致病性大肠杆菌携带原噬菌体的预测及耐药性与毒力研究

doi:10.16431/j.cnki.1671-7236.2022.03.035

Abstract

Abstract: 【Objective】 This study was aimed to study the proportion of prophages carried by Escherichia coli (E.coli) and the virulence genes as well as drug resistance genes carried by prophages, understand the effect of prophages in pathogenic E.coli on drug resistance and virulence of strains, ensure the biosafety of phage-producing bacteria, and provide a reference for the basic research and application of E.coli phages.【Method】 In this study, the whole genome information of E.coli was downloaded from NCBI, the number of prophages carried in E.coli through the online website was predicted, the genomic characteristics such as GC content, genome size, and proportion of bacterial genome of prophages and the type of intact prophages were analyzed, a preliminary classification of prophages was made, and the intact prophages carrying drug resistance genes, the number of drug resistance genes, drug resistance phenotypes, drug resistance mechanisms and virulence genes, and the distribution of virulence gene families were also statistically analyzed.【Result】 112 strains of E.coli carried 1 024 intact prophages, 287 questionable prophages, and 505 incomplete prophages.Most of the 1 024 intact prophages were similar to long tailed phages, accounting for 70.21% (719/1 024).There were 63 phage types in 1 024 complete type prophages, among which the phage BP4795 (accession No.:NC_004813.1) type accounted for the highest proportion, reaching 19.24%(197/1 024), followed by the phage DE3(accession No.:NC_042057.1), accounting for 11.72%(120/1 024).The GC content of E.coli carrying prophage was 38%-57%, E.coli prophage genomes vary in size was 3.1-152.6 kb, prophages within 80 kb accounted for 97.03%(1 762/1 816).65 of 1 024 complete prophages carried resistance genes, and a total of 253 carried resistance genes, which were from 11 antibiotic resistance gene families, respectively, and the complete prophage resistance gene carriage rate was 6.35%;Out of 1 024 prophages, 438 of the prophages carrying one or more virulence genes, with a high carriage rate of 42.78%, carried a total of 1 274 virulence genes, and on average each complete type prophage carried 2.9 virulence genes, from 9 different virulence factor families, respectively.【Conclusion】 E.coli usually carried prophages, and parts of the prophages carried drug resistance genes and virulence genes.The risk should be fully evaluated in practical application, attention should be paid to prevent the transfer of drug resistance genes and virulence genes caused by prophages between the strains.

Key words: Escherichia coli; prophage; resistance gene; virulence gene

CLC Number:

Q939.48

ZHU Xihui, PANG Zheyu, WANG Zhiwei, PEI Lanying, CAO Shengliang, XUE Xijuan, LI Yubao. Prediction of Prophage Carrying by Pathogenic Escherichia coli and Its Drug Resistance and Virulence[J]. China Animal Husbandry and Veterinary Medicine, 2022, 49(3): 1126-1134.

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Prediction of Prophage Carrying by Pathogenic Escherichia coli and Its Drug Resistance and Virulence

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