Sivarajan Vidhyalakshmi, Ganesh Amirtha Varshini, Subramani Pavithra, Ganesapandi Priyanka, Sivanandan R N, Prakash Sneha, Manikandan Nithyasri, Dharmarajan Arunasalam, Arfuso Frank, Warrier Sudha, Raj Marquess, Perumal Kumar
Department of Biotechnology, Faculty of Biomedical Sciences and Technology, Sri Ramachandra Institute of Higher Education and Research (SRIHER), Porur, Chennai, India.
Division of Infectious Disease, St. John's Research Institute, Bangalore, Karnataka, India.
Sci Rep. 2025 Jan 20;15(1):2541. doi: 10.1038/s41598-024-84754-w.
Urinary tract infections are a common condition affecting people globally, with multidrug-resistant (MDR) Escherichia coli (E. coli) being a major causative agent. Antimicrobial susceptibility profiling was performed using the VITEK 2 automated system for 1254 E. coli isolates, revealing that 831(66.2%) isolates were determined as MDR E. coli. A significant resistance pattern was observed for nalidixic acid (86.04%), ampicillin (74.16%), ticarcillin (70.73%), cefalotin (65.23%), cefixime (62.68%), ciprofloxacin (55.18%), ceftriaxone (53.75%), amoxicillin-clavulanic acid (22.81%), ertapenem (7.18%), and fosfomycin (2.23%). Whole Genome Sequencing of Carbapenem-resistant E. coli (CREC)-CREC 3 (ST405), CREC 4 (ST448), and CREC 5 (ST167) was performed to determine genomic characteristics. CREC 3, CREC 4, and CREC 5 belong to the phylogroup D, B1, and A, respectively. The NDM-5 gene was common in all three isolates, with CTX-M-15 being present in CREC 3 and CREC 4. Virulence factors of CREC 3 (fliC, shuA), CREC 4 (spaS), CREC 5 (iucA, papH, papG, iucB, yigF), and plasmids (IncFIA, IncFIB) were identified to be significant. The use of pangenome analysis enhances our understanding of resistance traits of isolates ST167, ST405, and ST448, offering valuable insights into comparative genomics of uropathogenic MDR E. coli.
尿路感染是一种影响全球人群的常见疾病，多重耐药（MDR）大肠杆菌（E. coli）是主要病原体。使用VITEK 2自动化系统对1254株大肠杆菌分离株进行了药敏分析，结果显示831株（66.2%）分离株被确定为多重耐药大肠杆菌。观察到对萘啶酸（86.04%）、氨苄西林（74.16%）、替卡西林（70.73%）、头孢噻吩（65.23%）、头孢克肟（62.68%）、环丙沙星（55.18%）、头孢曲松（53.75%）、阿莫西林-克拉维酸（22.81%）、厄他培南（7.18%）和磷霉素（2.23%）存在显著的耐药模式。对耐碳青霉烯类大肠杆菌（CREC）——CREC 3（ST405）、CREC 4（ST448）和CREC 5（ST167）进行了全基因组测序，以确定其基因组特征。CREC 3、CREC 4和CREC 5分别属于D、B1和A系统发育群。NDM-5基因在所有三株分离株中都很常见，CTX-M-15存在于CREC 3和CREC 4中。已确定CREC 3（fliC、shuA）、CREC 4（spaS）、CREC 5（iucA、papH、papG iucB、yigF）的毒力因子以及质粒（IncFIA、IncFIB）具有重要意义。泛基因组分析的应用增进了我们对ST167、ST405和ST448分离株耐药特性的理解，为尿路致病性多重耐药大肠杆菌的比较基因组学提供了有价值的见解。
