Source attribution of Campylobacter jejuni shows variable importance of chicken and ruminants reservoirs in non-invasive and invasive French clinical isolates
Source attribution of Campylobacter jejuni shows variable importance of chicken and ruminants reservoirs in non-invasive and invasive French clinical isolates
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DOI：
10.1038/s41598-019-44454-2
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发表时间：
2019-05-30
影响因子：
4.6
通讯作者：
Lehours, Philippe
中科院分区：
文献类型：
--
作者：
Berthenet, Elvire;Thepault, Amandine;Lehours, Philippe
空肠弯曲菌是全球细菌性胃肠炎最常见的病因。主要分离自粪便标本，C.空肠也可以成为侵入性的。C.空肠属于许多宿主的肠道微生物群，这种细菌的感染有时可以追溯到接触特定来源。在这里，我们对200个临床分离株（2010-2016年）进行了基因组测序，并将其与来自人类感染，鸡，反刍动物和环境的701个分离株基因组进行了分析，以检查法国不同宿主对非侵入性和侵入性感染的相对贡献。寄主分离的遗传标记，可以区分C。空肠来源的菌株与STRUCTURE软件一起用于概率性地归属临床菌株的来源。一个自我归因校正步骤，根据每个潜在的水库内的源分配的准确性，提高临床菌株的归因准确性，并建议反刍动物水库在非侵入性感染和潜在的增加鸡作为侵入性分离株的来源的贡献的重要作用。弯曲杆菌在诊所和潜在的水库结构化采样提供的证据，随着时间的推移，在法国的非家禽水库的重要作用，不同的感染源的贡献变化。这为正在进行的基因组流行病学监测和有针对性的干预措施提供了基础。
Campylobacter jejuni is the most common cause of bacterial gastroenteritis worldwide. Mainly isolated from stool samples, C. jejuni can also become invasive. C. jejuni belongs to the commensal microbiota of a number of hosts, and infection by this bacterium can sometimes be traced back to exposure to a specific source. Here we genome sequenced 200 clinical isolates (2010-2016) and analyzed them with 701 isolate genomes from human infection, chicken, ruminants and the environment to examine the relative contribution of different reservoirs to non-invasive and invasive infection in France. Host-segregating genetic markers that can discriminate C. jejuni source were used with STRUCTURE software to probabilistically attribute the source of clinical strains. A self-attribution correction step, based upon the accuracy of source apportionment within each potential reservoir, improved attribution accuracy of clinical strains and suggested an important role for ruminant reservoirs in non-invasive infection and a potentially increased contribution of chicken as a source of invasive isolates. Structured sampling of Campylobacter in the clinic and from potential reservoirs provided evidence for variation in the contribution of different infection sources over time and an important role for non-poultry reservoirs in France. This provides a basis for ongoing genomic epidemiology surveillance and targeted interventions.