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Genomic landscape of multi-drug resistant avian pathogenic Escherichia coli recovered from broilers.
Vet Microbiol. 2020 Aug; 247:108766.VM

Abstract

Colibacillosis, a disease caused by avian pathogenic Escherichia coli (APEC), constitutes a substantial burden to the poultry industry worldwide. APEC has been extensively characterized throughout the world, however, less is known about the genetic background of APEC isolates from Pakistan. In this study, a total of 75 E. coli isolates from colibacillosis affected dead broiler birds in Pakistan were subjected to whole genome sequencing followed by in-silico characterization. These isolates were investigated for virulence and resistance genotypes, serotypes, multi-locus sequence types, plasmid replicon types and single nucleotide polymorphism-based core genome phylogeny. Among the APEC isolates investigated, 14 different sequence types were identified with ST117 (16 %), ST2847 (10.7 %) and ST48 (5.3 %) being the most prevalent. Of the 28 different serotypes identified in this study, O1, O2 and O78 serotypes accounted for 25.3 % of the APEC isolates. The most frequently identified virulence-associated genes (VAGs) were increased serum survival gene; iss (100 %), glutamate decarboxylase; gad (92 %) and the siderophore receptor; iroN (81.3 %). According to the previously established definition, 72 % of isolates fell within the highly pathogenic APEC category by possessing a combination of VAGs; iss, iroN, iutA, hlyF and ompT simultaneously. Of the 75 APEC isolates, 89.3 % contained the genes predicted to encode resistance against aminoglycosides, tetracyclines and sulfonamides. Notably, the acquired colistin resistance gene mcr-1 was found in 38.7 % of the APEC isolates. Our findings reveal a diverse genetic background and high virulence and resistance potentials for APEC isolates in Pakistan.

Authors+Show Affiliations

Institute of Microbiology, University of Agriculture, Faisalabad 38040, Pakistan.Institute of Microbiology, University of Agriculture, Faisalabad 38040, Pakistan. Electronic address: mashkooormohsin@uaf.edu.pk.Department of Veterinary and Biomedical Sciences, College of Veterinary Medicine, University of Minnesota, Saint Paul, Minnesota, USA; Mid-Central Research and Outreach Center, University of Minnesota, Willmar, Minnesota, USA.Department of Veterinary and Biomedical Sciences, College of Veterinary Medicine, University of Minnesota, Saint Paul, Minnesota, USA.Department of Veterinary and Biomedical Sciences, College of Veterinary Medicine, University of Minnesota, Saint Paul, Minnesota, USA.Institute of Microbiology, University of Agriculture, Faisalabad 38040, Pakistan.Department of Pathology, University of Agriculture, Faisalabad 38040, Pakistan.Institute of Microbiology, University of Agriculture, Faisalabad 38040, Pakistan.

Pub Type(s)

Journal Article

Language

eng

PubMed ID

32768218

Citation

Azam, Mariya, et al. "Genomic Landscape of Multi-drug Resistant Avian Pathogenic Escherichia Coli Recovered From Broilers." Veterinary Microbiology, vol. 247, 2020, p. 108766.
Azam M, Mohsin M, Johnson TJ, et al. Genomic landscape of multi-drug resistant avian pathogenic Escherichia coli recovered from broilers. Vet Microbiol. 2020;247:108766.
Azam, M., Mohsin, M., Johnson, T. J., Smith, E. A., Johnson, A., Umair, M., Saleemi, M. K., & Sajjad-Ur-Rahman, . (2020). Genomic landscape of multi-drug resistant avian pathogenic Escherichia coli recovered from broilers. Veterinary Microbiology, 247, 108766. https://doi.org/10.1016/j.vetmic.2020.108766
Azam M, et al. Genomic Landscape of Multi-drug Resistant Avian Pathogenic Escherichia Coli Recovered From Broilers. Vet Microbiol. 2020;247:108766. PubMed PMID: 32768218.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Genomic landscape of multi-drug resistant avian pathogenic Escherichia coli recovered from broilers. AU - Azam,Mariya, AU - Mohsin,Mashkoor, AU - Johnson,Timothy J, AU - Smith,Emily A, AU - Johnson,Abigail, AU - Umair,Muhammad, AU - Saleemi,Muhammad Kashif, AU - Sajjad-Ur-Rahman,, Y1 - 2020/06/27/ PY - 2020/01/22/received PY - 2020/06/16/revised PY - 2020/06/17/accepted PY - 2020/8/10/entrez PY - 2020/8/10/pubmed PY - 2021/6/8/medline KW - Antimicrobial resistance genes KW - Avian pathogenic E.coli KW - Colibacillosis KW - Genomics KW - Poultry KW - Sequence types SP - 108766 EP - 108766 JF - Veterinary microbiology JO - Vet Microbiol VL - 247 N2 - Colibacillosis, a disease caused by avian pathogenic Escherichia coli (APEC), constitutes a substantial burden to the poultry industry worldwide. APEC has been extensively characterized throughout the world, however, less is known about the genetic background of APEC isolates from Pakistan. In this study, a total of 75 E. coli isolates from colibacillosis affected dead broiler birds in Pakistan were subjected to whole genome sequencing followed by in-silico characterization. These isolates were investigated for virulence and resistance genotypes, serotypes, multi-locus sequence types, plasmid replicon types and single nucleotide polymorphism-based core genome phylogeny. Among the APEC isolates investigated, 14 different sequence types were identified with ST117 (16 %), ST2847 (10.7 %) and ST48 (5.3 %) being the most prevalent. Of the 28 different serotypes identified in this study, O1, O2 and O78 serotypes accounted for 25.3 % of the APEC isolates. The most frequently identified virulence-associated genes (VAGs) were increased serum survival gene; iss (100 %), glutamate decarboxylase; gad (92 %) and the siderophore receptor; iroN (81.3 %). According to the previously established definition, 72 % of isolates fell within the highly pathogenic APEC category by possessing a combination of VAGs; iss, iroN, iutA, hlyF and ompT simultaneously. Of the 75 APEC isolates, 89.3 % contained the genes predicted to encode resistance against aminoglycosides, tetracyclines and sulfonamides. Notably, the acquired colistin resistance gene mcr-1 was found in 38.7 % of the APEC isolates. Our findings reveal a diverse genetic background and high virulence and resistance potentials for APEC isolates in Pakistan. SN - 1873-2542 UR - https://www.unboundmedicine.com/medline/citation/32768218/Genomic_landscape_of_multi_drug_resistant_avian_pathogenic_Escherichia_coli_recovered_from_broilers_ L2 - https://linkinghub.elsevier.com/retrieve/pii/S0378-1135(20)30079-1 DB - PRIME DP - Unbound Medicine ER -