Molecular characterization of group A rotavirus strains detected in children with diarrhea admitted to Nigerian hospitals in 2013

Ianiro, Giovanni; Delogu, Roberto; Baba, Marycelin; Oderinde, Bamidele Soji; Dawurung, Joshua; Ruggeri, Franco Maria; Fiore, Lucia

doi:10.1007/s00705-015-2389-z

Cited by 8 publications

(18 citation statements)

References 24 publications

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“…The impact of unusual strains on RV evolution has yet to be determined, however, such strains could provide the opportunity for the introduction of novel P or G genes into human population via reassortment events [ 22 ]. The non-typeable strains included in the study were the RV strains which could not be typed either for any of the G (5.1%) or P (4.1%) genotypes or for both genotypes (1.3%) which is lower than that observed (6.1% G-P non-typeable) in neighboring Nigeria [ 23 ].…”

Section: Discussionmentioning

confidence: 99%

Pre-vaccine circulating group a rotavirus strains in under 5 years children with acute diarrhea during 1999-2013 in Cameroon

et al. 2017

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The aim of this review was to assess all the studies on rotavirus G and P characterization during the pre-vaccine period (1999–2013) in Cameroon to have a better basis for post-vaccine introduction evaluations. A retrospective study was done through a comprehensive review of published (PubMed, Google Scholar) and accessible unpublished data on rotavirus G and P genotypes circulating in five regions of Cameroon. Descriptive data were expressed as frequencies tables and proportions. A total of 1844 rotavirus positive cases were analyzed. In all, 1534 strains were characterized for the P (VP4) specificity. Six different VP4 genotypes were observed, including P [4], P [6], P [8], P [9], P [10] and P [14]. The most predominant P genotypes were P [8] at 42.6%, and P [6] at 37.9%. Mixed infections were observed at 5.3%, whereas 4.1% of the strains were P non-typeable. A total of 1518 rotavirus strains were characterized for the G (VP7) specificity. VP7 genotypes G1, G2, G3, G4, G5, G6, G8, G9, G10 and G12 were observed. G1 (35.3%), G3 (19.5%), G2 (14.9%) and G12 (10.1%) were the predominant G genotypes while G5 and G10 were least prevalent at 0.06% each. Approximately 5.1% of all strains were G non-typeable whereas 5.3% were mixed G genotypes. A total of 1472 strains were characterized for both G and P genes, from which 38 different G–P combinations were observed. Overall, G1P [8] (22%) was identified as the predominant rotavirus strain circulating in Cameroon followed by G3P [6] (15%). In conclusion, we observed that the genotypes identified in Cameroon during 1999–2013 were partially covered by the two WHO recommended rotavirus vaccines. This review provides comprehensive up-to-date information on rotavirus strain surveillance in Cameroon during the pre-vaccination era.

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Section: Discussionmentioning

confidence: 99%

Pre-vaccine circulating group a rotavirus strains in under 5 years children with acute diarrhea during 1999-2013 in Cameroon

et al. 2017

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“…Alkali et al [ 28 ] detected G4P[8], G4P[6], and G3P[6] strains among children from Sokoto. The most recent report on rotavirus molecular characterization reported unusual G3 strains not previously identified in Africa [ 29 ]. Another landmark report was that of Adah et al [ 30 ] that showed evidence of a possible intra host recombinant G8P[1] human rotavirus strain HMG035 which was very similar to that of a bovine A5 strain from Thailand.…”

Section: Epidemiology Of Rotavirus In Nigeriamentioning

confidence: 99%

“…Majority of the VP7 sequences recovered between the years 2010 and 2013 belonged to genotypes G3 and G12 and were recovered in two separate outbreaks. The first outbreak took place in Ile-Ife in South Western, Nigeria, in 2011 [ 26 ], while the second outbreak took place in Enugu, Eastern Nigeria, Ile-Ife South West, Nigeria, and Maiduguri Northern Nigeria, in 2013 [ 29 , 33 ]. Virtually all the G3 isolates, particularly the 2011 outbreak strains, fell within lineage III.…”

Section: Molecular Diversity Of Rotavirus Vp7 (G) and Vp4 [P] Genomentioning

confidence: 99%

“…Virtually all the VP4 gene sequences were submitted after the year 2000, except for one HMC035 G8P[1] isolated in 1999 by Adah et al [ 30 ]. Majority of the sequences analyzed were from quite recent isolates precisely between 2012 and 2013 [ 29 , 33 ]. From our analysis, majority of genotype P[8] isolates fell within lineage III, while genotype P[6] isolates fell within lineage I ( Figure 3 ); this is concordant to previous reports [ 29 , 33 ].…”

