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首页> 外文期刊>African Journal of Laboratory Medicine >Review of molecular subtyping methodologies used to investigate outbreaks due to multidrug-resistant enteric bacterial pathogens in sub-Saharan Africa
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Review of molecular subtyping methodologies used to investigate outbreaks due to multidrug-resistant enteric bacterial pathogens in sub-Saharan Africa

机译：综述了用于研究撒哈拉以南非洲多耐药肠细菌病原体暴发的分子分型方法

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Background: ?In sub-Saharan Africa, molecular epidemiological investigation of outbreaks caused by antimicrobial-resistant enteric bacterial pathogens have mostly been described for? Salmonella ?species,? Vibrio cholerae, Shigella ?species and? Escherichia coli . For these organisms, I reviewed all publications describing the use of molecular subtyping methodologies to investigate outbreaks caused by multidrug-resistant (MDR) enteric bacterial infections. Objectives: ?To describe the use of molecular subtyping methodologies to investigate outbreaks caused by MDR enteric bacterial pathogens in sub-Saharan Africa and to describe the current status of molecular subtyping capabilities in the region. Methods: ?A PubMed database literature search (English language only) was performed using the search strings: ‘Africa outbreak MDR’, ‘Africa outbreak multi’, ‘Africa outbreak multidrug’, ‘Africa outbreak multi drug’, ‘Africa outbreak resistance’, ‘Africa outbreak resistant’, ‘Africa outbreak drug’, ‘Africa outbreak antibiotic’, ‘Africa outbreak antimicrobial’. These search strings were used in combination with genus and species names of the organisms listed above. All results were included in the review. Results: ?The year 1991 saw one of the first reports describing the use of molecular subtyping methodologies in sub-Saharan Africa; this included the use of plasmid profiling to characterise? Salmonella ?Enteritidis. To date, several methodologies have been used; pulsed-field gel electrophoresis analysis and multilocus sequence typing have been the most commonly used methodologies. Investigations have particularly highlighted the emergence and spread of MDR clones; these include? Salmonella ?Typhi H58 and? Salmonella ?Typhimurium ST313 clones. In recent times, whole-genome sequencing (WGS) analysis approaches have increasingly been used. Conclusion: ?Traditional molecular subtyping methodologies are still commonly used and still have their place in investigations; however, WGS approaches have increasingly been used and are slowly gaining a stronghold. African laboratories need to start adapting their molecular surveillance methodologies to include WGS, as it is foreseen that WGS analysis will eventually replace all traditional methodologies.
机译：背景：在撒哈拉以南非洲地区，对由抗药性肠细菌病原体引起的暴发的分子流行病学调查主要描述如下：沙门氏菌？霍乱弧菌，志贺氏菌？种和？大肠杆菌 。对于这些生物，我回顾了所有描述使用分子亚型方法研究由多重耐药性（MDR）肠细菌感染引起的暴发的出版物。目的：描述使用分子分型方法研究撒哈拉以南非洲由MDR肠细菌病原体引起的暴发，并描述该地区分子分型能力的现状。方法：使用以下搜索字符串执行PubMed数据库文献搜索（仅英语）：“非洲疫情爆发多药耐药性”，“非洲疫情爆发多发性药物”，“非洲疫情爆发多发性毒品”，“非洲疫情爆发多发性毒品”，“非洲疫情爆发抗性” ，“非洲暴发抗药性”，“非洲暴发性药物”，“非洲暴发性抗生素”，“非洲暴发性抗菌药”。这些搜索字符串与上面列出的生物的属名和物种名结合使用。所有结果均包括在评价中。结果：1991年，第一个报告描述了在撒哈拉以南非洲使用分子亚型方法的报告。这包括使用质粒分析来表征吗？沙门氏菌肠炎。迄今为止，已经使用了几种方法。脉冲场凝胶电泳分析和多基因座序列分型是最常用的方法。调查特别突出了MDR克隆的出现和传播。这些包括？沙门氏菌伤寒H58和？沙门氏菌鼠伤寒沙门氏菌ST313克隆。近年来，全基因组测序（WGS）分析方法越来越多地被使用。结论：？传统的分子亚型分析方法仍是常用方法，仍在研究中占有一席之地。但是，WGS方法已被越来越多地使用，并且正在逐步获得据点。非洲实验室需要开始调整其分子监测方法以包括WGS，因为可以预见WGS分析最终将取代所有传统方法。

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