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

Silva‐Sales, Marcelle; Leal, Élcio; Milagres, Flavio Augusto de Pádua; Brustulin, Rafael; Morais, Vanessa dos Santos; Marcatti, Roberta; Araújo, Emerson Luiz Lima; Deng, Xutao; Sabino, Éster Cerdeira; Delwart, Eric; Luchs, Adriana; Costa, Antônio Charlys da

doi:10.1590/s1678-9946202062098

Cited by 9 publications

(16 citation statements)

References 39 publications

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“…The statistical significance at the branch point was calculated with 1000 pseudo-replicate datasets. For the designation of lineages, strains from GenBank were selected using lineages previously published by Agbemabiese et al [ 41 ] for NSP1 to -5, VP1 to -3 and VP6, Gupta et al [ 42 ] and Doan et al [ 43 ] for VP4, and Silva-Sales et al [ 21 ].…”

Section: Methodsmentioning

confidence: 99%

“…G8 is a common G type found in cattle [ 18 ], but sporadically detected in humans [ 5 , 19 , 20 , 21 ]. Interestingly, the G8 genotype is particularly prevalent in the African continent and often detected in combinations with P[4], P[6] and P[8] [ 22 , 23 ].…”

Section: Introductionmentioning

confidence: 99%

“…Interestingly, the G8 genotype is particularly prevalent in the African continent and often detected in combinations with P[4], P[6] and P[8] [ 22 , 23 ]. G8 strains paired with either P[4], P[6] or P[8] genotypes were previously reported in Brazil [ 21 , 24 , 25 , 26 , 27 , 28 ]; however, their origins remain obscure. A phylogenetic analysis conducted with three gene segments by Luchs and Timenetsky showed that Brazilian G8P[6] strains display close genetic relationships to bovine G8, bat P[6] and I2 human RVA strains, suggesting potential interspecies transmission events occurring between multiple hosts [ 26 ].…”

Section: Introductionmentioning

confidence: 99%

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Genomic Constellation of Human Rotavirus G8 Strains in Brazil over a 13-Year Period: Detection of the Novel Bovine-like G8P[8] Strains with the DS-1-like Backbone

Medeiros

França

Viana

et al. 2023

Viruses

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Rotavirus (RVA) G8 is frequently detected in animals, but only occasionally in humans. G8 strains, however, are frequently documented in nations in Africa. Recently, an increase in G8 detection was observed outside Africa. The aims of the study were to monitor G8 infections in the Brazilian human population between 2007 and 2020, undertake the full-genotype characterization of the four G8P[4], six G8P[6] and two G8P[8] RVA strains and conduct phylogenetic analysis in order to understand their genetic diversity and evolution. A total of 12,978 specimens were screened for RVA using ELISA, PAGE, RT-PCR and Sanger sequencing. G8 genotype represented 0.6% (15/2434) of the entirely RVA-positive samples. G8P[4] comprised 33.3% (5/15), G8P[6] 46.7% (7/15) and G8P[8] 20% (3/15). All G8 strains showed a short RNA pattern. All twelve selected G8 strains displayed a DS-1-like genetic backbone. The whole-genotype analysis on a DS-1-like backbone identified four different genotype-linage constellations. According to VP7 analysis, the Brazilian G8P[8] strains with the DS-1-like backbone strains were derived from cattle and clustered with newly DS-1-like G1/G3/G9/G8P[8] strains and G2P[4] strains. Brazilian IAL-R193/2017/G8P[8] belonged to a VP1/R2.XI lineage and were grouped with bovine-like G8P[8] strains with the DS-1-like backbone strains detected in Asia. Otherwise, the Brazilian IAL-R558/2017/G8P[8] possess a “Distinct” VP1/R2 lineage never previously described and grouped apart from any of the DS-1-like reference strains. Collectively, our findings suggest that the Brazilian bovine-like G8P[8] strains with the DS-1-like backbone strains are continuously evolving and likely reassorting with local RVA strains rather than directly relating to imports from Asia. The Brazilian G8P[6]-DS-1-like strains have been reassorted with nearby co-circulating American strains of the same DS-1 genotype constellation. However, phylogenetic analyses revealed that these strains have some genetic origin from Africa. Finally, rather than being African-born, Brazilian G8P[4]-DS-1-like strains were likely imported from Europe. None of the Brazilian G8 strains examined here exhibited signs of recent zoonotic reassortment. G8 strains continued to be found in Brazil according to their intermittent and localized pattern, thus, does not suggest that a potential emergence is taking place in the country. Our research demonstrates the diversity of G8 RVA strains in Brazil and adds to the understanding of G8P[4]/P[6]/P[8] RVA genetic diversity and evolution on a global scale.

