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vB_EcoM-P896 coliphage isolated from duck sewage can lyse both intestinal pathogenic Escherichia coli and extraintestinal pathogenic E. coli

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Abstract

Pathogenic Escherichia coli strains cause diseases in both humans and animals. The limiting factors to prevent as well as control infections from pathogenic E. coli strains are their pathotypes, serotypes, and drug resistance. Herein, a bacteriophage (vB_EcoM-P896) has been isolated from duck sewage. Furthermore, aside from targeting intestinal pathogenic E. coli strains like enteropathogenic E. coli, Shiga toxin-producing E. coli, entero-invasive E. coli, and enteroaggregative E. coli, vB_EcoM-P896 can cause lysis in extraintestinal pathogenic E. coli strains such as avian pathogenic E. coli. Stability analysis revealed that vB_EcoM-P896 was stable under the following conditions: temperature, 4℃–50℃; pH, 3–11. The sequencing of the vB_EcoM-P896 genome was conducted utilizing an HiSeq system (Illumina, San Diego, CA) and subjected to de novo assembling with the aid of Spades 3.11.1. The characteristics of the DNA genome were as follows: size, 170,656 bp; GC content, 40.4%; the number of putative coding regions, 294. Transmission electron microscopy analysis of morphology and genome analysis revealed that the phage vB_EcoM-P896 belonged to the order Caudovirales and the family Myoviridae. The pan-genome analysis of vB_EcoM-P896 was divided into two levels. The first level involved the analysis of 91 strains of muscle tail phages, which were mainly divided into 5 groups. The second level involved the analysis of 24 strains of myophage with high homology. Of the 1480 gene clusters, 23 were shared core genes. Neighbor-joining phylogenetic trees were constructed using the Poisson model with MEGA6.0 based on the conserved sequences of phage proteins, the amino acid sequence of the terminase large subunit, and tail fibrin. Further analysis revealed that vB_EcoM-P896 was a typical T4-like potent phage with potential clinical applications.

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Data availability

No datasets were generated or analysed during the current study.

Abbreviations

APEC :

Avian pathogenic Escherichia coli

CDS :

Coding regions

CFU :

Colony forming units

DAEC :

Diffusely adherent Escherichia coli

EAEC :

Enteroaggregative Escherichia coli

E. coli :

Escherichia coli

EC :

Escherichia coli

EHEC :

Enterohaemorrhagic Escherichia coli

EIEC :

Enteroinvasive Escherichia coli

EPEC :

Enteropathogenic Escherichia coli

ETEC :

Enterotoxic Escherichia coli

ExPEC :

Extraintestinal Pathogenic Escherichia coli

HGT :

Horizontal geng transfer

HUS :

Hemolytic-uremic syndrome

IPEC :

Intestinal Pathogenic Escherichia coli

LB :

Luria-Bertani

MOI :

Multiplicity of infection

NA :

Not available

NCBI :

National Center for Biotechnology Information Search database

NJ :

Neighbor-joining

NMEC :

Neonatal meningitis Escherichia coli

OD :

Optical density 600

PAS :

Phage-antibiotic synergy

PBS :

Phosphate Buffered Saline

PFU :

Plaque forming unit

PHACTS :

Phage classification tool set

RAST :

Rapid Annotation using Subsystem Technology server

RBPs :

Receptor binding proteins

rpm :

Revolutions per minute

STEC :

Shiga toxin-producing Escherichia coli

TerL :

The large terminal subunit

UPEC :

Uropathogenic Escherichia coli

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Funding

This study was supported by the following funds: Natural Science Foundation of Anhui Province (2022AH052192). NHC Key laboratory of Enteric Pathogenic Microbiology (Jiangsu Provincial Center for Disease Control and Prevention, EM202303). "National Visiting Scholar Program for Young Backbone Teachers of Higher Education Institutions in Central and Western China" by the Ministry of Education. The Natural Science Research Project of Anhui Province (KJ2021ZD0153). The Project of Cultivating Outstanding Talents in Colleges (gxgnfx2022135). Wuhu Institute of Technology level science and technology team (wzykjtd202002).Academic and technical leader of the "Talent Project" at Wuhu Institute of Technology (rc2022dtr03). Guizhou Province Science and Technology Plan Project (Grant No. QKH [2023]008).

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Authors and Affiliations

  1. College of Veterinary Medicine, Nanjing Agricultural University, Nanjing, 210095, China

    Haiyan Zhang, Xiazhu Su, Xiangkuan Zheng, Meihan Liu & Wei Zhang

  2. Department of Food and Biology Engineering, Wuhu Institute of Technology, Wuhu, 241003, China

    Haiyan Zhang, Zhenxing Ma & Shuang Zhang

  3. Detection of Food-Borne Pathogenic Microorganisms Engineering Research Center of Wuhu, Wuhu, 241000, China

    Haiyan Zhang, Zhenxing Ma, Shuang Zhang & Wei Zhang

  4. Key Lab of Animal Bacteriology, Ministry of Agriculture, Nanjing, 210095, China

    Xiazhu Su, Xiangkuan Zheng, Meihan Liu & Wei Zhang

  5. Fushan Economic Development Zone, Yantai Jinhai Pharmaceutical Co. LTD 28 Jilin Road, Yantai City, China

    Chengxin Zhao & Xiao Liu

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  1. Haiyan Zhang
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Contributions

Zhang H.Y. and Zhang S. wrote the main manuscript text. Su X.Z. and Zheng X.K. performed the data analyses. Liu M.H., Zhao C.X., Liu X. and Ma Z.X. prepared the visualization and data presentation. Zhang W. contributed to the conception of the study. All authors reviewed the manuscript.

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Correspondence to Shuang Zhang or Wei Zhang.

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Zhang, H., Su, X., Zheng, X. et al. vB_EcoM-P896 coliphage isolated from duck sewage can lyse both intestinal pathogenic Escherichia coli and extraintestinal pathogenic E. coli. Int Microbiol (2024). https://doi.org/10.1007/s10123-024-00519-5

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