Evolution of a G6P[6] rotavirus strain isolated from a child with acute gastroenteritis in Ghana, 2012

Agbemabiese, Chantal Ama; Nakagomi, Toyoko; Suzuki, Yoshiyuki; Armah, George; Nakagomi, Osamu

doi:10.1099/vir.0.000174

Cited by 12 publications

(10 citation statements)

References 61 publications

(56 reference statements)

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“…The detection of this group A rotaviruses is in tandem with the report of [27] who provided evidence for the strongest identity of human and bovine strains indicating that the RVA VP7s of bovine origin are shared in strains of human rotaviruses. Although previous report of G6 animal strains evolving from G2 or G8 RVA strains with DS-1-like background, acquiring the G6 VP7 gene from a human G6P [9] RVA and not from an artiodactyl G6 RVA strain have been reported in the literature, G6 strains were not found in this study [28].…”

Section: Discussioncontrasting

confidence: 57%

Group A Rotavirus Genotypes among Calf Herds in Southwest Nigeria and Implications for Human Rotavirus Vaccines’ Efficiency

Babalola¹

2020

OJVM

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Rotaviruses have been widely reported to be associated with diarrhea in humans but fewer studies abound on other mammalian species. This prospective study was conducted to detect and characterize Rotaviruses from freely ranged migratory herds of cattle in Ekiti and Ondo states, Nigeria with a view to further expanding knowledge on rotaviruses, possible animal-human interspecies transmission and impacts on vaccine efficiency. By convenience sampling, between September 2014 and February 2015, stool samples from 120 calves, comprising settled and migratory herds of cattle were obtained and examined for group A rotaviruses using Certest® Quadruple Enzyme Immuno Assay. Rotavirus genomes were isolated by extraction from the positive samples, reverse transcribed and amplified by One-Step reverse transcription polymerase chain reaction (RT-PCR), and genotyped by semi-nested multiplex PCR. Representative PCR products of the genotyped samples were purified and sequenced using Sanger method. The generated query sequences were queried to the GenBank to retrieve similar sequences for pairwise alignment by Clus-talW. Phylogenetic analyses by Neighbour-joining method were conducted at 1000 bootstrap replicates to obtain phylograms using MEGA 6 software. Fifteen samples (15/120: 12.5%) were positive for rotavirus. No statistically significant association existed between rotavirus infection and gender of the calves (χ 2 = 0, df = 1, p = 1). Eight samples (8/15: 53.3%) were successfully genotyped where the G1, G5, G9, G10, G12, and P[6] were detected. Nucleotide Sequencing of the VP7 and VP4 genes of the genotyped samples confirmed strains G1P[6], G10P[6], and G12P[6] with 58%-100% nucleotide identity within these viruses. Phylogenetic analysis revealed 2 possible transmissions from India and Honduras. Bovine rotaviruses were detected in freely ranged and settled calf herds in southwestern Nigeria at a rate of 12.5%. The strains How to cite this paper: Babalola, M.O.

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Section: Discussioncontrasting

confidence: 57%

Group A Rotavirus Genotypes among Calf Herds in Southwest Nigeria and Implications for Human Rotavirus Vaccines’ Efficiency

Babalola¹

2020

OJVM

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“…The unusual combination G6P[6] was first reported in human cases acquired in Mali in 2003 and from France 31,33 . It has been detected only once before in Ghana 32,44 . The G6P[8] combination has been reported from Bulgaria and Bangladesh 45,46 .…”

Section: Discussionmentioning

confidence: 99%

A Multiplex PCR/LDR Assay for Viral Agents of Diarrhea with the Capacity to Genotype Rotavirus