Section: Molecular Diversity Of Rotavirus Vp7 (G) and Vp4 [P] Genomentioning

confidence: 99%

“…Majority of the sequences analyzed were from quite recent isolates precisely between 2012 and 2013 [ 29 , 33 ]. From our analysis, majority of genotype P[8] isolates fell within lineage III, while genotype P[6] isolates fell within lineage I ( Figure 3 ); this is concordant to previous reports [ 29 , 33 ]. Amino acid and nucleotide alignments of Nigerian G12 partial sequences were shown to be conserved, with complete amino acid motif conservation between analyzed G12 isolates.…”

Section: Molecular Diversity Of Rotavirus Vp7 (G) and Vp4 [P] Genomentioning

confidence: 99%

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Epidemiology of Rotavirus A in Nigeria: Molecular Diversity and Current Insights

Motayo

Faneye

Adeniji

2018

Journal of Pathogens

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Rotavirus induced acute gastroenteritis AGE has been a major disease burden in Nigeria, since it was first reported in 1985. Prevalence rates have increased with severe public health consequences particularly among children. The vaccine Rotarix® has been introduced and is commercially available in Nigeria. However routine rotavirus vaccination is yet to be introduced into the National Immunization Program. Molecular epidemiology of rotavirus in Nigeria has shown the presence of various genotypes, with genotype G12P[8] being the most recent introduction. There are however gaps in molecular data on rotavirus in Nigeria. We therefore reviewed molecular data on rotavirus isolated in Nigeria and also analyzed VP4 and VP7 genes of Nigerian rotavirus strains in Genbank. We have shown that there is a distinct trend in rotavirus molecular epidemiology in Nigeria, with new genotype introductions occurring after the year 2010. We also observed from our analysis the emergence of genotype G12 Lineage III as a dominant genotype. This information elucidates rotavirus molecular epidemiology in Nigeria and gives insight to the expanding landscape of rotavirus genotypes. We recommend the institution of molecular surveillance country wide, before considering the inclusion of rotavirus vaccination into the National Immunization Program in Nigeria, in other to monitor evolution of divergent or recombinant strains.

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Phylogeography and evolutionary analysis of African Rotavirus a genotype G12 reveals district genetic diversification within lineage III

Motayo

Oluwasemowo

Olusola

et al. 2019

Heliyon

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Group A rotavirus (RVA) genotype G12 has spread globally and has become one of the most prevalent genotypes of rotavirus in Africa. To understand the drivers for its genetic diversity and rapid spread we investigated the Bayesian phylogeography, viral evolution and population demography of Rotavirus G12 in Africa. We downloaded and aligned VP7 gene sequences of Rotavirus genotype G12, from thirteen African countries (n ¼ 96). Phylogenetic analysis, Evolutionary analysis and Bayesian Phylogeography was carried out, using MEGA Vs 6, BEAST, and SPREAD3. Phylogenetic analysis revealed that all the African sequences fell into lineage III diversifying into two major clades. The evolutionary rate of the African rotavirus G12 sequences was 1.678Â10 À3 , (95% HPD, 1.201Â10 À3-2.198Â10 À3) substitutions/site/year, with TMRC of 16.8 years. The Maximum clade credibility (MCC) tree clustered into three lineages (II, III, IV), African strains fell within lineage III, and diversified into three clusters. Phylogeography suggested that South Africa seemed to be the epicentre of dispersal of the genotype. The demographic history of the G12 viruses revealed a steady increase between the years1998-2007, followed by a sharp decrease in effective population size between the years 2008-2011. We have shown the potential for genetic diversification of Rotavirus genotype G12 in Africa. We recommend the adoption of Molecular surveillance across Africa to further control spread and diversification of Rotavirus.

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Molecular characterization of group A rotavirus strains detected in children with diarrhea admitted to Nigerian hospitals in 2013

Cited by 8 publications

References 24 publications

Pre-vaccine circulating group a rotavirus strains in under 5 years children with acute diarrhea during 1999-2013 in Cameroon

Pre-vaccine circulating group a rotavirus strains in under 5 years children with acute diarrhea during 1999-2013 in Cameroon

Epidemiology of Rotavirus A in Nigeria: Molecular Diversity and Current Insights

Phylogeography and evolutionary analysis of African Rotavirus a genotype G12 reveals district genetic diversification within lineage III

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