Characterisation of a rare, reassortant human G10P[14] rotavirus strain detected in Honduras

Quaye, Osbourne; Roy, Sunando; Rungsrisuriyachai, Kunchala; Esona, Mathew D.; Xu, Ziqian; Tam, Ka Ian; Banegas, Dina J. Castro; Rey-Benito, Gloria; Bowen, Michael D.

doi:10.1590/0074-02760170083

Cited by 13 publications

(14 citation statements)

References 37 publications

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“…Nevertheless, unusual RVA genotypes have been frequently detected, such as: G3[P6], G12[P6], G8P[4], and G8P[6] and more recently the equine-like G3P[8] [ 17 , 23 , 24 ]. Similarly, recent studies from other countries have reported the detection of rare RVA genotype combination [ 25 , 26 , 27 , 28 ].…”

Section: Introductionmentioning

confidence: 65%

Rotavirus A in Brazil: Molecular Epidemiology and Surveillance during 2018–2019

et al. 2020

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Rotavirus A (RVA) vaccines succeeded in lowering the burden of acute gastroenteritis (AGE) worldwide, especially preventing severe disease and mortality. In 2019, Brazil completed 13 years of RVA vaccine implementation (Rotarix™) within the National Immunization Program (NIP), and as reported elsewhere, the use of Rotarix™ in the country has reduced childhood mortality and morbidity due to AGE. Even though both marketed vaccines are widely distributed, the surveillance of RVA causing AGE and the monitoring of circulating genotypes are important tools to keep tracking the epidemiological scenario and vaccines impact. Thus, our study investigated RVA epidemiological features, viral load and G and P genotypes circulation in children and adults presenting AGE symptoms in eleven states from three out of five regions in Brazil. By using TaqMan®-based one-step RT-qPCR, we investigated a total of 1536 stool samples collected from symptomatic inpatients, emergency department visits and outpatients from January 2018 to December 2019. G and P genotypes of RVA-positive samples were genetically characterized by multiplex RT-PCR or by nearly complete fragment sequencing. We detected RVA in 12% of samples, 10.5% in 2018 and 13.7% in 2019. A marked winter/spring seasonality was observed, especially in Southern Brazil. The most affected age group was children aged >24–60 months, with a positivity rate of 18.8% (p < 0.05). Evaluating shedding, we found a statistically lower RVA viral load in stool samples collected from children aged up to six months compared to the other age groups (p < 0.05). The genotype G3P[8] was the most prevalent during the two years (83.7% in 2018 and 65.5% in 2019), and nucleotide sequencing of some strains demonstrated that they belonged to the emergent equine-like G3P[8] genotype. The dominance of an emergent genotype causing AGE reinforces the need for continuous epidemiological surveillance to assess the impact of mass RVA immunization as well as to monitor the emergence of novel genotypes.

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Section: Introductionmentioning

confidence: 65%

Rotavirus A in Brazil: Molecular Epidemiology and Surveillance during 2018–2019

et al. 2020

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“…The frequency of untypable G or P‐genotype specimens was 13.07% and 8.66%, respectively. On one hand, it may be the result of a mismatch between primers and target sequences, as new G and P genotypes appeared in recent years . Some mismatches were observed after alignment of the primers and the VP7 and VP4 sequences of recently appeared genotypes.…”

Section: Discussionmentioning

confidence: 99%

“…On one hand, it may be the result of a mismatch between primers and target sequences, as new G and P genotypes appeared in recent years. [41][42][43][44][45] Some mismatches were observed after alignment of the primers and the VP7 and VP4 sequences of recently appeared genotypes. The corresponding sequences of these untypable rotavirus strains can be obtained by optimizing primer sequences or by Sequence-Independent-Single-Primer-Amplification for genotyping in the future.…”

Section: Phylogenetic Analysis Included the Vp7 And Vp4 Genes Of G9mentioning

confidence: 99%

Molecular epidemiology of group A rotavirus in outpatient diarrhea infants and children in Chongqing, China, 2011‐2015