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Section: Methodsmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Genomic Constellation of Human Rotavirus G8 Strains in Brazil over a 13-Year Period: Detection of the Novel Bovine-like G8P[8] Strains with the DS-1-like Backbone

Medeiros

França

Viana

et al. 2023

Viruses

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“…In Bangladesh, the predominant genotype (> 94%) among 200 diarrheic calves was the G6P [11] [29], while during 2017-2019 in India, the G6P [14] and G8P [14] were common RVA genotypes in bovines [30]. In Brazil, in 2010-2016, only the 3% of children < 3 years old with AGE were infected with G8P [4] [31], while in West Africa in 2010, an infant with diarrhea was infected with RVA G6P [14] [32]. A study in Pakistan, in 2015, including 180 samples from children < 5 years old with AGE, G8 was among the most common RVA strains in infants [33], but in a study from Iran between the period 2017-2019, in 130 children < 15 years old with AGE, G8, G6 and P [14] were not detected [34].…”

Section: Discussionmentioning

confidence: 99%

Epidemiological and phylogenetic characterization of unusual P[14] rotavirus strains in hospitalized children with acute gastroenteritis

Tatsi

Koukou

Dellis

et al. 2022

Preprint

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Rotavirus A (RVA) is characterized by molecular and epidemiological diversity. To date, 42G and 58P RVA genotypes have been identified, some of which have zoonotic origin, like P[14]. This study aims at the epidemiological and molecular characterization of human P[14] RVA. Fecal samples from children ≤ 16 years with acute gastroenteritis (AGE), hospitalized during 01/2007-12/2021, were tested for RVA by chromatographic immunoassay. Demographic, clinical and laboratory data were recorded. Positive RVA samples were G and P typed performing Sanger sequencing. Phylogenetic analysis of P[14] was performed using the Mega X software. Sixty (1.36%) out of 4427 children with RVA AGE, were infected with an unusual G (G6/G8/G10) or P (P[6]/P[9]/P[10]/P[11]/P[14]) genotype. P[9] (27/60; 45%) was the most common unusual genotype followed by P[14] (11/60; 18.3%). Median age of children with P[14] was 37.8 months (IQR:17.6–77.1), 6/11 were males and 4/11 resided to rural areas. Their symptoms were diarrhea (9/11; 81.8%), vomiting (7/11; 63.6%), fever (7/11; 63.6%) and moderate dehydration (6/11; 54.5%). All children were unvaccinated for RVA. Seasonal peak of P[14] was during spring (91%). The combinations G8P[14] (45.5%), G6P[14] (36.4%) and G4P[14] (18.1%) were detected. Phylogenetic analysis showed potential evolutionary relationship of three human RVA P[14] with a fox strain from Croatia. These findings enhance the potential zoonotic origin of P[14] and the interspecies transmission between nondomestic animals and humans, which may lead to new RVA genotypes with unknown severity.

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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: Sample Screeningmentioning

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

Cited by 9 publications

References 39 publications

Genomic Constellation of Human Rotavirus G8 Strains in Brazil over a 13-Year Period: Detection of the Novel Bovine-like G8P[8] Strains with the DS-1-like Backbone

Genomic Constellation of Human Rotavirus G8 Strains in Brazil over a 13-Year Period: Detection of the Novel Bovine-like G8P[8] Strains with the DS-1-like Backbone

Epidemiological and phylogenetic characterization of unusual P[14] rotavirus strains in hospitalized children with acute gastroenteritis

High Heterogeneity of Echoviruses in Brazilian Children with Acute Gastroenteritis

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