Genome evolution and the emergence of pathogenicity in avian Escherichia coli.
Genome evolution and the emergence of pathogenicity in avian Escherichia coli.
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基因组进化和致病性的出现在鸟类大肠杆菌中。
DOI：
10.1038/s41467-021-20988-w
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发表时间：
2021-02-03
影响因子：
16.6
通讯作者：
Sheppard SK
中科院分区：
文献类型：
--
作者：
Mageiros L;Méric G;Bayliss SC;Pensar J;Pascoe B;Mourkas E;Calland JK;Yahara K;Murray S;Wilkinson TS;Williams LK;Hitchings MD;Porter J;Kemmett K;Feil EJ;Jolley KA;Williams NJ;Corander J;Sheppard SK
鸡是地球上最常见的鸟类，大肠杆菌病是影响它们的最常见疾病之一。这一对动物福利和安全可持续食品生产的重大威胁难以应对，因为病原体禽致病性大肠杆菌（APEC）来自无处不在的肠道细菌，在所有致病菌株中均不存在单一的毒力基因。在这里，我们解决了家禽肠道外传播和全身感染的潜在进化机制。结合群体规模比较基因组学和泛基因组关联研究，我们比较了E。大肠杆菌的肠道携带和全身感染。我们确定了APEC中富集的特定群体和物种范围的遗传元件，包括具有不同功能的143个基因中的致病性相关变异，包括参与代谢、脂多糖合成、热休克反应、抗菌素耐药性和毒性的基因。我们发现，水平基因转移传播致病性元件，允许不同的克隆引起感染。最后，疾病状态的随机森林模型预测（携带与疾病）以73%的准确率鉴定了新出现的ST-117家禽相关谱系中的致病菌株，证明了在健康鸡群中早期鉴定新出现的APEC的潜力。目前还不清楚E。大肠杆菌经常出现，引起鸡的全身感染。在这里，Mageiros等人使用群体基因组学和泛基因组关联研究来鉴定与禽大肠杆菌致病性相关的遗传元件。杆菌
Chickens are the most common birds on Earth and colibacillosis is among the most common diseases affecting them. This major threat to animal welfare and safe sustainable food production is difficult to combat because the etiological agent, avian pathogenic Escherichia coli (APEC), emerges from ubiquitous commensal gut bacteria, with no single virulence gene present in all disease-causing isolates. Here, we address the underlying evolutionary mechanisms of extraintestinal spread and systemic infection in poultry. Combining population scale comparative genomics and pangenome-wide association studies, we compare E. coli from commensal carriage and systemic infections. We identify phylogroup-specific and species-wide genetic elements that are enriched in APEC, including pathogenicity-associated variation in 143 genes that have diverse functions, including genes involved in metabolism, lipopolysaccharide synthesis, heat shock response, antimicrobial resistance and toxicity. We find that horizontal gene transfer spreads pathogenicity elements, allowing divergent clones to cause infection. Finally, a Random Forest model prediction of disease status (carriage vs. disease) identifies pathogenic strains in the emergent ST-117 poultry-associated lineage with 73% accuracy, demonstrating the potential for early identification of emergent APEC in healthy flocks. It is unclear how gut-dwelling E. coli bacteria often emerge to cause systemic infection in chickens. Here, Mageiros et al. use population genomics and pangenome-wide association studies to identify genetic elements associated with pathogenicity in avian E. coli.
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影响因子：
3.2
作者：
Boyd, EF;Hartl, DL
通讯作者：
Hartl, DL
影响因子：
3.3
作者：
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通讯作者：
Vidotto, MC
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Argimón S;Abudahab K;Goater RJE;Fedosejev A;Bhai J;Glasner C;Feil EJ;Holden MTG;Yeats CA;Grundmann H;Spratt BG;Aanensen DM
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Aanensen DM
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作者：
Bankevich, Anton;Nurk, Sergey;Pevzner, Pavel A.
通讯作者：
Pevzner, Pavel A.
影响因子：
6.4
作者：
Card RM;Cawthraw SA;Nunez-Garcia J;Ellis RJ;Kay G;Pallen MJ;Woodward MJ;Anjum MF
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Anjum MF