National Reference Laboratory of Veterinary Drug Residues /MOA Laboratory for Risk Assessment of Quality and Safety of Livestock and Poultry Products, Huazhong Agricultural University, Wuhan, 430070, China; Department of Pathology, Cholistan University of Veterinary & Animal Sciences, Bahawalpur, 63100, Pakistan.
Department of Pharmacology, International Cancer Center, Shenzhen University Health Science Center, Shenzhen, 518055, China.
Microb Pathog. 2022 Feb;163:105389. doi: 10.1016/j.micpath.2022.105389. Epub 2022 Jan 5.
Emergence of multidrug resistance in E. coli and advent of newer strains is becoming serious concern which requires keen observations. This study was designed to find the ciprofloxacin resistant E. coli isolates co-existed with multi-drug resistance along with β-lactamase production from poultry source, and finally the genome sequencing of these strains to explore genetic variations. Study constituted on isolation of n = 225 E. coli from broiler farms of central China which were further subjected to identification of resistance against ciprofloxacin followed by antibiogram of n = 26 antibiotics and identification of β-lactamase production. Whole genome resequencing was performed using Illumina HiSeq 4000 system. PCR results revealed predominant β-lactamase genes i.e.CTX-M, CTX-M-1, CTX-M3, TEM-1 and OXA. Furthermore, the MDR isolates were containing most of the tested virulence genes. The most prevalent virulence genes were pap-C, fim-C, fim-H, iuc-D, irp-2, tra-T, iro-N and iut-A. The single nucleotide polymorphisms (SNPs) loci mentioned in this data give valuable genetic markers to growing high-throughput techniques for fine-determination of genotyping of MDR and virulent isolates. Characterization of SNPs on functional basis shed new bits of knowledge on the evolution, disease transmission and pathogenesis of MDR E. coli isolates. In conclusion, these findings provide evidence that most of poultry E. coli are MDR, β-lactamase producers, and virulent which could be a zoonotic threat to the humans. The whole genome resequencing data provide higher resolution of resistance and virulence characteristics in E. coli which can further be used for the development of prevention and treatment strategies.
大肠杆菌中多药耐药性的出现和新型菌株的出现令人严重关切，这需要敏锐的观察。本研究旨在从禽类来源中寻找同时存在氟喹诺酮耐药和多药耐药以及产β-内酰胺酶的大肠杆菌分离株，并对这些菌株进行基因组测序以探索遗传变异。该研究共分离了来自中国中部肉鸡养殖场的 225 株大肠杆菌，进一步对抗氟喹诺酮的耐药性进行鉴定，然后对 26 种抗生素进行药敏试验和产β-内酰胺酶的鉴定。使用 Illumina HiSeq 4000 系统进行全基因组重测序。PCR 结果显示主要的β-内酰胺酶基因，如 CTX-M、CTX-M-1、CTX-M3、TEM-1 和 OXA。此外，MDR 分离株含有大多数测试的毒力基因。最常见的毒力基因是 pap-C、fim-C、fim-H、iuc-D、irp-2、tra-T、iro-N 和 iut-A。本数据中提到的单核苷酸多态性（SNP）位点为高通量技术提供了有价值的遗传标记，用于精细确定 MDR 和毒力分离株的基因分型。基于功能的 SNP 特征描述为 MDR 大肠杆菌分离株的进化、疾病传播和发病机制提供了新的认识。总之，这些发现表明，大多数禽类大肠杆菌都是多药耐药、产β-内酰胺酶和毒力的，这可能对人类构成动物传染病的威胁。全基因组重测序数据提供了大肠杆菌耐药性和毒力特征的更高分辨率，可进一步用于制定预防和治疗策略。