Zeng

Zhao

et al. 2019

Journal of Medical Virology

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Human group A rotavirus (RVA) is the leading cause of acute viral gastroenteritis in children under 5 years old worldwide. The aim of this study was to investigate the genotype distribution of RVA in the Midwest of China. Sentinel‐based surveillance of acute diarrhea was conducted at Children's Hospital of Chongqing Medical University from 2011 to 2015. RVA was tested by using enzyme‐linked immunosorbent assays. The partial VP4 genes and VP7 genes of rotavirus were amplified and sequenced, and genotyping and phylogenetic analyses were performed. Among the 2236 stool specimens collected from children with acute gastroenteritis, 681 (30.46%) were positive for RVA. The majority of children (89.28%) who tested positive for RVA were children aged ≤2 years. The seasonal peak of RVA was in the winter. As for genotype, four strain combinations, G9P[8], G3P[8], G1P[8], and G2P[4] contributed to 75.62% (515/681) of the RVA‐associated diarrhea cases. After a marked increase in G9P[8] (30.77%) in 2013, G9P[8] became the predominant genotype in 2014 and 2015, whilst the prevalence of G1P[8] was decreased to 2.72% in 2015. Unusual G‐P combinations (eg, G1P[4], G9P[4], G4P[6], G3P[4], G2P[8]) were also detected sporadically over the study period. Phylogenetic tree analysis results showed that the VP7 sequences of G9 strains were clustered into two main lineages, and 77.34% of them were clustered into lineage VI, with the highest nucleotide similarity to the strain JS12‐17(China). VP4 gene sequences of P[8] strains were almost P[8]‐lineage 3. Substantial temporal variation in the circulation of various genotypes of rotavirus in Chongqing was observed during 2011‐2015, and highlights the need for continuous surveillance of RVA infection for better understanding and control of RVA infection.

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“…The frequencies of P types were P [8] (25%) (3/12) and P [4] 8.3% (1/12). Rotavirus types P [1], P [5], P [7], P [9], P [10] and P[11] were not detected throughout the current study (Table 3, Fig. 3).…”

Section: Rotaviruses G and P Typesmentioning

confidence: 77%

“…About 37 P and 27 G rotavirus genotypes have been detected in humans and animals [7]. Only a limited number of GxP[y] genotypes confederations are popular in humans, such as G1P [8], G2P [4], G3P [8], G4P [8], and G9P [8] [7], and unusual combinations such as G8P [4], G12P [8], G3P [9], G10P [8], G10P [14] and G1P [4] have also been reported lately [8][9][10].…”

Section: Introductionmentioning

confidence: 99%

Existence and Removal of Rotaviruses Group A and Cryptosporidium Species in a Wastewater Treatment Plant

Rizk¹,

Al‐Herrawy²,

Gad³

et al. 2019

Pol. J. Environ. Stud.

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Rotavirus group A (RV-A) and Cryptosporidium spp. are recognized as important pathogens causing gastroenteritis, even with very low doses in all age groups and representing a public health risk. Seventy-two wastewater samples were collected and concentrated for detecting Cryptosporidium spp. and RV-A. PCR was performed for identification of genus Cryptosporidium using generic primers and species specific primers for Cryptosporidium parvum / Cryptosporidium hominis. Multiplex seminested RT-PCR was performed to identify the genotypes P and G of RV-A. Our findings showed that the rotavirus genome was detected in 29 (40.3%) out of 72 analyzed wastewater samples. Rotavirus rates in raw wastewater samples were higher (47.2%) than those detected in treated wastewater (33.3%). Cryptosporidium was found in 33.3% of 72 tested wastewater samples. All Cryptosporidium-positivesamples were related to Cryptosporidium parvum. The prevalence of Cryptosporidium parvum in influents and effluents reached 41.7% and 25%, respectively. The removal rates of rotavirus and Cryptosporidium parvum in the examined WWTP were 29.4% and 40%, respectively. The largest percentage of positive rotavirus in raw wastewater samples was detected in winter (77.8%), followed by 66.7% in autumn. Three P types and two G types of RV-A strains were identified in wastewater samples. The most prevalent types of RV-A strains in raw and treated sewage samples were G1 and P[8] genotypes. In conclusion, wastewater treatment processes, including a trickling filter, were not sufficient to eliminate several RV-A strains and Cryptosporidium parvum, leading to the potential release of these pathogens from domestic sewage into water sources.

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Characterisation of a rare, reassortant human G10P[14] rotavirus strain detected in Honduras

Cited by 13 publications

References 37 publications

Rotavirus A in Brazil: Molecular Epidemiology and Surveillance during 2018–2019

Rotavirus A in Brazil: Molecular Epidemiology and Surveillance during 2018–2019

Molecular epidemiology of group A rotavirus in outpatient diarrhea infants and children in Chongqing, China, 2011‐2015

Existence and Removal of Rotaviruses Group A and Cryptosporidium Species in a Wastewater Treatment Plant

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