Whole genome multilocus sequence typing as an epidemiologic tool for Yersinia pestis.
Whole genome multilocus sequence typing as an epidemiologic tool for Yersinia pestis.
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DOI：
10.1016/j.diagmicrobio.2015.12.003
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发表时间：
2016-04
影响因子：
2.9
通讯作者：
Petersen JM
中科院分区：
文献类型：
--
作者：
Kingry LC;Rowe LA;Respicio-Kingry LB;Beard CB;Schriefer ME;Petersen JM
人类鼠疫是由鼠疫耶尔森氏菌引起的严重且常常致命的人畜共患疾病。对于人类病例的公共卫生调查，能够定义流行病学关系的非强化全基因组分子分型工具是有利的。全基因组多位点序列分型 (wgMLST) 是一种最近开发的方法，通过将数百万个碱基对序列转换为每个基因的字符数据来简化基因组分析。我们对 13 个具有已知流行病学关系的美国鼠疫杆菌分离株进行了测序。从头组装序列，并通过与参考菌株 CO92 的 3979 个开放阅读框进行比较来分配多位点序列分型等位基因。基于等位基因的聚类分析根据流行病学关系对 13 种分离株以及 9 种公开的鼠疫耶尔森氏菌分离株进行了准确分组。我们的研究结果表明，wgMLST 是一种简化、灵敏且可扩展的工具，用于鼠疫耶尔森菌株的流行病学分析。
Human plague is a severe and often fatal zoonotic disease caused by Yersinia pestis. For public health investigations of human cases, nonintensive whole genome molecular typing tools, capable of defining epidemiologic relationships, are advantageous. Whole genome multilocus sequence typing (wgMLST) is a recently developed methodology that simplifies genomic analyses by transforming millions of base pairs of sequence into character data for each gene. We sequenced 13 US Y. pestis isolates with known epidemiologic relationships. Sequences were assembled de novo, and multilocus sequence typing alleles were assigned by comparison against 3979 open reading frames from the reference strain CO92. Allele-based cluster analysis accurately grouped the 13 isolates, as well as 9 publicly available Y. pestis isolates, by their epidemiologic relationships. Our findings indicate wgMLST is a simplified, sensitive, and scalable tool for epidemiologic analysis of Y. pestis strains.