Emergence and spread of G3P[8] rotaviruses possessing an equine-like VP7 and a DS-1-like genetic backbone in the Basque Country (North of Spain), 2015

Arana, Ainara; Montes, Milagrosa; Jere, Khuzwayo C.; Alkorta, Miriam; Iturriza‐Gómara, Miren; Cilla, Gustavo

doi:10.1016/j.meegid.2016.06.048

Cited by 82 publications

(85 citation statements)

References 35 publications

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“…Comparison of the complete genotype constellations of the 12 strains with those of other G8 and non-G8 strains is shown in Fig 1. With the exception of the G genotype, the 12 strains had a unique genotype constellation (P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2), which is commonly found in DS-1-like intergenogroup reassortant strains [19, 21–27]. Furthermore, the 12 strains exhibited very high nucleotide sequence identities (99.4–100%) to one another for nine of the 11 genes (VP7, VP4, VP1-3, and NSP1-4), the exceptions being the VP6 and NSP5 genes (91.8–100 and 95.8–100%, respectively) (S3 Table).…”

Section: Resultsmentioning

confidence: 99%

“…Because DS-1-like intergenogroup reassortant strains have successfully spread in multiple locations in Asia, Australia, and Europe in a short period [19, 21–27], continued monitoring of DS-1-like intergenogroup reassortant strains is required. Although most investigations on RVA genotype distributions have been focused on only G/P defining genes, PCR-based genotyping for non-G/P defining gene(s) or PAGE analysis will assist the recognition of novel RVA variants such as DS-1-like intergenogroup reassortant strains, as described in the preceding study [19].…”

Section: Discussionmentioning

confidence: 99%

“…Although intergenogroup reassortant strains can be generated, it is believed that such RVA strains possessing both genogroup 1 and 2 genes may have decreased evolutionary fitness compared to that of the parental strains and thus would be selected against in the context of human infections [18–20]. However, the emergence of novel human intergenogroup reassortant strains, DS-1-like G1P[8] strains and reassortant ones derived from them possessing a DS-1-like non-G/P genotype constellation (I2-R2-C2-M2-A2-N2-T2-E2-H2) together with G/P genotypes G1P[8], G2P[8], G3P[8], and G8P[8]: G1/2/3/8-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2, were recently reported in Japan, Thailand, Vietnam, Australia, Hungary, and Spain [19, 21–27]. …”

Section: Introductionmentioning

confidence: 99%

“…Although human G8 strains are particularly prevalent in Africa, they have been infrequently detected elsewhere [25, 31]. In 2015, the emergence of DS-1-like G3P[8] strains (including strains ERN8263 and SS96217158) was recognized in Hungary and Spain, Europe [21, 23]. …”

Section: Introductionmentioning

confidence: 99%

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Full Genome Characterization of Novel DS-1-Like G8P[8] Rotavirus Strains that Have Emerged in Thailand: Reassortment of Bovine and Human Rotavirus Gene Segments in Emerging DS-1-Like Intergenogroup Reassortant Strains

et al. 2016

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The emergence and rapid spread of unusual DS-1-like intergenogroup reassortant rotavirus strains have been recently reported in Asia, Australia, and Europe. During rotavirus surveillance in Thailand in 2013–2014, novel DS-1-like intergenogroup reassortant strains having G8P[8] genotypes (i.e., strains KKL-17, PCB-79, PCB-84, PCB-85, PCB-103, SKT-107, SWL-12, NP-130, PCB-656, SKT-457, SSKT-269, and SSL-55) were identified in stool samples from hospitalized children with severe diarrhea. In this study, we determined and characterized the complete genomes of these 12 strains (seven strains, KKL-17, PCB-79, PCB-84, PCB-85, PCB-103, SKT-107, and SWL-12, found in 2013 (2013 strains), and five, NP-130, PCB-656, SKT-457, SSKT-269, and SSL-55, in 2014 (2014 strains)). On full genomic analysis, all 12 strains showed a unique genotype constellation comprising a mixture of genogroup 1 and 2 genes: G8-P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2. With the exception of the G genotype, the unique genotype constellation of the 12 strains (P[8]-I2-R2-C2-M2-A2-N2-T2-E2-H2) was found to be shared with DS-1-like intergenogroup reassortant strains. On phylogenetic analysis, six of the 11 genes of the 2013 strains (VP4, VP2, VP3, NSP1, NSP3, and NSP5) appeared to have originated from DS-1-like intergenogroup reassortant strains, while the remaining four (VP7, VP6, VP1, and NSP2) and one (NSP4) gene appeared to be of bovine and human origin, respectively. Thus, the 2013 strains appeared to be reassortant strains as to DS-1-like intergenogroup reassortant, bovine, bovine-like human, and/or human rotaviruses. On the other hand, five of the 11 genes of the 2014 strains (VP4, VP2, VP3, NSP1, and NSP3) appeared to have originated from DS-1-like intergenogroup reassortant strains, while three (VP7, VP1, and NSP2) and one (NSP4) were assumed to be of bovine and human origin, respectively. Notably, the remaining two genes, VP6 and NSP5, of the 2014 strains appeared to have originated from locally circulating DS-1-like G2P[4] human rotaviruses. Thus, the 2014 strains were assumed to be multiple reassortment strains as to DS-1-like intergenogroup reassortant, bovine, bovine-like human, human, and/or locally circulating DS-1-like G2P[4] human rotaviruses. Overall, the great genomic diversity among the DS-1-like intergenogroup reassortant strains seemed to have been generated through additional reassortment events involving animal and human strains. Moreover, all the 11 genes of three of the 2014 strains, NP-130, PCB-656, and SSL-55, were very closely related to those of Vietnamese DS-1-like G8P[8] strains that emerged in 2014–2015, indicating the derivation of these DS-1-like G8P[8] strains from a common ancestor. To our knowledge, this is the first report on full genome-based characterization of DS-1-like G8P[8] strains that have emerged in Thailand. Our observations will add to our growing understanding of the evolutionary patterns of emerging DS-1-like intergenogroup reassortant strains.

