产金属β-内酰胺酶（bla）肺炎克雷伯菌 ST1916 菌株的全基因组序列草案，该菌从一名慢性腹泻患者中分离得到。
Draft genome sequence of a metallo-β-lactamase (bla)-producing Klebsiella pneumoniae ST1916 isolated from a patient with chronic diarrhoea.
机构信息
Marshall B.J. Medical Research Center, The Fifth Affiliated Hospital of Zhengzhou University, No. 3 Kangfu Front Street, Zhengzhou, He'nan 450052, China; Laboratory of Microbiology and Immunology, Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, No. 40 North Daxue Road, Zhengzhou, He'nan 450052, China.
Laboratory of Microbiology and Immunology, Institute of Medical and Pharmaceutical Sciences, Zhengzhou University, No. 40 North Daxue Road, Zhengzhou, He'nan 450052, China.
出版信息
J Glob Antimicrob Resist. 2019 Mar;16:165-167. doi: 10.1016/j.jgar.2019.01.010. Epub 2019 Jan 15.
OBJECTIVES
Klebsiella pneumoniae colonisation of the human gastrointestinal tract is a significant risk factor for extraintestinal infections in severely ill patients. Recent reports have indicated the high rate of K. pneumoniae infection resulting from the patient's own gut microbiota. Here we report the draft genome sequence of a multidrug-resistant (MDR) K. pneumoniae strain (SM32) harbouring the bla gene isolated from a patient with chronic diarrhoea in China.
METHODS
Whole genomic DNA was sequenced using an Illumina MiSeq platform. The generated reads were de novo assembled using SOAPdenovo v.2.04. All probable coding sequences were predicted by Glimmer v.3.02 and were annotated using information from GenBank, Pfam, Nr, COG, String, GO and KEGG. Resistance-related genes were also further identified.
RESULTS
The draft genome of K. pneumoniae SM32, belonging to sequence type (ST) 1916, was assembled into 165 contigs comprising 5238542bp. A total of 5013 protein-coding sequences and several genes associated with resistance to β-lactams, tetracycline, aminoglycosides, fluoroquinolones and trimethoprim/sulfamethoxazole were preliminarily identified.
CONCLUSIONS
MDR K. pneumoniae colonising the human gastrointestinal tract provides a potential reservoir for extraintestinal infections. The genome sequence of K. pneumoniae SM32 will be helpful to reveal the key role of mobile genetic elements in the adaptive translocation and spread of antimicrobial resistance.
目的
肺炎克雷伯菌定植于人类胃肠道是重症患者发生肠外感染的重要危险因素。最近的报告表明，患者自身肠道微生物群可导致高比例的肺炎克雷伯菌感染。本研究报告了一株从中国慢性腹泻患者中分离的携带 bla 基因的多重耐药（MDR）肺炎克雷伯菌（SM32）的基因组序列草图。
方法
使用 Illumina MiSeq 平台对全基因组 DNA 进行测序。使用 SOAPdenovo v.2.04 对生成的读取进行从头组装。通过 Glimmer v.3.02 预测所有可能的编码序列，并利用 GenBank、Pfam、Nr、COG、String、GO 和 KEGG 中的信息进行注释。还进一步鉴定了与耐药性相关的基因。
结果
肺炎克雷伯菌 SM32 的草图基因组属于序列型（ST）1916，组装成 165 个包含 5238542bp 的连续体。共鉴定出 5013 个编码蛋白的序列和几个与β-内酰胺类、四环素类、氨基糖苷类、氟喹诺酮类和甲氧苄啶/磺胺甲恶唑耐药相关的基因。
结论
定植于人类胃肠道的 MDR 肺炎克雷伯菌为肠外感染提供了一个潜在的储库。肺炎克雷伯菌 SM32 的基因组序列将有助于揭示移动遗传元件在适应性转移和抗生素耐药性传播中的关键作用。
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