A sixteen-month monitoring of human enteric viruses associated with acute gastroenteritis in Senegal.

IF 5 3区医学 Q1 GASTROENTEROLOGY & HEPATOLOGY

Gut Pathogens Pub Date : 2026-02-13 DOI:10.1186/s13099-026-00806-8

Ousmane Kébé, Bissoume Sambe Ba, Fatou Diène Thiaw, Cheikh Fall, Mamadou Aliou Barry, Landry Gérard Boussiengui, Jean Pierre Diallo, NDack Ndiaye, El Hadji Mamadou Ndiaye, Amadou Alpha Sall, Boly Diop, Yakhya Dièye, Ousmane Faye, Martin Faye

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Abstract

Background: Human enteric viruses are common pathogens that can cause acute gastroenteritis (AGE). The largest proportion of morbidity and mortality occurs in developing countries. This study aimed to assess the prevalence of enteric viruses causing AGE and genotype rotavirus A and norovirus positive specimens collected between September 2020 and December 2021 in Senegal.

Methods: Overall, 417 patients of all ages with AGE were enrolled in this study. Specimens were screened for enteric viruses using the Allplex™ GI-Virus Assay or singleplex RT-qPCR. Samples positive for rotavirus A or norovirus were genotyped using an amplicon-based method with nanopore sequencing. Data were analysed using the R statistical software.

Results: Of the 417 patients screened, 37,6% tested positive for at least one enteric virus and 30 (7.2%) patients had mixed infections. Norovirus (n = 58; 13.9%) was most frequently detected, followed by enterovirus (n = 49; 11.8%), rotavirus A (n = 23; 5.5%), adenovirus (n = 22; 5.3%), sapovirus (n = 18;4,3%), astrovirus (n = 15;3.6%) and Aichivirus (n = 3; 0.7%). However, the prevalence of rotavirus A was higher in the border regions (15.9% in Matam and 14.3% in Kédougou), highlighting the need to strengthen surveillance and research programs on rotavirus A in Senegal to better support the national vaccine program. The most common rotavirus A genotype was G12[P8] (47.8%) belonging to the lineage III and grouping with strains from other African countries. GII.4 Sydney 2012 [P31] (47.6%) was the predominant norovirus genotype in our study, followed by GII.16[PNA7] (28.6%), GII.6[P7] (14.3%), GII.2[P16] (4.8%) and GII.13[P16] (4.8%). Vomiting was significantly associated with rotavirus A infection while norovirus and enterovirus were the most common viral pathogens detected in patients with AGE.

Conclusion: Our findings provide new insights into the epidemiology of enteric viruses in Senegal. However, integrating these data with information on bacterial etiologies would allow for a more comprehensive assessment of the burden of AGE in Senegal.

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塞内加尔与急性胃肠炎相关的人肠道病毒的16个月监测

背景：人类肠道病毒是可引起急性胃肠炎（AGE）的常见病原体。发病率和死亡率的最大比例发生在发展中国家。本研究旨在评估2020年9月至2021年12月期间在塞内加尔收集的引起AGE的肠道病毒、基因型轮状病毒A和诺如病毒阳性标本的流行情况。方法：共纳入417例不同年龄的AGE患者。使用Allplex™GI-Virus Assay或单重RT-qPCR对标本进行肠道病毒筛选。采用基于扩增子的纳米孔测序方法对轮状病毒A或诺如病毒阳性样本进行基因分型。采用R统计软件对数据进行分析。结果：在筛选的417例患者中，37.6%的患者至少检测出一种肠道病毒阳性，30例（7.2%）患者为混合感染。检出最多的是诺如病毒（58例，占13.9%），其次是肠病毒（49例，占11.8%）、轮状病毒A（23例，占5.5%）、腺病毒（22例，占5.3%）、萨波病毒（18例，占4.3%）、星状病毒（15例，占3.6%）和爱奇病毒（3例，占0.7%）。然而，A轮状病毒在边境地区的流行率较高（马塔姆15.9%，凯萨杜古14.3%），这突出表明需要加强塞内加尔对A轮状病毒的监测和研究规划，以更好地支持国家疫苗规划。最常见的轮状病毒A基因型为G12[P8](47.8%)，属于III系，与来自其他非洲国家的毒株分型。诺如病毒主要基因型为GII.4 Sydney 2012 [P31](47.6%)，其次为GII.16[PNA7]（28.6%）、GII.6[P7]（14.3%）、GII.2[P16]（4.8%）和GII.13[P16]（4.8%）。呕吐与轮状病毒感染有显著相关性，而诺如病毒和肠病毒是AGE患者中最常见的病毒病原体。结论：本研究结果为塞内加尔肠道病毒流行病学研究提供了新的见解。然而，将这些数据与细菌病因学信息结合起来，可以更全面地评估塞内加尔的AGE负担。

本文章由计算机程序翻译，如有差异，请以英文原文为准。

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来源期刊

Gut Pathogens GASTROENTEROLOGY & HEPATOLOGY-MICROBIOLOGY

CiteScore

7.70

自引率

2.40%

发文量

期刊介绍： Gut Pathogens is a fast publishing, inclusive and prominent international journal which recognizes the need for a publishing platform uniquely tailored to reflect the full breadth of research in the biology and medicine of pathogens, commensals and functional microbiota of the gut. The journal publishes basic, clinical and cutting-edge research on all aspects of the above mentioned organisms including probiotic bacteria and yeasts and their products. The scope also covers the related ecology, molecular genetics, physiology and epidemiology of these microbes. The journal actively invites timely reports on the novel aspects of genomics, metagenomics, microbiota profiling and systems biology. Gut Pathogens will also consider, at the discretion of the editors, descriptive studies identifying a new genome sequence of a gut microbe or a series of related microbes (such as those obtained from new hosts, niches, settings, outbreaks and epidemics) and those obtained from single or multiple hosts at one or different time points (chronological evolution).