Agbla Jijoho M, Mogotsi Milton T, Zohoun Alban G, Shange Nkosazana D, Capochichi Annick, Ogunbayo Ayodeji E, Assogba Rolande, Khakha Shainey, Sossou Aristide, Sondlane Hlengiwe, Mwenda Jason M, Esona Mathew D, Nyaga Martin M
National Public Health Laboratory, Ministry of Public Health, Cotonou 01 P.O. Box 418, Benin.
Next Generation Sequencing Unit, School of Biomedical Sciences, Faculty of Health Sciences, Bloemfontein 9300, South Africa.
Viruses. 2025 Aug 7;17(8):1091. doi: 10.3390/v17081091.
While a global downward trend in rotavirus diarrhea cases has been observed following vaccine introduction, reassortment, genetic drift, and vaccine-escaping strains remain a concern, particularly in Sub-Saharan Africa. Here, we provide genomic insights into three equine-like G3P[8] rotavirus strains detected in Benin during the post-vaccine era. Whole-genome sequencing was performed using the Illumina MiSeq platform, and genomic analysis was conducted using bioinformatics tools. The G3 of the study strains clustered within the recently described lineage IX, alongside the human-derived equine-like strain D388. The P[8] is grouped within the lineage III, along with cognate strains from the GenBank database. Both the structural and non-structural gene segments of these study strains exhibited genetic diversity, highlighting the ongoing evolution of circulating strains. Notably, we identified a novel NSP2 lineage, designated NSP2-lineage VI. Amino acid comparisons of the G3 gene showed two conservative substitutions at positions 156 (A156V) and 260 (I260V) and one radical substitution at position 250 (K250E) relative to the prototype equine-like strain D388, the equine strain Erv105, and other non-equine-like strains. In the P[8] gene, three conservative (N195G, N195D, N113D) and one radical (D133N) substitutions were observed when compared with vaccine strains Rotarix and RotaTeq. These findings suggest continuous viral evolution, potentially driven by vaccine pressure. Ongoing genomic surveillance is essential to monitor genotype shifts as part of the efforts to evaluate the impact of emerging strains and to assess vaccine effectiveness in Sub-Saharan Africa.
虽然在引入疫苗后观察到轮状病毒腹泻病例呈全球下降趋势，但重配、基因漂移和疫苗逃逸株仍然令人担忧，尤其是在撒哈拉以南非洲地区。在此，我们提供了关于疫苗接种后时代在贝宁检测到的三株马样G3P[8]轮状病毒株的基因组见解。使用Illumina MiSeq平台进行全基因组测序，并使用生物信息学工具进行基因组分析。研究菌株的G3聚类在最近描述的谱系IX内，与人类源马样菌株D388在一起。P[8]与来自GenBank数据库的同源菌株一起归类于谱系III。这些研究菌株的结构和非结构基因片段均表现出遗传多样性，突出了流行菌株的持续进化。值得注意的是，我们鉴定出一个新的NSP2谱系，命名为NSP2-谱系VI。与原型马样菌株D388、马菌株Erv105和其他非马样菌株相比，G3基因的氨基酸比较显示在156位（A156V）和260位（I260V）有两个保守替换，在250位（K250E）有一个激进替换。在P[8]基因中，与疫苗株Rotarix和RotaTeq相比，观察到三个保守替换（N195G、N195D、N113D）和一个激进替换（D133N）。这些发现表明病毒在持续进化，可能是由疫苗压力驱动的。持续的基因组监测对于监测基因型变化至关重要，这是评估新出现菌株的影响以及评估撒哈拉以南非洲地区疫苗有效性工作的一部分。
