一株携带blaSHV-187的ST700型头孢他啶敏感头孢吡肟耐药肺炎克雷伯菌全基因组特征

Whole-genome characteristics of a ST700 Klebsiella pneumoniae straincarrying blaSHV-187 with ceftazidime-susceptible and cefepime-resistantphenotype

  • 摘要: 目的 探究1株头孢他啶敏感、头孢吡肟耐药少见表型肺炎克雷伯菌(KPN-1)的基因组耐药、毒力特征,初步分析其反常药敏的遗传相关因素。方法 菌株KPN-1分离自2023年成都市郫都区人民医院1例高龄合并多种基础疾病患者伤口分泌物,经飞行时间质谱(MALDI-TOF MS)完成菌种鉴定; 使用VITEK 2 Compact开展药敏测定及超广谱β-内酰胺酶(ESBL)初筛,并补充K-B法复核药敏结果; 联合Illumina与PacBio平台实施全基因组精细测序,依次完成多位点序列分型(MLST)、耐药与毒力基因注释、系统发育分析,结合Pathogen.watch数据库统计全球ST700菌株收录信息。结果 该菌株ESBL表型阳性,呈头孢他啶敏感、头孢吡肟耐药,碳青霉烯类、阿米卡星等抗菌药物敏感; 基因组全长5.42 Mb,ST700型; CARD注释114项耐药相关遗传元件,AMRFinderPlus筛选获得包括blaSHV-187在内的13个功能明确耐药基因,OmpK36、acrR等编码区存在突变; 检出159个毒力相关基因,携带rmpAiuc等高毒力标志物且拉丝试验阳性,全球公共数据库仅收录14株ST700菌株,其中我国7株。结论 本研究补充了携带blaSHV-187的ST700型头孢他啶敏感头孢吡肟耐药特殊表型肺炎克雷伯菌基因组数据,预测其菌株耐药机制,可为后续试验、耐药监测及临床抗感染治疗提供参考。

     

    Abstract: OBJECTIVE To explore the genomic resistance and virulence characteristics of 1 strains of Klebsiella pneumoniae (KPN-1) with a rare phenotype of ceftazidime susceptibility and cefepime resistance and preliminarily analyze the genetic factors underlying its unusual antimicrobial susceptibility. METHODS Strain KPN-1 was isolated from wound secretions of an elderly patient with multiple underlying diseases at Pidu District People's Hospital of Chengdu in 2023. The species were identified by matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS). Antimicrobial susceptibility testing and preliminary screening of extended-spectrum β-lactamases (ESBLs) were carried out by using the VITEK 2 Compact system, and the results were further verified via the Kirby-Bauer (K-B) method. Whole-genome high-precision sequencing was conducted on the Illumina and PacBio platforms. Subsequently, multilocus sequence typing (MLST), annotation of resistance and virulence genes, and phylogenetic analysis were completed. Data of ST700 strains around the globe were retrieved and analyzed based on the Pathogen. watch database. RESULTS The strain was positive for phenotype of ESBL. It was susceptible to ceftazidime, carbapenems and amikacin, but it was resistant to cefepime. Its complete genome was 5.42 Mb in length and assigned to ST700. A total of 114 resistance-related genetic elements were annotated by using the CARD database, and 13 functionally characterized resistance genes including blaSHV-187 were identified via AMRFinderPlus. Mutations were detected in coding regions such as OmpK36 and acrR. Totally 159 virulence-associated genes were found, and the strain harbored hypervirulence markers such as rmpA and iuc, with the string test positive. Only 14 ST700 strains have been included in global public databases, 7 of which were isolated in China. CONCLUSIONS The study supplements the genomic data of the K. pneumoniae ST700 strain carrying blaSHV-187 with a ceftazidime-susceptible and cefepime-resistant phenotype. The prediction of drug resistance mechanisms of the strain may provide references for subsequent experiments, antimicrobial resistance surveillance and clinical anti-infection treatment.

     

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