Human sapovirus GI.2 and GI.3 from children with acute gastroenteritis in northern Brazil

Cilli, Audrey; Luchs, Adriana; Leal, Élcio; Gill, Danielle Elise; Milagres, Flavio Augusto de Pádua; Komninakis, Shirley Vasconcelos; Brustulin, Rafael; Teles, Maria da Aparecida Rodrigues; Lobato, Márcia Cristina Alves Brito Sayão; Chagas, Rogério Togisaki das; Abrão, Maria de Fátima Neves dos Santos; Soares, Cassia Vitória de Deus Alves; Deng, Xutao; Delwart, Eric; Sabino, Éster Cerdeira; Costa, Antônio Charlys da

doi:10.1590/0074-02760180574

Cited by 11 publications

(9 citation statements)

References 19 publications

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“…The samples described above were initially sent to the Public Health Laboratory of Tocantins (LACEN-TO) and stored at −20 °C, and the frozen faecal specimens were then taken to USP's Institute of Tropical Medicine (IMT/USP) to identify common enteric viruses, including RVAs, NoVs, HAstVs [32], and HSaVs [33], as well as rare [34][35][36] or potential new viruses [37][38][39][40][41][42], through NGS investigation.…”

Section: Study Populationmentioning

confidence: 99%

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

Tahmasebi

Luchs

Tardy

et al. 2020

Journal of General Virology

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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.

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Section: Study Populationmentioning

confidence: 99%

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

Tahmasebi

Luchs

Tardy

et al. 2020

Journal of General Virology

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“…It is important to point out that all patients were affected by acute diarrhea that later resolved after proper medication. A complete description of clinical data and the characterization of other viruses detected in these patients were described in previous studies [ 26 , 27 , 28 , 29 , 30 , 31 ]. Although SqMV was detected in 51 individuals, full length genomes were recovered in 39 samples.…”

Section: Resultsmentioning

confidence: 99%

New Variants of Squash Mosaic Viruses Detected in Human Fecal Samples

et al. 2021

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Squash mosaic virus (SqMV) is a phytovirus that infects great diversity of plants worldwide. In Brazil, the SqMV has been identified in the states of Ceará, Maranhão, Piauí, Rio Grande do Norte, and Tocantins. The presence of non-pathogenic viruses in animals, such as phytoviruses, may not be completely risk-free. Similarities in gene repertories between these viruses and viruses that affect animal species have been reported. The present study describes the fully sequenced genomes of SqMV found in human feces, collected in Tocantins, and analyzes the viral profile by metagenomics in the context of diarrhea symptomatology. The complete SqMV genome was obtained in 39 of 253 analyzed samples (15.5%); 97.4% of them belonged to children under 5 years old. There was no evidence that the observed symptoms were related to the presence of SqMV. Of the different virus species detected in these fecal samples, at least 4 (rotavirus, sapovirus, norovirus, parechovirus) are widely known to cause gastrointestinal symptoms. The presence of SqMV nucleic acid in fecal samples is likely due to recent dietary consumption and it is not evidence of viral replication in the human intestinal cells. Identifying the presence of SqMV in human feces and characterization of its genome is a relevant precursor to determining whether and how plant viruses interact with host cells or microorganisms in the human gastrointestinal tract.

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“…and Taenia solium ), using conventional cultivation techniques and parasitological tests, such as Hoffman’s method and fresh direct examination. The samples were stored at −20 °C and forwarded to the USP Institute of Tropical Medicine of the University of São Paulo (IMT-USP) for identification of gastroenteric viruses (rotavirus, norovirus, human adenovirus, human astrovirus, human bocavirus, and human sapovirus) [ 23 , 24 , 25 , 26 ].…”

Section: Methodsmentioning

confidence: 99%

High Heterogeneity of Echoviruses in Brazilian Children with Acute Gastroenteritis

Ramos

Rosa

Ribeiro

et al. 2021

Viruses

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Echoviruses (E) are a diverse group of viruses responsible for various pathological conditions in humans including aseptic meningitis, myocarditis, and acute flaccid paralysis. The detection and identification of echovirus genotypes in clinical samples is challenging due to its high genetic diversity. Here, we report the complete genome sequences of nine echoviruses, obtained by next-generation sequencing of 238 fecal samples from individuals with gastroenteritis in regions of Brazil. Detected viruses were classified into six genotypes: Three E1 sequences (BRA/TO-028, BRA/TO-069 and BRA/TO-236), one E3 (BRA/TO-018), one E11 (BRA/TO-086), one E20 (BRA/TO-016), two E29 (BRA/TO-030 and BRA/TO-193), and one E30 sequence (BRA/TO-032). Phylogenetic analysis indicated that the echoviruses E1 and E29 circulating in Brazil are divergent from strains circulating worldwide. The genotype diversity identified in our study may under-represent the total echovirus diversity in Brazil because of the small sample size and the restricted geographical distribution covered by the survey.

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Human sapovirus GI.2 and GI.3 from children with acute gastroenteritis in northern Brazil

Cited by 11 publications

References 19 publications

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

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

New Variants of Squash Mosaic Viruses Detected in Human Fecal Samples

High Heterogeneity of Echoviruses in Brazilian Children with Acute Gastroenteritis

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