多中心比较基因组学研究表明，产酸克雷伯菌复合体中存在一种高度耐药的肺炎克雷伯菌亚种。

Multicenter comparative genomic study of Klebsiella oxytoca complex reveals a highly antibiotic-resistant subspecies of Klebsiellamichiganensis.

机构信息

Department of Clinical Laboratory, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, 100730, China; Beijing Key Laboratory for Mechanisms Research and Precision Diagnosis of Invasive Fungal Diseases, Beijing, 100730, China; Graduate School, Peking Union Medical College, Chinese Academy of Medical Science, Beijing, 100730, China.

Department of Clinical Laboratory, Peking Union Medical College Hospital, Peking Union Medical College, Chinese Academy of Medical Sciences, Beijing, 100730, China.

出版信息

J Microbiol Immunol Infect. 2024 Feb;57(1):138-147. doi: 10.1016/j.jmii.2023.10.014. Epub 2023 Nov 3.

DOI:10.1016/j.jmii.2023.10.014

PMID:37953085

Abstract

BACKGROUND

The Klebsiella oxytoca complex is an opportunistic pathogen that has been recently identified as an actual complex. However, the characteristics of each species remain largely unknown. We aimed to study the clinical prevalence, antimicrobial profiles, genetic differences, and interaction with the host of each species of this complex.

METHODS

One hundred and three clinical isolates of the K. oxytoca complex were collected from 33 hospitals belonging to 19 areas in China from 2020 to 2021. Species were identified using whole genome sequencing based on average nucleotide identity. Clinical infection characteristics of the species were analyzed. Comparative genomics and pan-genome analyses were performed on these isolates and an augmented dataset, including 622 assemblies from the National Center for Biotechnology Information. In vitro assays evaluating the adhesion ability of human respiratory epithelial cells and survivability against macrophages were performed on randomly selected isolates.

RESULTS

Klebsiella michiganensis (46.6%, 48/103) and K. oxytoca (35.92%, 37/103) were the major species of the complex causing human infections. K. michiganensis had a higher genomic diversity and larger pan-genome size than did K. oxytoca. K. michiganensis isolates with bla had a higher resistance rate to various antibiotics, antimicrobial gene carriage rate, adhesion ability to human respiratory epithelial cells, and survival rate against macrophages than isolates of other species.

CONCLUSION

Our study revealed the genetic diversity of K. michiganensis and firstly identified the highly antimicrobial-resistant profile of K. michiganensis carrying bla.

摘要

背景

产酸克雷伯菌复合体是一种机会致病菌，最近被确认为一个实际的复合体。然而，每个物种的特征在很大程度上仍然未知。我们旨在研究该复合体中每个物种的临床流行率、抗菌谱、遗传差异以及与宿主的相互作用。

方法

我们从 2020 年至 2021 年期间，从中国 19 个地区的 33 家医院收集了 103 株产酸克雷伯菌复合体的临床分离株。通过基于平均核苷酸同一性的全基因组测序来鉴定物种。分析了这些物种的临床感染特征。对这些分离株和一个扩增数据集（包括来自国家生物技术信息中心的 622 个组装）进行了比较基因组学和泛基因组分析。对随机选择的分离株进行了体外评估黏附能力的人呼吸道上皮细胞和存活能力的巨噬细胞的实验。

结果

产酸克雷伯菌（46.6%，48/103）和产酸克雷伯菌（35.92%，37/103）是导致人类感染的该复合体的主要物种。与产酸克雷伯菌相比，产酸克雷伯菌的基因组多样性更高，泛基因组更大。携带 bla 的产酸克雷伯菌分离株对各种抗生素的耐药率、抗菌基因携带率、黏附人呼吸道上皮细胞的能力以及对巨噬细胞的存活率均高于其他物种的分离株。