Mirza

Das

Pingle

et al. 2018

Sci Rep

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Rotavirus and noroviruses are major causes of diarrhea. Variable rotavirus vaccination efficacy in Africa and Asia is multifactorial, including the diversity of circulating strains and viral co-infection. We describe a multiplexed assay that detects and genotypes viruses from stool specimens. It includes a one-step reverse transcriptase PCR reaction, a ligase detection reaction (LDR), then hybridization of fluorescent products to micro-beads. In clinical samples it detects rotavirus, caliciviruses (sapovirus and norovirus), mixed infections, and genotypes or genogroups of rotaviruses and noroviruses, respectively. The assay also has the capacity to detect hepatitis A. The assay was validated on reference isolates and 296 stool specimens from the US and Ghana. The assay was 97% sensitive and 100% specific. The genogroup was concordant in 100% of norovirus, and the genotype in 91% and 89% of rotavirus G- and P-types, respectively. Two rare rotavirus strains, G6P[6] and G6P[8], were detected in stool specimens from Ghana. The high-throughput assay is sensitive, specific, and may be of utility in the epidemiological surveillance for rare and emerging viral strains post-rotavirus vaccine implementation.

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“…Both vaccines demonstrated broad protection against the most common RVA genotypes [18]. However, their efficacy is low especially on the African continent with diverse pool of strain types [19, 20]. G6P[14] strain detected in this study shares neither G- nor P-genotype with either of the two current vaccines.…”

Section: Discussionmentioning

confidence: 97%

Detection of the first G6P[14] human rotavirus strain in an infant with diarrhoea in Ghana

Damanka

Lartey

Agbemabiese

et al. 2016

Virol J

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BackgroundRotaviruses with G6P[14] specificity are mostly isolated in cattle and have been established as a rare cause of gastroenteritis in humans. This study reports the first detection of G6P[14] rotavirus strain in Ghana from the stool of an infant during a hospital-based rotavirus surveillance study in 2010.MethodsViral RNA was extracted and rotavirus VP7 and VP4 genes amplified by one step RT-PCR using gene-specific primers. The DNA was purified, sequenced and genotypes determined using BLAST and RotaC v2.0. Phylogenetic tree was constructed using maximum likelihood method in MEGA v6.06 software and statistically supported by bootstrapping with 1000 replicates. Phylogenetic distances were calculated using the Kimura-2 parameter model.ResultsThe study strain, GHA-M0084/2010 was characterised as G6P[14]. The VP7 gene of the Ghanaian strain clustered in G6 lineage-III together with artiodactyl and human rotavirus (HRV) strains. It exhibited the highest nucleotide (88.1 %) and amino acid (86.9 %) sequence identity with Belgian HRV strain, B10925. The VP8* fragment of the VP4 gene was closely related to HRV strains detected in France, Italy, Spain and Belgium. It exhibited the strongest nucleotide sequence identity (87.9 %) with HRV strains, PA169 and PR/1300 (Italy) and the strongest amino acid sequence identity (89.3 %) with HRV strain R2775/FRA/07 (France).ConclusionThe study reports the first detection of G6P[14] HRV strain in an infant in Ghana. The detection of G6P[14], an unusual strain pre-vaccine introduction in Ghana, suggests a potential compromise of vaccine effectiveness and indicates the necessity for continuous surveillance in the post vaccine era.Electronic supplementary materialThe online version of this article (doi:10.1186/s12985-016-0643-y) contains supplementary material, which is available to authorized users.

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Evolution of a G6P[6] rotavirus strain isolated from a child with acute gastroenteritis in Ghana, 2012

Cited by 12 publications

References 61 publications

Group A Rotavirus Genotypes among Calf Herds in Southwest Nigeria and Implications for Human Rotavirus Vaccines’ Efficiency

Group A Rotavirus Genotypes among Calf Herds in Southwest Nigeria and Implications for Human Rotavirus Vaccines’ Efficiency

A Multiplex PCR/LDR Assay for Viral Agents of Diarrhea with the Capacity to Genotype Rotavirus

Detection of the first G6P[14] human rotavirus strain in an infant with diarrhoea in Ghana

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