Selected insights from application of whole-genome sequencing for outbreak investigations.
Selected insights from application of whole-genome sequencing for outbreak investigations.
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DOI：
10.1097/mcc.0b013e3283636b8c
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发表时间：
2013-10
影响因子：
3.3
通讯作者：
Diep BA
中科院分区：
文献类型：
--
作者：
Le VT;Diep BA
高通量全基因组测序的出现有可能彻底改变疫情调查的进行。由于其最终的病原体菌株分辨率，全基因组测序可以增强传统的传染病暴发的流行病学调查。全基因组测序和深入的流行病学分析相结合，为大肠杆菌和霍乱弧菌引起的大规模流行病，耐甲氧西林金黄色葡萄球菌、肺炎克雷伯菌和结核分枝杆菌引起的医院内暴发，结核分枝杆菌引起的以社区为中心的暴发，以及环境获得性霉菌引起的自然灾害相关暴发的来源和传播动力学提供了新的见解。当与传统的流行病学调查相结合时，全基因组测序已被证明有助于阐明疾病暴发的来源和传播动力学。开发一个全自动的生物信息学管道分析全基因组序列数据是非常必要的，使这一强大的工具更广泛地访问。
The advent of high-throughput whole genome sequencing has the potential to revolutionize the conduct of outbreak investigation. Because of its ultimate pathogen strain resolution, whole genome sequencing could augment traditional epidemiologic investigations of infectious disease outbreaks. The combination of whole genome sequencing and intensive epidemiologic analysis provided new insights on the sources and transmission dynamics of large-scale epidemics caused by Escherichia coli and Vibrio cholerae, nosocomial outbreaks caused by methicillin-resistant Staphylococcus aureus, Klebsiella pneumonia, and Mycobacterium abscessus, community-centered outbreaks caused by Mycobacterium tuberculosis, and natural disaster-associated outbreak caused by environmentally acquired molds. When combined with traditional epidemiologic investigation, whole genome sequencing has proven useful for elucidating sources and transmission dynamics of disease outbreaks. Development of a fully automated bioinformatics pipeline for analysis of whole genome sequence data is much needed to make this powerful tool more widely accessible.