Phylogenetic analysis of nonstructural protein 5 (NSP5) gene sequences in porcine rotavirus B strains

Suzuki, Tohru; Soma, Junichi; Miyazaki, Akira; Tsunemitsu, Hiroshi

doi:10.1016/j.meegid.2012.06.016

Cited by 13 publications

(14 citation statements)

References 57 publications

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“…RVB strains from different host species are genetically different from one another [ 26 , 27 , 28 ], which was consistent with our analysis since Buryat15 had the highest nucleotide identity with swine RVB strains. The long branches with Buryat15 in the VP2, VP4, and NSP4 phylogenetic trees indicate a lack of information on the genetic diversity of porcine RVB strains.…”

Section: Discussionsupporting

confidence: 89%

Genome Characterization of a Pathogenic Porcine Rotavirus B Strain Identified in Buryat Republic, Russia in 2015

et al. 2018

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An outbreak of enteric disease of unknown etiology with 60% morbidity and 8% mortality in weaning piglets occurred in November 2015 on a farm in Buryat Republic, Russia. Metagenomic sequencing revealed the presence of rotavirus B in feces from diseased piglets while no other pathogens were identified. Clinical disease was reproduced in experimentally infected piglets, yielding the 11 RVB gene segments for strain Buryat15, with an RVB genotype constellation of G12-P[4]-I13-R4-C4-M4-A8-N10-T4-E4-H7. This genotype constellation has also been identified in the United States. While the Buryat15 VP7 protein lacked unique amino acid differences in the predicted neutralizing epitopes compared to the previously published swine RVB G12 strains, this report of RVB in Russian swine increases our epidemiological knowledge on the global prevalence and genetic diversity of RVB.

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Section: Discussionsupporting

confidence: 89%

Genome Characterization of a Pathogenic Porcine Rotavirus B Strain Identified in Buryat Republic, Russia in 2015

et al. 2018

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“…A high prevalence of porcine RVB and porcine RVB specific antibodies in porcine fecal and serum samples, respectively, are reported in several studies in Japan [110,144]. Furthermore, at least G3–G6, G8, G9, G11, G12–G15 and G18–G20 genotypes with distinct sub-clusters within the genotypes were identified in porcine samples collected in Japan between 2000 and 2007 [71,110] (Figure 3).…”

Section: Global Porcine Rv Distribution and Genotype Prevalence: Amentioning

confidence: 81%

Porcine Rotaviruses: Epidemiology, Immune Responses and Control Strategies

Vlasova

Amimo

Saif

2017

Viruses

179

197

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Rotaviruses (RVs) are a major cause of acute viral gastroenteritis in young animals and children worldwide. Immunocompetent adults of different species become resistant to clinical disease due to post-infection immunity, immune system maturation and gut physiological changes. Of the 9 RV genogroups (A–I), RV A, B, and C (RVA, RVB, and RVC, respectively) are associated with diarrhea in piglets. Although discovered decades ago, porcine genogroup E RVs (RVE) are uncommon and their pathogenesis is not studied well. The presence of porcine RV H (RVH), a newly defined distinct genogroup, was recently confirmed in diarrheic pigs in Japan, Brazil, and the US. The complex epidemiology, pathogenicity and high genetic diversity of porcine RVAs are widely recognized and well-studied. More recent data show a significant genetic diversity based on the VP7 gene analysis of RVB and C strains in pigs. In this review, we will summarize previous and recent research to provide insights on historic and current prevalence and genetic diversity of porcine RVs in different geographic regions and production systems. We will also provide a brief overview of immune responses to porcine RVs, available control strategies and zoonotic potential of different RV genotypes. An improved understanding of the above parameters may lead to the development of more optimal strategies to manage RV diarrheal disease in swine and humans.

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“…The RVB percent identity cutoff values of 80%, 81%, 70%, 76%, 75%, 78%, 70% and 78% have been established for segments VP7, VP6, VP3, NSP1, NSP2, NSP3, NSP4, and NSP5, respectively [ 28 , 30 , 31 , 32 , 33 , 34 ]. Based on these cutoff values, 24 G [ 35 ], 13 I [ 31 ], 4 M [ 30 ], 7 A [ 34 ], 4 N [ 32 ], 4 T [ 30 ], 4 E [ 30 ], and 6 H [ 33 ] genotypes have been identified. In the present study, RVB nucleotide sequences of several porcine strains and a single caprine strain were determined to investigate the genetic diversity and illustrate the phylogenetic relationships of all 11 RVB gene segments to identify distinct genotypes and reassortment events.…”

Section: Introductionmentioning

confidence: 99%

Whole Genome Classification and Phylogenetic Analyses of Rotavirus B strains from the United States

et al. 2018

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Rotaviruses (RVs) are a major etiological agent of acute viral gastroenteritis in humans and young animals, with rotavirus B (RVB) often detected in suckling and weaned pigs. Group A rotavirus classification is currently based on the two outer capsid proteins, VP7 and VP4, and the middle layer protein, VP6. Using RVB strains generated in this study and reference sequences from GenBank, pairwise identity frequency graphs and phylogenetic trees were constructed for the eleven gene segments of RVB to estimate the nucleotide identity cutoff values for different genotypes and determine the genotype diversity per gene segment. Phylogenetic analysis of VP7, VP4, VP6, VP1–VP3, and NSP1–NSP5 identified 26G, 5P, 13I, 5R, 5C, 5M, 8A, 10N, 6T, 4E, and 7H genotypes, respectively. The analysis supports the previously proposed cutoff values for the VP7, VP6, NSP1, and NSP3 gene segments (80%, 81%, 76% and 78%, respectively) and suggests new cutoff values for the VP4, VP1, VP2, VP3, NSP2, NSP4, and NSP5 (80%, 78%, 79%, 77% 83%, 76%, and 79%, respectively). Reassortment events were detected between the porcine RVB strains from our study. This research describes the genome constellations for the complete genome of Group B rotaviruses in different host species.

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Phylogenetic analysis of nonstructural protein 5 (NSP5) gene sequences in porcine rotavirus B strains

Cited by 13 publications

References 57 publications

Genome Characterization of a Pathogenic Porcine Rotavirus B Strain Identified in Buryat Republic, Russia in 2015

Genome Characterization of a Pathogenic Porcine Rotavirus B Strain Identified in Buryat Republic, Russia in 2015

Porcine Rotaviruses: Epidemiology, Immune Responses and Control Strategies

Whole Genome Classification and Phylogenetic Analyses of Rotavirus B strains from the United States

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