Detection of Rare G3P[19] Porcine Rotavirus Strains in Chiang Mai, Thailand, Provides Evidence for Origin of the VP4 Genes of Mc323 and Mc345 Human Rotaviruses

Maneekarn, Niwat; Khamrin, Pattara; Chan-it, Wisoot; Peerakome, Supatra; Sukchai, Sujin; Pringprao, Kidsadagon; Ushijima, Hiroshi

doi:10.1128/jcm.00954-06

Cited by 43 publications

(49 citation statements)

References 53 publications

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“…Sequence AY707792 (CMH222; Khamrin et al, 2006) has already been described in a rhesus monkey and is also shared by a canine species (Khamrin et al, 2006). Its sequence similarity is 87 % (nt) and 97 % (aa) with AF271090 (RV52; canine) and 87-88 % (nt) and 97 % (aa) with AF295303 (rhesus monkey) and M21650 (RRV; rhesus monkey).…”

Section: Lineage IImentioning

confidence: 95%

Section: Comparisons Of Deduced Nucleotide and Corresponding Amino Acmentioning

confidence: 99%

“…The sequence similarity of the human and rabbit sequences is 93-95 % (nt) and 96-97 % (aa) (Supplementary Table S1) (Khamrin et al, 2006;Maneekarn et al, 2006).…”

Section: Lineage IVmentioning

confidence: 99%

“…G3 genotype sequences were aligned and compared using the CLUSTAL W program. Comparisons among the rest of the G3 genotype sequences identified a number of identical full cDNA sequences: (i) AY707794, AY707791 and AY707790; (ii) D86270, D86269 and D86271; (iii) DQ873678 and DQ873671; (iv) U04350 and AB081594; and (v) AY740736, AY456382 and NC007468, which are all different accession numbers for the same B4106 sample (Maneekarn et al, 2006).By comparing sequences with the same nucleotides at the VP7 ORF, the following three groups could be established: (i) L21666 (human; 1043 nt) and AF271089 (canine; 1062 nt); (ii) DQ995489, DQ995490 and DQ873669; and (iii) DQ995488 and DQ873677.By comparing similarity at the amino acid sequence level only (with a different VP7 ORF nucleotide sequence), the following two groups could be established: (i) D86283 and D86281 and (ii) AY707794 (shares a full sequence with AY707794, AY707791 and AY707790), AY900173, AY870661, DQ904501, DQ995489 (shares a full ORF sequence with DQ995490 and DQ873669), DQ873670, DQ9O4505, DQ873672, DQ995488 (shares the ORF sequence with DQ873677) and DQ873673.G genotype reassignments. During the process of sequence comparisons, some of the genotype alleles did not prove to be concordant with the genotype assigned ( Supplementary Fig.…”

mentioning

confidence: 99%

“…The similarity with lineage IV sequences is 87 % (nt) and 93-94 % (aa) (Supplementary Table S2). This evolutionary group has been described elsewhere (Khamrin et al, 2006;Maneekarn et al, 2006) and has presented a different antigenic pattern, which has led to it being described as a G3 'subtype' (Di Stefano et al, 2005). …”

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confidence: 99%

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Diversity of the G3 genes of human rotaviruses in isolates from Spain from 2004 to 2006: cross-species transmission and inter-genotype recombination generates alleles

Martı́nez-Laso

Román

Rodríguez

et al. 2009

Journal of General Virology

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Rotavirus evolves by using multiple genetic mechanisms which are an accumulation of spontaneous point mutations and reassortment events. Other mechanisms, such as crossspecies transmission and inter-genotype recombination, may be also involved. One of the most interesting genotypes in the accumulation of these events is the G3 genotype. In this work, six new Spanish G3 sequences belonging to 0-2-year-old patients from Madrid were analysed and compared with 160 others of the same genotype obtained from humans and other host species to establish the evolutionary pathways of the G3 genotype. The following results were obtained: (i) there are four different lineages of the G3 genotype which have evolved in different species; (ii) Spanish G3 rotavirus sequences are most similar to the described sequences that belong to lineage I; (iii) several G3 genotype alleles were reassigned as other G genotypes; and (iv) inter-genotype recombination events in G3 viruses involving G1 and G2 were described. These findings strongly suggest multiple inter-species transmission events between different non-human mammalian species and humans. INTRODUCTIONThe genus Rotavirus, in the family Reoviridae, is composed of seven different groups (groups A-G), although only groups A, B and C have been identified in humans (Hoshino & Kapikian, 1994). Group A rotavirus (RV) is responsible for most cases of gastroenteritis in humans and its genome consists of 11 double-stranded RNA (dsRNA) segments that encode six structural and six non-structural proteins. Two outer capsid proteins, VP4 and VP7, are used to define serotypes P (protease-cleaved protein VP4) and G (glycoprotein VP7) (Estes, 2001). RV serotypes are defined by virus neutralization, but genotypes are studied more often since they can be more easily characterized by sequencing or RT-PCR followed by sequencing of amplicons.Although 14 G serotypes, 16 G genotypes, 14 P serotypes and 27 P genotypes are known (Fukai et al., 2007;Gentsch et al., 1996;Liprandi et al., 2003;Martella et al., 2003;McNeal et al., 2005;Nakagomi et al., 1990), only 11 G and 15 P types have been identified in humans Martella et al., 2006a;McNeal et al., 2005;. Epidemiological studies in many parts of the world have indicated that there are five most common RV G types (G1, G2, G3, G4 and G9) and two P types (P[8] and P[4]) (Hoshino & Kapikian, 2000;Hoshino et al., 2002;Kapikian et al., 2001), and to a lesser extent P[6], P[9] and P[11] Santos et al., 2001), mainly found in countries of temperate climates. However, in countries of tropical and subtropical climates, other G and P types have been found to be most prevalent (Desselberger et al., 2001;Iturriza-Gó mara et al., 2003).There are a number of reports of RV strains isolated from humans and animals that share genetic and antigenic features of virus strains from heterologous species. In many cases, genetic analysis by hybridization has clearly demonstrated the genetic relatedness of gene segments from RV strains isolated from different species. Together with t...

