1株鸡源奇异变形杆菌的全基因组测序及生物信息学分析

doi:10.16431/j.cnki.1671-7236.2025.03.001

摘要/Abstract

摘要： 【目的】奇异变形杆菌是常见的人兽共患病原菌，广泛存在于自然环境中，其耐药性不断增强对公众卫生安全带来压力，引起广泛关注。试验旨在了解鸡源性奇异变形杆菌NXQI.22的基因组学信息、毒力因子和耐药基因特点，为进一步探索药物对多重耐药奇异变形杆菌的作用机制提供生物信息基础。【方法】采用第三代高通量Nanopore平台，进行分离株NXQI.22的全基因组测序和生物信息学分析，获取其基因组基本特征及其耐药性。【结果】奇异变形杆菌分离株NXQI.22基因组包括1条环状染色体，大小为3 862 364 bp,GC含量为38.83%，共预测到3 551个编码基因；预测到6个前噬菌体，2个CRISPR序列，且存在典型的T3SS和T6SS分泌系统；含有15个基因岛，存在磺胺类、消毒剂类抗性基因及多个与沙门菌的分泌系统、效应蛋白相关的毒力因子。注释结果显示，分菌株NXQI.22携带362个毒力基因，参与铁摄取、细胞黏附、蛋白质水解、抗生素耐药性及生物膜的形成等功能。包含喹诺酮类、氨基糖苷类、四环素类、β-内酰胺类、季铵盐类消毒剂等多种耐药基因，通过抗生素外排、使抗生素失活、改变或替代抗生素靶点等途径使菌株产生耐药性，多个耐药基因显示为多重耐药表型。奇异变形杆菌NXQI.22中多个毒力因子和耐药基因与可遗传移动元件相关联。【结论】鸡源性奇异变形杆菌NXQI.22基因组中携带大量毒力基因及耐药基因。

关键词: 奇异变形杆菌; 全基因组测序; 毒力基因; 耐药基因

Abstract: 【Objective】 Proteus mirabilis (P. mirabilis),a prevalent zoonotic pathogen,was commonly found in the natural environment.The escalating resistance of P. mirabilis posed a significant threat to public health and safety,prompting widespread concern.This study was aimed to analyze the genomic data,virulence factors,and drug resistance gene profiles of P. mirabilis NXQI.22 isolated from chickens,and provide a bioinformatic basis for further investigation of the mechanism of action of the drug against multidrug-resistant P.mirabilis.【Method】 Employing the third-generation Nanopore platform,whole genome sequencing and bioinformatics analysis were conducted on P. mirabilis NXQI.22 to elucidate its genomic features and drug resistance mechanisms.【Result】 The genomic analysis revealed that P. mirabilis NXQI.22 harbored a circular chromosome measuring 3 862 364 bp with a GC content of 38.83%.A total of 3 551 coding genes were predicted in P.mirabilis NXQI.22.Six prophages and two CRISPR sequences were identified in P. mirabilis NXQI.22,along with the presence of typical T3SS and T6SS secretion system proteins.This strain also harbored 15 gene islands,genes conferring resistance to sulfonamides and disinfectants,as well as various virulence genes associated with the secretion system and effector proteins found in Salmonella.The annotation results showed that the isolated strains harbored a total of 362 virulence genes associated with functions such as iron uptake,cellular adhesion,proteolysis,resistance to antibiotics,and the formation of biofilms.It contained a diverse array of genes associated with resistance to various drugs,including quinolones,aminoglycosides,tetracyclines,β-lactams,and quaternary ammonium compound.Resistance mechanisms employed by these strains encompassed antibiotic efflux,antibiotic inactivation,antibiotic target alteration and replacement,and multiple drug resistance genes showed multiple drug resistance phenotypes.Multiple virulence genes and drug resistance genes in P. mirabilis NXQI.22 were associated with mobile genetic elements.【Conclusion】 P. mirabilis NXQI.22 from chicken harbored a significant number of virulence genes and drug resistance genes.

Key words: Proteus mirabilis; whole genome sequencing; virulence genes; drug resistance genes

中图分类号:

S852.61

茹梦珂, 李穗湘, 吴雪琴, 严钰璋, 王璐, 程海鹏. 1株鸡源奇异变形杆菌的全基因组测序及生物信息学分析[J]. 中国畜牧兽医, 2025, 52(3): 977-989.

RU Mengke, LI Suixiang, WU Xueqin, YAN Yuzhang, WANG Lu, CHENG Haipeng. Whole Genome Sequencing and Bioinformatics Analysis of a Strain of Proteus mirabilis Isolated from Chicken[J]. China Animal Husbandry and Veterinary Medicine, 2025, 52(3): 977-989.

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