Sequence analysis of the VP7 gene of human rotaviruses G2 and G4 isolated in Japan, China, Thailand, and Vietnam during 2001–2003

Trinh, Quang Duy; Pham, Ngan Thi Kim; Nguyen, Tuan Anh; Phan, Tung Gia; Yan, Huan; Hoang, Le Phuc; Khamrin, Pattara; Maneekarn, Niwat; Li, Yán; Okitsu, Shoko; Mizuguchi, Masashi; Ushijima, Hiroshi

doi:10.1002/jmv.21630

Cited by 18 publications

(10 citation statements)

References 49 publications

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“…However, the VP7 genes of G4 human RVs isolated in Vietnam in 2003 (strains VN-5, VN-9, VN-21, and VN-565) do not group with the modern sub-lineage and instead cluster with the 1988 G4P[8] isolate DC4320 (Fig. 3A) (Trinh et al, 2010). This result suggests that the VP7 genes of currently circulating G4 strains may show more intra-genotypic diversity than previously thought.…”

Section: Resultsmentioning

confidence: 99%

Intra-genotypic diversity of archival G4P[8] human rotaviruses from Washington, DC

McDonald

Davis

McAllen

et al. 2011

Infection, Genetics and Evolution

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Group A human rotaviruses (RVs) remain the most frequently detected viral agents associated with acute gastroenteritis in infants and young children. Despite their medical importance, relatively few complete genome sequences have been determined for commonly circulating G/P-type strains (i.e., G1P[8], G2P[4], G3P[8], G4P[8], and G9P[8]). In the current study, we sequenced the genomes of 11 G4P[8] isolates from stool specimens that were collected in Washington, DC during the years of 1974-1991. We found that the VP7-VP4-VP6-VP1-VP2-VP3-NSP1-NSP2-NSP3-NSP4-NSP5/6-encoding genes of all 11 G4P[8] RVs have the genotypes of G4-P[8]-I1-R1-C1-M1-A1-N1-T1-E1-H1. By constructing phylogenetic trees for each gene, extensive intra-genotypic diversity was revealed among the G4P[8] RVs, and new sub-genotype gene alleles were identified. Several of these alleles are nearly identical to those of G3P[8] isolates previously sequenced from this same Washington, DC collection, strongly suggesting that the RVs underwent gene reassortment. On the other hand, we observed that some G4P[8] RVs exhibit completely different allele-based genome constellations, despite being collected during the same epidemic season; there was no evidence of gene reassortment between these strains. This observation extends our previous findings and supports the notion that stable, genetically-distinct clades of human RVs with the same G/P-type can co-circulate in a community. Interestingly, the sub-genotype gene alleles found in some of the DC RVs share a close evolutionary relationship with genes of more contemporary human strains. Thus, archival human RVs sequenced in this study might represent evolutionary precursors to modern-day strains.

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Section: Resultsmentioning

confidence: 99%

Intra-genotypic diversity of archival G4P[8] human rotaviruses from Washington, DC

McDonald

Davis

McAllen

et al. 2011

Infection, Genetics and Evolution

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“…Four G genotypes of RVA G1, G2, G3, and G9 were detected during the study period. The trend of G genotype changed in 2014-2015 in comparison with previous years [16][17][18][19][20] (Figure 1). G1 strains were detected as the most frequent strains (36.5%) followed by G2 (30.3%), G9 (21.4%), and G3 (8.9%).…”

Section: Distribution Of G and P Genotypes Of Rvamentioning

confidence: 94%

“…The purpose of the present study was to monitor the trend of RVA genotype in comparison with three decades long data and characterize the re‐emerging G2P[4] strains circulated during July 2014‐June 2015, soon after vaccine introduction in Japan.…”

Section: Introductionmentioning

confidence: 99%

“…Examples include the increased detection of G2P [4] strains in Belgium, Brazil, Austria, and Colombia. [11][12][13][14][15] The purpose of the present study was to monitor the trend of RVA genotype in comparison with three decades long data [16][17][18][19][20] and characterize the re-emerging G2P [4] strains circulated during July 2014-June 2015, soon after vaccine introduction in Japan. The fecal specimens were stored at −30°C until use for the detection of diarrheal viruses.…”

Section: Introductionmentioning

confidence: 99%

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Molecular epidemiology of rotavirus gastroenteritis in Japan during 2014‐2015: Characterization of re‐emerging G2P[4] after rotavirus vaccine introduction