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Section: Lineage IImentioning

confidence: 95%

Section: Comparisons Of Deduced Nucleotide and Corresponding Amino Acmentioning

confidence: 99%

“…The sequence similarity of the human and rabbit sequences is 93-95 % (nt) and 96-97 % (aa) (Supplementary Table S1) (Khamrin et al, 2006;Maneekarn et al, 2006).…”

Section: Lineage IVmentioning

confidence: 99%

mentioning

confidence: 99%

mentioning

confidence: 99%

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Diversity of the G3 genes of human rotaviruses in isolates from Spain from 2004 to 2006: cross-species transmission and inter-genotype recombination generates alleles

Martı́nez-Laso

Román

Rodríguez

et al. 2009

Journal of General Virology

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Molecular characterization of rare G3P[9] rotavirus strains isolated from children hospitalized with acute gastroenteritis

Khamrin

Maneekarn

Peerakome

et al. 2007

Journal of Medical Virology

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In 2004, an epidemiological survey of human rotavirus infection in Chiang Mai, Thailand detected two uncommon human rotavirus strains (CMH120/04 and CMH134/04) bearing AU-1-like G3P[9] genotypes in 1 year old children hospitalized with acute gastroenteritis. The CMH120/04 and CMH134/04 rotavirus strains were characterized by molecular analyses of their VP6, VP7, VP8*, and NSP4 gene segments as well as the determination of RNA patterns by polyacrylamide gel electrophoresis (PAGE). Analysis of the VP8* gene revealed a high level of amino acid sequence identities with those of P[9] rotavirus reference strains, ranging from 94.9% to 98.3%. The highest identities were shared with the human rotavirus AU-1 strain at 97.8% and 98.3% for CMH120/04 and CMH134/04 strains, respectively. Analysis of the VP7 gene sequence revealed the highest identities with G3 human rotavirus strain KC814 at 96.6% and 96.2% for CMH120/04 and CMH134/04 strains, respectively. Based on the analyses of VP7 and VP8* genes, CMH120/04 and CMH134/04 belonged to G3P[9] genotypes. In addition, analyses of VP6 and NSP4 sequences revealed a VP6 subgroup (SG) I, with NSP4 genetic group C specificities. Moreover, both strains displayed a long RNA electrophoretic pattern. The finding of uncommon G3P[9] rotaviruses in pediatric patients provided additional evidence of the genetic/antigenic diversities of human group A rotaviruses in the Chiang Mai area of Thailand.

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Molecular characterization of VP4, VP6, VP7, NSP4, and NSP5/6 genes identifies an unusual G3P[10] human rotavirus strain

Khamrin

Maneekarn

Peerakome

et al. 2008

Journal of Medical Virology

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An unusual strain of human rotavirus G3P [10] (CMH079/05) was detected in a stool sample of a 2-year-old child admitted to the hospital with severe diarrhea in Chiang Mai, Thailand. Analysis of the VP7 gene sequence revealed highest identities with unusual human rotavirus G3 strain CMH222 at 98.7% on the nucleotide and 99.6% on the amino acid levels. Phylogenetic analysis of the VP7 sequence confirmed that the CMH079/05 strain formed a cluster with G3 rotavirus reference strains and showed the closest lineage with the CMH222 strain. Analysis of partial VP4 gene of CMH079/05 revealed highest degree of sequence identities with P[10] rotavirus prototype strain 69M at nucleotide and amino acid levels of 92.9% and 94.6%, respectively. Phylogenetic analysis of the VP4 sequence revealed that CMH079/05 and 69M clustered closely together in a monophyletic branch separated from other rotavirus genotypes. To our knowledge, this is a novel G-P combination of G3 and P[10] genotypes. In addition, analyses of VP6, NSP4, and NSP5/6 genes revealed these uncommon genetic characteristics: (i) the VP6 gene differed from the four other known subgroups; (ii) the NSP4 gene was identified as NSP4 genetic group C, an uncommon group in humans; and (iii) the NSP5/6 gene was most closely related with T152, a G12P[9] rotavirus previously isolated in Thailand. The finding of uncommon G3P [10] rotavirus in this pediatric patient provided additional evidence of the genetic diversity of human group A rotaviruses in Chiang Mai, Thailand.

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Detection of Rare G3P[19] Porcine Rotavirus Strains in Chiang Mai, Thailand, Provides Evidence for Origin of the VP4 Genes of Mc323 and Mc345 Human Rotaviruses

Cited by 43 publications

References 53 publications

Diversity of the G3 genes of human rotaviruses in isolates from Spain from 2004 to 2006: cross-species transmission and inter-genotype recombination generates alleles

Diversity of the G3 genes of human rotaviruses in isolates from Spain from 2004 to 2006: cross-species transmission and inter-genotype recombination generates alleles

Molecular characterization of rare G3P[9] rotavirus strains isolated from children hospitalized with acute gastroenteritis

Molecular characterization of VP4, VP6, VP7, NSP4, and NSP5/6 genes identifies an unusual G3P[10] human rotavirus strain

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