基于高通量测序的多重耐药大肠埃希菌HX43耐药分子机制分析

doi:10.3969/j.issn.1000-8535.2017.03.002

广州医药 ›› 2017, Vol. 48 ›› Issue (3): 7-11.DOI: 10.3969/j.issn.1000-8535.2017.03.002

基于高通量测序的多重耐药大肠埃希菌HX43耐药分子机制分析

陈定强, 杨羚

广州医科大学附属第一医院检验科(广州 510120)

收稿日期:2017-01-25 发布日期:2021-12-01
通讯作者: 杨羚,E-mail:jykresearch@126.com
基金资助:
国家自然科学基金资助项目(81201341);广州市医药卫生科技资助项目(20161A011064)

Analysis of the molecular resistance mechanism for Escherichia coli HX43 by high-throughput sequencing

CHEN Dingqiang, YANG Ling

Department of Laboratory Medicine, First Affiliated Hospital of Guangzhou Medical University, Guangzhou510120,China

Received:2017-01-25 Published:2021-12-01

摘要/Abstract

摘要： 目的通过高通量测序法对多重耐药大肠埃希菌HX43进行耐药分子机制的研究。方法用Illumina Miseq平台对HX43进行高通量测序,用Edena、RAST、ResFinder、MLST和BLAST等生物信息学工具或数据库进行数据分析,获得耐药基因相关序列数据。结果 HX43对多种临床常用抗生素均不敏感,仅对碳氢霉烯类药物敏感。对高通量测序数据的分析研究发现,该菌存在多种耐药基因,包括β-内酰胺类耐药基因3个(bla_CMY-42、bla_CTX-M-14和bla_OXA-30),氨基糖苷类耐药基因5个(aac(3)-IIa、aadA5、 strA、 strB和aac(6′)-Ib-cr),喹诺酮类耐药基因1个(aac(6′)-Ib-cr),磺胺及甲氧苄啶类耐药基因3个(sul1、sul2和dfrA17),四环素耐药基因1个(tet(B)),氯霉素耐药基因2个(catB3和cmlA1),大环内酯类耐药基因2个(erm(B)和mph(A))。对包含bla_CMY-42的contigs进行分析,发现该基因与ISEcp1插入序列、blc和sugE等基因相关联。质粒分型发现HX43携带5种不相容群的质粒。多位点序列分型(MLST)分析发现HX43属于ST3835,为国内外较少见的序列型。结论高通量测序技术可准确获得临床菌株抗生素耐药的相关基因信息,为临床抗菌治疗提供重要的实验室数据支持。

关键词: 大肠埃希菌, 抗生素耐药, 高通量测序, 耐药机制

Abstract: Objective To investigate the molecular resistance mechanism of Escherichia coli HX43 by high-throughput sequencing. Methods HX43 was sequenced by the Illumina Miseq platform, and sequencing data were analyzed by the Edena, RAST, ResFinder, MLST and BLAST softwares and databases. Results HX43 was resistant to most common clinical antibiotics except carbapenems. Analysis of data revealed resistance genes to β-lactams (bla_CMY-42, bla_CTX-M-14 and bla_OXA-30), aminoglycosides (aac(3)-IIa, aadA5, strA, strB and aac(6′)-Ib-cr), quinolones (aac(6′)-Ib-cr), trimethoprim/sulfonamides(sul1, sul2 and dfrA17), tetracyclines (tet(B)), chloramphenicol (catB3 and cmlA1), macrolides(erm(B) and mph(A)). Sequence analysis of the contig containing bla_CMY-42 identified correlations of the gene with ISEcp1 insertion sequences, blc and sugE genes. Plasmid typing identified 5 plasmid incompatibility groups in HX43. MLST analysis found that HX43 belonged to ST3835, a relatively rare sequence type in the world. Conclusion Information of resistance genes can be obtained by high-throughput sequencing, which provides important experimental data for clinical antimicrobial treatment.

Key words: Escherichia coli, Antibiotic resistance, High-throughput sequencing, Resistance mechanism

陈定强, 杨羚. 基于高通量测序的多重耐药大肠埃希菌HX43耐药分子机制分析[J]. 广州医药, 2017, 48(3): 7-11.

CHEN Dingqiang, YANG Ling. Analysis of the molecular resistance mechanism for Escherichia coli HX43 by high-throughput sequencing[J]. Guangzhou Medical Journal, 2017, 48(3): 7-11.

参考文献

[1] WOODFORD N, TURTON J F, LIVERMORE D M. Multiresistant Gram-negative bacteria: the role of high-risk clones in the dissemination of antibiotic resistance[J]. FEMS Microbiol Rev, 2011,35(5):736-755.
[2] 卓树洪,叶晓光. 尿路感染中大肠埃希菌的流行趋势及耐药分析[J]. 广东医学, 2015, 36(24):3815-3818.
[3] HALL N. Advanced sequencing technologies and their wider impact in microbiology[J]. J Exp Biol, 2007,210(9):1518-1525.
[4] HERNANDEZ D, FRANCOIS P, FARINELLI L, et al. De novo bacterial genome sequencing: millions of very short reads assembled on a desktop computer[J]. Genome Res, 2008,18(5):802-809.
[5] AZIZ R K, BARTELS D, BEST A A, et al. The RAST server: rapid annotations using subsystems technology[J]. BMC Genomics, 2008(9):75.
[6] ZANKARI E, HASMAN H, COSENTINO S, et al. Identification of acquired antimicrobial resistance genes[J]. J Antimicrob Chemother, 2012,67(11):2640-2644.
[7] ZANKARI E, HASMAN H, KAAS R S, et al. Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing[J]. J Antimicrob Chemother, 2013,68(4):771-777.
[8] HENTSCHKE M, KOTSAKIS S D, WOLTERS M, et al. CMY-42, a novel plasmid-mediated CMY-2 variant AmpC beta-lactamase[J]. Microb Drug Resist, 2011,17(2):165-169.
[9] ZHANG X, LOU D, XU Y, et al. First identification of coexistence of blaNDM-1 and blaCMY-42 among Escherichia coli ST167 clinical isolates[J]. BMC Microbiol, 2013(13):282.
[10] CARATTOLI A. Resistance plasmid families in Enterobacteriaceae[J]. Antimicrob Agents Chemother, 2009,53(6):2227-2238.
[11] CARATTOLI A, BERTINI A, VILLA L, et al. Identification of plasmids by PCR-based replicon typing[J]. J Microbiol Methods, 2005,63(3):219-228.
[12] FENG Y, YANG P, XIE Y, et al. Escherichia coli of sequence type 3835 carrying blaNDM-1, blaCTX-M-15, blaCMY-42 and blaSHV-12[J]. Sci Rep, 2015(5):12275.

基于高通量测序的多重耐药大肠埃希菌HX43耐药分子机制分析

Analysis of the molecular resistance mechanism for Escherichia coli HX43 by high-throughput sequencing

PDF

可视化

摘要/Abstract

引用本文

使用本文

参考文献

相关文章 1

编辑推荐

Metrics

本文评价