Genomic Characterization of a Uropathogenic Escherichia coli ST405 Isolate Harboring blaCTX-M-15-Encoding IncFIA-FIB Plasmid, blaCTX-M-24-Encoding IncI1 Plasmid, and Phage-Like Plasmid

Yao，Mianzhi1; Zhu，Qianhui2,3; Zou，Jin4; Shenkutie，Abebe Mekuria1,5; Hu，Songnian2,3; Qu，Jiuxin4; He，Zilong6,7; Leung，Polly H.M.1

2022-04-11

10.3389/fmicb.2022.845045

Frontiers in Microbiology   影响因子和分区

1664-302X

Escherichia coli sequence type 405 is an emerging antibiotic-resistant clonal group associated with the global dissemination of extended-spectrum β-lactamase-producing E. coli. In this study, we report the genome assembly and characterization of a uropathogenic E. coli ST405 strain, SZESBLEC201, based on long and short reads obtained from the Nanopore and Illumina sequencing platforms, respectively. Whole-genome sequencing revealed that SZESBLEC201 harbors a 5,020,403 bp chromosome and three plasmids, namely, pSZESBLEC201-1, pSZESBLEC201-2, and pSZESBLEC201-3. pSZESBLEC201-1 (111,621 bp) belongs to the IncFIA-FIB type and harbors bla. However, this plasmid does not harbor conjugative transfer-associated genes, rendering pSZESBLEC201-1 unable to be conjugatively transferred. pSZESBLEC201-2 (95,138 bp) is a phage-like plasmid that shows a strong genome synteny with Escherichia phage P1 but with the absence of mobile genetic elements and some regulatory genes. pSZESBLEC201-3 (92,865 bp) belongs to the IncI1 type and carries bla. In contrast to pSZESBLEC201-1, pSZESBLEC201-3 retains its full active conjugation machinery and can be transferred via conjugation. The genetic features of the genome show that the SZESBLEC201 has a unique virulence pattern compared with genetically similar strains found in the same country (China). The plasmid backbones exhibit a high degree of similarity to those of geographically distant isolates, highlighting the global spread of bla genes and the genome plasticity of this clonal group. The coexistence of two bla variants in the same strain increases the risk of the emergence of new bla variants. Further studies on phage-like plasmids are necessary to provide insights into their biological activities and clinical significance.

blaCTX-M comparative genomics mobile genetic elements plasmids uropathogenic Escherichia coli

SCI

英语

通讯

Hong Kong Polytechnic University[LRP20-21] ; Science and Technology Program of Shenzhen[JCYJ20190809144005609] ; Guangdong Basic and Applied Basic Research Foundation[2020A1515010586]

Microbiology

Microbiology

WOS:000791593300001

FRONTIERS MEDIA SA

2-s2.0-85128723577

Scopus

1.Department of Health Technology and Informatics,The Hong Kong Polytechnic University,Hung Hom,Hong Kong
2.State Key Laboratory of Microbial Resources,Institute of Microbiology,Chinese Academy of Sciences,Beijing,China
3.College of Life Sciences,University of Chinese Academy of Sciences,Beijing,China
4.Department of Clinical Laboratory,Shenzhen Third People’s Hospital,Second Hospital,Southern University of Science and Technology,National Clinical Research Center for Infectious Diseases,Shenzhen,China
5.Department of Microbiology,Immunology,and Parasitology,St. Paul’s Hospital Millennium Medical College,Addis Ababa,Ethiopia
6.Beijing Advanced Innovation Center for Big Data-Based Precision Medicine,Interdisciplinary Innovation Institute of Medicine and Engineering,Beihang University,Beijing,China
7.School of Engineering Medicine,Beihang University,Beijing,China

Yao，Mianzhi,Zhu，Qianhui,Zou，Jin,et al. Genomic Characterization of a Uropathogenic Escherichia coli ST405 Isolate Harboring blaCTX-M-15-Encoding IncFIA-FIB Plasmid, blaCTX-M-24-Encoding IncI1 Plasmid, and Phage-Like Plasmid[J]. Frontiers in Microbiology,2022,13.

Yao，Mianzhi.,Zhu，Qianhui.,Zou，Jin.,Shenkutie，Abebe Mekuria.,Hu，Songnian.,...&Leung，Polly H.M..(2022).Genomic Characterization of a Uropathogenic Escherichia coli ST405 Isolate Harboring blaCTX-M-15-Encoding IncFIA-FIB Plasmid, blaCTX-M-24-Encoding IncI1 Plasmid, and Phage-Like Plasmid.Frontiers in Microbiology,13.

Yao，Mianzhi,et al."Genomic Characterization of a Uropathogenic Escherichia coli ST405 Isolate Harboring blaCTX-M-15-Encoding IncFIA-FIB Plasmid, blaCTX-M-24-Encoding IncI1 Plasmid, and Phage-Like Plasmid".Frontiers in Microbiology 13(2022).