Viral gastroenteritis in Tocantins, Brazil: characterizing the diversity of human adenovirus F through next-generation sequencing and bioinformatics

Human enteric adenovirus species F (HAdV-F) is one of the most common pathogens responsible for acute gastroenteritis worldwide. Brazil is a country with continental dimensions where continuous multiregional surveillance is vital to establish a more complete picture of the epidemiology of HAdV-F. Th...

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Bibliographic Details
Published in:Journal of general virology 2020-12, Vol.101 (12), p.1280-1288
Main Authors: Tahmasebi, Roozbeh, Luchs, Adriana, Tardy, Kaelan, Hefford, Philip Michael, Tinker, Rory J, Eilami, Owrang, de Padua Milagres, Flavio Augusto, Brustulin, Rafael, Teles, Maria da Aparecida Rodrigues, Dos Santos Morais, Vanessa, Moreira, Carlos Henrique Valente, Buccheri, Renata, Araújo, Emerson Luiz Lima, Villanova, Fabiola, Deng, Xutao, Sabino, Ester Cerdeira, Delwart, Eric, Leal, Élcio, Charlys da Costa, Antonio
Format: Article
Language:English
Subjects:
Adenovirus Infections, Human - epidemiology
Adenovirus Infections, Human - virology
Adenoviruses, Human - classification
Adenoviruses, Human - genetics
Adenoviruses, Human - isolation & purification
Adolescent
Adult
Aged
Brazil - epidemiology
Child
Child, Preschool
Computational Biology
Cross-Sectional Studies
Feces - virology
Female
Gastroenteritis - epidemiology
Gastroenteritis - virology
Genetic Variation
Genome, Viral
High-Throughput Nucleotide Sequencing
Humans
Infant
Male
Metagenomics
Middle Aged
Molecular Epidemiology
Molecular Typing
Phylogeny
Recombination, Genetic
Retrospective Studies
Sequence Analysis, DNA
Young Adult
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Summary:Human enteric adenovirus species F (HAdV-F) is one of the most common pathogens responsible for acute gastroenteritis worldwide. Brazil is a country with continental dimensions where continuous multiregional surveillance is vital to establish a more complete picture of the epidemiology of HAdV-F. The aim of the current study was to investigate the molecular epidemiology of HAdV-F using full-genome data in rural and low-income urban areas in northern Brazil. This will allow a genetic comparison between Brazilian and global HAdV-F strains. The frequency of HAdV-F infections in patients with gastroenteritis and molecular typing of positive samples within this period was also analysed. A total of 251 stool samples collected between 2010 and 2016 from patients with acute gastroenteritis were screened for HAdV-F using next-generation sequencing techniques. HAdV-F infection was detected in 57.8 % (145/251) of samples. A total of 137 positive samples belonged to HAdV-F41 and 7 to HAdV-F40. HAdV-F40/41 dual infection was found in one sample. Detection rates did not vary significantly according to the year. Single HAdV-F infections were detected in 21.9 % (55/251) of samples and mixed infections in 37.4 % (94/251), with RVA/HAdV-F being the most frequent association (21.5 %; 54/251). Genetic analysis indicated that the HAdV-F strains circulating in Brazil were closely related to worldwide strains, and the existence of some temporal order was not observed. This is the first large-scale HAdV-F study in Brazil in which whole-genome data and DNA sequence analyses were used to characterize HAdV-F strains. Expanding the viral genome database could improve overall genotyping success and assist the National Center for Biotechnology Information (NCBI)/GenBank in standardizing the HAdV genome records by providing a large set of annotated HAdV-F genomes.
ISSN:0022-1317
1465-2099
DOI:10.1099/jgv.0.001500