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基因组特征分析揭示了广泛流行克隆 ST395 的特定特征。

Genomic characterization of a local epidemic reveals specific features of the widespread clone ST395.

机构信息

1​Hygiène Hospitalière, Centre Hospitalier Régional Universitaire de Besançon, Besançon, France.

2​UMR CNRS 6249 Chrono-Environnement, Université de Bourgogne Franche-Comté, Besançon, France.

出版信息

Microb Genom. 2017 Jun 8;3(10):e000129. doi: 10.1099/mgen.0.000129. eCollection 2017 Oct.

Abstract

is a ubiquitous opportunistic pathogen with several clones being frequently associated with outbreaks in hospital settings. ST395 is among these so-called 'international' clones. We aimed here to define the biological features that could have helped the implantation and spread of the clone ST395 in hospital settings. The complete genome of a multidrug resistant index isolate (DHS01) of a large hospital outbreak was analysed. We identified DHS01-specific genetic elements, among which were identified those shared with a panel of six independent ST395 isolates responsible for outbreaks in other hospitals. DHS01 has the fifth largest chromosome of the species (7.1 Mbp), with most of its 1555 accessory genes borne by either genomic islands (GIs, =48) or integrative and conjugative elements (ICEs, =5). DHS01 is multidrug resistant mostly due to chromosomal mutations. It displayed signatures of adaptation to chronic infection in part due to the loss of a 131 kbp chromosomal fragment. Four GIs were specific to the clone ST395 and contained genes involved in metabolism (GI-4), in virulence (GI-6) and in resistance to copper (GI-7). GI-7 harboured an array of six copper transporters and was shared with non-pathogenic sp. retrieved from copper-contaminated environments. Copper resistance was confirmed phenotypically in all other ST395 isolates and possibly accounted for the spreading capability of the clone in hospital outbreaks, where water networks have been incriminated. This suggests that genes transferred from copper-polluted environments may have favoured the implantation and spread of the international clone ST395 in hospital settings.

摘要

是一种普遍存在的机会性病原体,有几个克隆株经常与医院环境中的暴发有关。ST395 就是这些所谓的“国际”克隆株之一。我们旨在确定有助于克隆株 ST395 在医院环境中定植和传播的生物学特征。对来自一家大医院暴发的多药耐药指数分离株(DHS01)的完整基因组进行了分析。我们鉴定了 DHS01 特异性遗传元件,其中包括与负责其他医院暴发的六株独立 ST395 分离株共享的元件。DHS01 具有该物种第五大染色体(7.1 Mbp),其 1555 个辅助基因中的大多数由基因组岛(GIs,=48)或整合和共轭元件(ICEs,=5)携带。DHS01 主要由于染色体突变而具有多药耐药性。它显示出适应慢性感染的特征,部分原因是丢失了 131 kbp 染色体片段。四个 GIs 是克隆株 ST395 所特有的,包含参与代谢(GI-4)、毒力(GI-6)和铜抗性(GI-7)的基因。GI-7 携带六个铜转运蛋白的阵列,与从铜污染环境中回收的非致病性 sp. 共享。在所有其他 ST395 分离株中均通过表型证实了铜抗性,这可能是该克隆在医院暴发中传播能力的原因,在这些暴发中,水网络受到了指责。这表明,从铜污染环境中转移的基因可能有助于国际克隆株 ST395 在医院环境中的定植和传播。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/4c19/5695207/fe888fdf973a/mgen-3-129-g001.jpg

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