Khandoker

Thongprachum

Takanashi

et al. 2018

Journal of Medical Virology

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Rotavirus vaccines have been available in Japan since 2011. This study conducted to monitor the trend of group A rotavirus (RVA) genotypes 3 years after vaccine introduction. A total of, 539 fecal samples were collected from children with acute gastroenteritis in six regions during July 2014-June 2015. Among them, 178 samples (33.0%) were positive for RVA. The most predominant genotype was G1P[8] (35.9%) followed by G2P[4] (26.4%), G9P[8] (21.3%), G3P[8] (4.5%), and G3P[9] (4.5%). The detection rate of G2P[4] was increased soon after vaccine introduction. Sequence analyses of VP7 and VP4 genes of the representative G2P[4] strains were found to be clustered in sub-lineage IVa of lineage IV. It is noteworthy that one amino acid substitution in the antigenic epitope (Q114P) of VP4 gene was found in representative G2P[4] strains of the current study. However, it is unclear whether the change in antigenic epitope is due to the effect of vaccination or due to natural variation, warranting further continuous monitoring of rotavirus evolution after vaccine introduction.

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“…Circulation of more than one lineage or sublineage of G2 strains has been reported from different countries in the 1990s and 2000s [Page and Steele, 2004; Arista et al, 2005a; Mascarenhas et al, 2010; Trinh et al, 2010; Pietsch et al, 2011]. In the present study, all of the G2 strains showed predominance of the sublineage IIb of lineage II with clustering of the strains from the 1990s and 2000s separately in the two groups and thus indicated diversity of the Pune strains from other regions and within the sublineage IIb strains.…”

Section: Discussionmentioning

confidence: 99%

Diversity in the VP7 encoding genes of rotavirus strains isolated from adolescent and adult cases of acute gastroenteritis

Tatte

Chitambar

2012

Journal of Medical Virology

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A study was conducted to examine the diversity in the VP7 genes of rotavirus strains circulating in adolescent and adult cases of acute gastroenteritis during two different time periods, 1993–1996 and 2004–2007. The multiplex RT‐PCR carried out on 131 rotavirus positive fecal specimens detected 65 (49.6%) single and 48 (36.6%) mixed infections of VP7 genotypes that included 43G1 (38.1%), 37G2 (32.7%), 8G3 (7.1%), 15G4 (13.3%), and 10G9 (8.8%) specificities. Sequencing and phylogenetic analysis of the VP7 gene amplicons revealed the presence of G1‐IA (4.7%), G1‐IB (69.8%), and G1‐IC (25.5%) lineages within the G1 strains, G2‐IIb1 (70.3%) and G2‐IIb2 (29.7%) lineages within G2 strains, G3‐3S1 (12.5%) and G3‐3S4 (87.5%) lineages within G3 strains, G4‐Ia (6.7%) and G4‐Ib (93.3%) lineages within G4 strains, and G9‐III lineage within G9 strains. The variability within VP7 genotypes was evident by 1.4–8.0% and 1.3–3.9% amino acid divergence respectively from the prototype strains and between the groups of strains at the two time points. This is the first report describing the phylogenetic analysis of VP7 genes of rotaviruses from adolescent and adult cases of acute gastroenteritis in India. Since adults infected with rotavirus could act as a source of infection and affect the epidemiology of rotaviruses in children, genetic analysis of the rotavirus strains circulating in adults is required. The intragenotypic diversity within VP7 genes demonstrated by the present study highlights the need for constant surveillance of rotavirus infections to understand better the evolution and transmission of group A rotaviruses in the community. J. Med. Virol. 84:1481–1488, 2012. © 2012 Wiley Periodicals, Inc.

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Sequence analysis of the VP7 gene of human rotaviruses G2 and G4 isolated in Japan, China, Thailand, and Vietnam during 2001–2003

Cited by 18 publications

References 49 publications

Intra-genotypic diversity of archival G4P[8] human rotaviruses from Washington, DC

Intra-genotypic diversity of archival G4P[8] human rotaviruses from Washington, DC

Molecular epidemiology of rotavirus gastroenteritis in Japan during 2014‐2015: Characterization of re‐emerging G2P[4] after rotavirus vaccine introduction

Diversity in the VP7 encoding genes of rotavirus strains isolated from adolescent and adult cases of acute gastroenteritis

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