Sequence analysis of the VP7 gene of human rotavirus G1 isolated in Japan, China, Thailand, and Vietnam in the context of changing distribution of rotavirus G‐types

Trinh, Quang Duy; Nguyen, Tuan Anh; Phan, Tung Gia; Khamrin, Pattara; Yan, Huan; Hoang, P. Le; Maneekarn, Niwat; Li, Yán; Yagyu, Fumihiro; Okitsu, Shoko; Ushijima, Hiroshi

doi:10.1002/jmv.20920

Cited by 31 publications

(25 citation statements)

References 49 publications

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“…Other studies (including our study) described the Wa strain as representative of lineage III [Jin et al, 1996;Berois et al, 2003;Parra et al, 2005Parra et al, , 2007aArista et al, 2006]. This finding suggests that VP7 lineage III of all 74 G1 strains isolated in Japan, China, Vietnam, and Thailand [Trinh et al, 2007] and VP7 lineage I of Korean G1 strains in this report belong to the same lineage and further standardize VP7 lineage I as described by Jin et al (1996). Therefore, it is concluded that recent G1 strains belonging to VP7 lineage I were circulating in Korea as well as Asian countries, such as Japan, China, Vietnam, and Thailand.…”

Section: Discussionmentioning

confidence: 47%

“…Considerable genetic diversity has been reported on VP7 gene analysis of G1 strains and at least four major global lineages have arisen among the viruses collected from diverse geographic locations [Jin et al, 1996;Maunula and von Bonsdorff, 1998;Berois et al, 2003;Parra et al, 2005;Arista et al, 2006;Araujo et al, 2007;Trinh et al, 2007]. In the current study, the phylogenetic analysis revealed differences in the VP7 genetic lineages among Korean G1 strains.…”

Section: Discussionmentioning

confidence: 69%

“…The resultant data revealed that all Korean G1P[8] strains and the seven representative strains clustered into VP7 lineage I. Interestingly, the differences have arisen by chance in the nomenclature of the VP7 lineages. Three reports designated the G1 rotavirus Wa strain to the VP7 lineage IV [Maunula and von Bonsdorff, 1998;Araujo et al, 2007;Trinh et al, 2007]. Other studies (including our study) described the Wa strain as representative of lineage III [Jin et al, 1996;Berois et al, 2003;Parra et al, 2005Parra et al, , 2007aArista et al, 2006].…”

Section: Discussionmentioning

confidence: 69%

“…All observations highlight the substantial diversity among G1 viruses collected throughout the world in recent years, and the G1 rotaviruses detected in the 1970s in the USA and Asia (Wa-like) that apparently are no longer in circulation, suggesting that this lineage might be extinct [Jin et al, 1996;Diwakarla and Palombo, 1999;O'Halloran et al, 2002;Berois et al, 2003;Arista et al, 2006;Rodriguez-Castillo et al, 2006]. Seventy-four G1 rotavirus strains isolated in Japan, China, Vietnam, and Thailand have been characterized and they are all clustered into the VP7 genetic lineage III [Trinh et al, 2007]. As all studied G1 strains from the four countries clustered into VP7 lineage III, seven representative strains (VN-355, Chi-83, Ch-77, J-6219, J-4689, J-6233, and Thai-2104) of 74 G1 rotavirus strains were selected and analyzed in this study.…”

Section: Discussionmentioning

confidence: 96%

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Genetic variation of prevalent G1P[8] human rotaviruses in South Korea

Chung

Kim

et al. 2010

Journal of Medical Virology

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The human rotavirus G1P[8] strain is one of the most common rotaviruses worldwide, including Korea. Six Korean G1P[8] human rotaviruses, isolated using cell culture techniques, were characterized on the basis of sequence differences in VP7, VP4, VP6, and NSP4 genes to elucidate the evolutionary relationships in the community. All strains had a long RNA electropherotype, supported by VP6 gene analysis, clearly associated with subgroup II specificity. The phylogenetic analysis of VP7 gene sequences showed that they all clustered into lineage I, as reported for G1 strains in Japan, China, Vietnam, and Thailand. In addition, phylogenetic analysis of the VP4 gene showed that they belong to two distinct lineages, P[8]-II and P[8]-III. With respect to the NSP4 gene, all strains belonged to genotype B. An understanding of the ecology and molecular evolution of rotaviruses circulating in the country is very important for the development of vaccines and vaccination strategies. This study provides new information concerning the genetic variability of the rotavirus strain G1P[8] occurring most commonly as a vaccine candidate.