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Section: Resultsmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Full Genome Characterization of Novel DS-1-Like G8P[8] Rotavirus Strains that Have Emerged in Thailand: Reassortment of Bovine and Human Rotavirus Gene Segments in Emerging DS-1-Like Intergenogroup Reassortant Strains

et al. 2016

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“…G3P[8] strains with a short RNA profile are described as DS‐1‐like (equine‐like) G3P[8] strains since their VP7 gene sequences are highly related to those of RVAs detected in horses . Recently, DS‐1‐like G1P[8] strains and equine‐like G3P[8] strains have spread worldwide …”

Section: Introductionmentioning

confidence: 99%

High prevalence of equine‐like G3P[8] rotavirus in children and adults with acute gastroenteritis in Thailand

Tacharoenmuang

Komoto

Guntapong

et al. 2019

Journal of Medical Virology

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Group A rotavirus (RVA) is a major cause of acute gastroenteritis in infants and young children worldwide. This study aims to clarify the distribution of G/P types and genetic characteristics of RVAs circulating in Thailand. Between January 2014 and September 2016, 1867 stool specimens were collected from children and adults with acute gastroenteritis in six provinces in Thailand. RVAs were detected in 514/1867 (27.5%) stool specimens. G1P[8] (44.7%) was the most predominant genotype, followed by G3P[8] (33.7%), G2P[4] (11.5%), G8P[8] (7.0%), and G9P[8] (1.3%). Unusual G3P[9] (0.8%), G3P[10] (0.4%), G4P[6] (0.4%), and G10P[14] (0.2%) were also detected at low frequencies. The predominant genotype, G1P[8] (64.4%), in 2014 decreased to 6.1% in 2016. In contrast, the frequency of G3P[8] markedly increased from 5.5% in 2014 to 65.3% in 2015 and 89.8% in 2016. On polyacrylamide gel electrophoresis, most (135/140; 96.4%) of the G3P[8] strains exhibited a short RNA profile. Successful determination of the nucleotide sequences of the VP7 genes of 98 G3P[8] strains with a short RNA profile showed that they are all equine‐like G3P[8] strains. On phylogenetic analysis of genome segments of two representative Thai equine‐like G3P[8] strains, it was noteworthy that they possessed distinct NSP4 genes, one bovine‐like and the other human‐like. Thus, we found that characteristic equine‐like G3P[8] strains with a short RNA electropherotype are becoming highly prevalent in children and adults in Thailand.

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Emergence of G9P[8] rotaviruses in children with acute gastroenteritis in Thailand, 2015‐2016

Chan-it

Chanta

2017

Journal of Medical Virology

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Human group A rotavirus is a major contagious virus causing gastroenteritis in children. Molecular epidemiological study of group A rotavirus infections in hospitalized children was performed by multiplex RT-PCR during 2015-2016 in Chiang Rai, Thailand. G- and P-genotypes of positive rotavirus samples were further analyzed by one-step and two-step multiplex RT-PCR methods. Among 270 fecal specimens tested, rotavirus was the most prevalent (33.7%), followed by norovirus GII (4.1%), adenovirus (3%), and astrovirus (1.5%). Infection was common in patients aged 12-23 months (45.1%) and occurred mostly in children under 3 years of age (85.7%). The highest peak was in a hot month, March (64.8%). G9P[8] emerged as the most predominant (79.1%), followed by G3P[8] (13.2%), G1P[8] (3.3%), and mixed G-types (4.4%). Interestingly, Chiang Rai G9 strains were clustered within a distinct lineage VII including G9 recently reported since 2010-2015. G9-VII also contained four to five unique amino acid substitutions in the VP7 proteins compared with those of the G9 candidate vaccine strain RVA/Human-tc/IND/116E/1985/G9P[11] and the prototype RVA/Human-wt/USA/WI61/1983/G9P[8], defining the G9-VII as a novel variant. G3 strains were closely related to the "new G3P[8] reassortant variant" with an equine-like VP7 gene that emerged in several countries. This study contributes to the understanding of the genetic diversity, providing scientific support for future vaccine strategies to reduce the morbidity and mortality.

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Emergence and spread of G3P[8] rotaviruses possessing an equine-like VP7 and a DS-1-like genetic backbone in the Basque Country (North of Spain), 2015

Cited by 82 publications

References 35 publications

Full Genome Characterization of Novel DS-1-Like G8P[8] Rotavirus Strains that Have Emerged in Thailand: Reassortment of Bovine and Human Rotavirus Gene Segments in Emerging DS-1-Like Intergenogroup Reassortant Strains

Full Genome Characterization of Novel DS-1-Like G8P[8] Rotavirus Strains that Have Emerged in Thailand: Reassortment of Bovine and Human Rotavirus Gene Segments in Emerging DS-1-Like Intergenogroup Reassortant Strains

High prevalence of equine‐like G3P[8] rotavirus in children and adults with acute gastroenteritis in Thailand

Emergence of G9P[8] rotaviruses in children with acute gastroenteritis in Thailand, 2015‐2016

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