英国弯曲杆菌种类加强实验室监测研究。

IF 2
Craig Swift, Adam Crewdson, Yung-Wai Chan, Anais Painset, Amy Douglas, Suzanne Gokool, Claire Jenkins, Gauri Godbole
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引用次数: 0

摘要

介绍。弯曲杆菌病是世界范围内胃肠炎的主要原因,弯曲杆菌是英国最常见的人畜共患细菌性食源性病原体。差距的声明。目前,英国只有不到2.0%的弯曲杆菌分离株进行了菌株鉴定和分型,导致对其分子流行病学的了解有限。通过对英国弯曲杆菌进行为期3个月的强化实验室监测,评估使用高通量全基因组测序(WGS)产生微生物学和流行病学分析数据的可行性,并提出改进当前弯曲杆菌监测策略的建议。鼓励英国所有诊断实验室在3个月内(2021年6月7日至8月31日)将弯曲杆菌分离株用于WGS。共鉴定出6000余株弯曲杆菌,其中87.5%为空肠弯曲杆菌,8.1%为大肠弯曲杆菌。超过一半的分离株来自男性患者(53%),大肠杆菌分离株往往来自年龄较大的患者,而不是空肠梭菌,中位年龄分别为55岁和44岁。最常见的多位点测序型克隆复合体是ST-21,其中最常见的测序型是ST6175,其中96.8%的测序型预测携带耐药决定因素,推断对环丙沙星和四环素的敏感性降低。4个最大的空肠梭菌5-单核苷酸多态性(SNP)集群占23.8% (n=1,150/4,838),与较大的克隆复合物和序列类型群(ST6175、ST48、ST6175和ST5136)相关。相反,28.4%的空肠c菌和39.5%的大肠c菌表现为散发性,且每个分离株在5-SNP水平上具有唯一的SNP地址。WGS能够几乎实时地鉴定弯曲杆菌分离株的遗传相关簇,并显示出监测推断抗菌素耐药性的潜力。然而,要充分发挥其潜力,需要参考足够和有代表性的分离株进行测序,同时收集流行病学数据。
本文章由计算机程序翻译,如有差异,请以英文原文为准。

Enhanced laboratory surveillance study of <i>Campylobacter</i> species in England.

Enhanced laboratory surveillance study of <i>Campylobacter</i> species in England.

Enhanced laboratory surveillance study of <i>Campylobacter</i> species in England.

Enhanced laboratory surveillance study of Campylobacter species in England.

Introduction. Campylobacteriosis is the leading cause of gastroenteritis worldwide, and Campylobacter species are the most frequently reported zoonotic, bacterial foodborne pathogens in England.Gap statement. Currently, less than 2.0% of Campylobacter isolates in England undergo strain identification and typing, resulting in limited insight into their molecular epidemiology.Aim. To assess the feasibility of using high-throughput whole-genome sequencing (WGS) to generate data for microbiological and epidemiological analysis by the implementation of a 3-month enhanced laboratory surveillance for Campylobacter spp. in England, and to make recommendations for improving the current Campylobacter surveillance strategies.Methodology. All diagnostic laboratories in England were encouraged to refer isolates of Campylobacter spp. for WGS over a 3-month period (7 June-31 August 2021).Results. Over 6,000 Campylobacter species isolates were characterized, of which 87.5% were successfully identified as Campylobacter jejuni and 8.1% as Campylobacter coli. Just over half of the isolates were referred from patients who were male (53%), and C. coli isolates tended to be from older patients than C. jejuni, with median ages of 55 and 44 years, respectively. The most common multi-locus sequencing type clonal complex identified was ST-21, and within this, the sequencing type ST6175 was the most frequently identified, of which 96.8% were predicted to carry antimicrobial resistance determinants, inferring reduced susceptibility to both ciprofloxacin and tetracycline. The four largest C. jejuni 5-single nucleotide polymorphism (SNP) clusters, associated with the larger clonal complexes and sequence type groups (ST6175, ST48, ST6175 and ST5136), accounted for 23.8% (n=1,150/4,838) of SNP typable isolates. Conversely, 28.4% and 39.5% of isolates C. jejuni and C. coli, respectively, appeared to be sporadic, with each isolate assigned a unique SNP address at the 5-SNP level.Conclusion. WGS enabled identification of genetically related clusters of Campylobacter isolates in almost real time and shows potential for monitoring of inferred antimicrobial resistance. However, unlocking its full potential requires referral of sufficient and representative isolates for sequencing with parallel epidemiological data collection.

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