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Section: Discussionmentioning

confidence: 47%

Section: Discussionmentioning

confidence: 69%

Section: Discussionmentioning

confidence: 69%

Section: Discussionmentioning

confidence: 96%

See 2 more Smart Citations

Genetic variation of prevalent G1P[8] human rotaviruses in South Korea

Chung

Kim

et al. 2010

Journal of Medical Virology

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“…A total of 131 sequences of the G1 rotaviruses, including our 36 sequence data from China, Japan, and Vietnam (15,22,26), which did not include any gaps in the alignment for the entire coding region of VP7 genes, were collected from GenBank. Sequence alignment was performed using CLUSTAL X (21).…”

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confidence: 99%

Evidence of Intragenic Recombination in G1 Rotavirus VP7 Genes

Phan

Okitsu

Maneekarn

et al. 2007

J Virol

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The G1 rotavirus is the most widespread genotype causing acute gastroenteritis in children. In an attempt to investigate the occurrence of intragenic recombination, 131 complete coding region sequences of VP7 genes of the G1 rotaviruses in GenBank were examined. Three hitherto-unreported intragenic recombinant rotaviruses were identified. It was noteworthy that two different types (interlineage and intersublineage) of intragenic recombination in rotaviruses were also found. This is the first report to demonstrate the existence of intragenic recombinations between interlineage and intersublineage in G1 rotaviruses.Acute gastroenteritis is a significant cause of morbidity and mortality of children in both developed and developing countries. Despite much progress in the understanding of the pathogenesis of the disease and its management with the widespread use of oral rehydration therapies, acute gastroenteritis consistently ranks as one of the top causes of death worldwide (9,10,20). The rotaviruses, which comprise a genus in the family Reoviridae, are icosahedral in appearance. With VP4 spikes, the rotavirus is about 110 nm in diameter. The virion of this virus is a nonenveloped, triple-layered capsid containing 11 segments of double-stranded RNA genome. The rotavirus genome encodes six structural and six nonstructural proteins (3). This virus is estimated to be responsible for 111 million episodes of diarrhea requiring only home care, 25 million clinic visits, 2 million hospitalizations, and 325,000 to 592,000 deaths every year in children under five years old (12). Over past decades, G1 rotaviruses have been the most widespread genotype causing acute gastroenteritis in children from many countries covering all continents of the world (18). Nucleotide substitution and genomic reassortment have been proposed to be the most important mechanisms of rotavirus evolution in nature (3,4,18). The rapidly increasing detection of G1 rotavirus, in association with the genetic heterogeneity, raises intriguing questions such as whether rotavirus evolution is driven by intragenic recombination. Thus, the objective of this study was to assess the occurrence of intragenic recombination in the VP7 genes of the G1 rotaviruses.A total of 131 sequences of the G1 rotaviruses, including our 36 sequence data from China, Japan, and Vietnam (15, 22, 26), which did not include any gaps in the alignment for the entire coding region of VP7 genes, were collected from GenBank. Sequence alignment was performed using CLUSTAL X (21).Phylogenetic trees with 100 bootstrap replicates of the nucleotide alignment datasets were generated using the neighborjoining method (17). Genetic distance was calculated using Kimura's two-parameter method (PHYLIP) (6). SimPlot was used to detect recombinant rotavirus sequences as well as the breakpoints (7).All 131 sequences of the G1 rotaviruses in this study were classified into different lineages and sublineages (Fig. 1) according to the recent G1 rotavirus classification scheme in which the nucleotide homolog...

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Amino acid substitutions in the VP7 protein of human rotavirus G3 isolated in China, Russia, Thailand, and Vietnam during 2001–2004

Trinh

Pham

Nguyen

et al. 2007

Journal of Medical Virology

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The distribution of rotavirus G-types in the world appears to be changing, especially with the emergence of G3 and G9 in many countries. Sequence analysis of the VP7 gene was performed on the 27 human G3 rotavirus strains isolated in China, Russia, Thailand, and Vietnam during 2001-2004. All the strains studied were clustered into the same branch of the phylogenetic tree. The comparison of the G3 deduced amino acid sequences between the studied Chinese strains and the strains circulating in China during 1986-1992 showed a wide range of amino acid substitutions (up to 13 amino acids in the VP7 antigenic regions). The two considerable changes both from aspartic acid to asparagine were located at positions 96 in antigenic region A and 213 in antigenic region C. Those amino acid substitutions of the Chinese G3 strains might involve in the emergence of G3 rotavirus in China during 2001-2003.

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Sequence analysis of the VP7 gene of human rotavirus G1 isolated in Japan, China, Thailand, and Vietnam in the context of changing distribution of rotavirus G‐types

Cited by 31 publications

References 49 publications

Genetic variation of prevalent G1P[8] human rotaviruses in South Korea

Genetic variation of prevalent G1P[8] human rotaviruses in South Korea

Evidence of Intragenic Recombination in G1 Rotavirus VP7 Genes

Amino acid substitutions in the VP7 protein of human rotavirus G3 isolated in China, Russia, Thailand, and Vietnam during 2001–2004

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