7 and VP4 genes, respectively. Conserved clustering pattern and low genetic diversity were observed regarding VP1-VP3 and VP6, as well as NSP1-5 segments. We identified the same RVA circulation pattern reported in other Brazilian regions in the period of 2010-2016, suggesting that rural and low-income areas may not have a different RVA genotypic distribution compared to other parts of the country. The unique presentation of whole-genome data of RVA strains detected in the Tocantins State provides a baseline for monitoring variations in the genetic composition of RVA in this area.info:eu-repo/semantics/openAccessInstituto de Medicina Tropical de São PauloRevista do Instituto de Medicina Tropical de São Paulo v.62 20202020-01-01info:eu-repo/semantics/articletext/htmlhttp://old.scielo.br/scielo.php?script=sci_arttext&pid=S0036-46652020000100248en10.1590/s1678-9946202062098
institution SCIELO
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country Brasil
countrycode BR
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access En linea
databasecode rev-scielo-br
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region America del Sur
libraryname SciELO
language English
format Digital
author Silva-Sales,Marcelle
Leal,Elcio
Milagres,Flavio Augusto de Pádua
Brustulin,Rafael
Morais,Vanessa dos Santos
Marcatti,Roberta
Araújo,Emerson Luiz Lima
Witkin,Steven S.
Deng,Xutao
Sabino,Ester Cerdeira
Delwart,Eric
Luchs,Adriana
Costa,Antonio Charlys da
spellingShingle Silva-Sales,Marcelle
Leal,Elcio
Milagres,Flavio Augusto de Pádua
Brustulin,Rafael
Morais,Vanessa dos Santos
Marcatti,Roberta
Araújo,Emerson Luiz Lima
Witkin,Steven S.
Deng,Xutao
Sabino,Ester Cerdeira
Delwart,Eric
Luchs,Adriana
Costa,Antonio Charlys da
Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
author_facet Silva-Sales,Marcelle
Leal,Elcio
Milagres,Flavio Augusto de Pádua
Brustulin,Rafael
Morais,Vanessa dos Santos
Marcatti,Roberta
Araújo,Emerson Luiz Lima
Witkin,Steven S.
Deng,Xutao
Sabino,Ester Cerdeira
Delwart,Eric
Luchs,Adriana
Costa,Antonio Charlys da
author_sort Silva-Sales,Marcelle
title Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
title_short Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
title_full Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
title_fullStr Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
title_full_unstemmed Genomic constellation of human Rotavirus A strains identified in Northern Brazil: a 6-year follow-up (2010-2016)
title_sort genomic constellation of human rotavirus a strains identified in northern brazil: a 6-year follow-up (2010-2016)
description ABSTRACT Surveillance of Rotavirus A (RVA) throughout the national territory is important to establish a more complete epidemiological-molecular scenario of this virus circulation in Brazil. The aim of the present study was to investigate the genetic diversity of RVA strains circulating in Tocantins State (Northern Brazil) during six years of post-vaccination follow-up (2010-2016). A total of 248 stool samples were screened by next generation sequencing and 107 (43.1%) nearly full length RVA genome sequences were obtained; one sample was co-infected with two RVA strains (G2/G8P[4]). Six G and P genotypes combinations were detected: G12P[8] strains (78.6%), as well as the G3P[8] (9.3%) and G1P[8] (0.9%) were associated with a Wa-like genogroup backbone. All G2P[4] (5.6%) and G8P[4] (2.8%) strains, including the mixed G2/G8P[4] infection (0.9%) showed the DS-1-like genetic background. The two G12P[4] strains (1.9%) were associated with distinct genetic backbones: Wa-like and DS-1-like. The phylogenetic analysis revealed the circulation of lineages G1-I, G2-IV, G3-III, G8-I and G12-III, and P[4]-V and P[8]-III of the VP7 and VP4 genes, respectively. Conserved clustering pattern and low genetic diversity were observed regarding VP1-VP3 and VP6, as well as NSP1-5 segments. We identified the same RVA circulation pattern reported in other Brazilian regions in the period of 2010-2016, suggesting that rural and low-income areas may not have a different RVA genotypic distribution compared to other parts of the country. The unique presentation of whole-genome data of RVA strains detected in the Tocantins State provides a baseline for monitoring variations in the genetic composition of RVA in this area.
publisher Instituto de Medicina Tropical de São Paulo
publishDate 2020
url http://old.scielo.br/scielo.php?script=sci_arttext&pid=S0036-46652020000100248
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