Version 1
: Received: 1 July 2024 / Approved: 2 July 2024 / Online: 2 July 2024 (14:50:33 CEST)
How to cite:
Lowe, M.; Strasheim, W.; Chan, W. Y.; Perovic, O. Bacterial and Genetic Features of Raw Retail Pork Meat: Integrative Analysis of Antibiotic Susceptibility, Whole Genome Sequencing and Metagenomics. Preprints2024, 2024070217. https://doi.org/10.20944/preprints202407.0217.v1
Lowe, M.; Strasheim, W.; Chan, W. Y.; Perovic, O. Bacterial and Genetic Features of Raw Retail Pork Meat: Integrative Analysis of Antibiotic Susceptibility, Whole Genome Sequencing and Metagenomics. Preprints 2024, 2024070217. https://doi.org/10.20944/preprints202407.0217.v1
Lowe, M.; Strasheim, W.; Chan, W. Y.; Perovic, O. Bacterial and Genetic Features of Raw Retail Pork Meat: Integrative Analysis of Antibiotic Susceptibility, Whole Genome Sequencing and Metagenomics. Preprints2024, 2024070217. https://doi.org/10.20944/preprints202407.0217.v1
APA Style
Lowe, M., Strasheim, W., Chan, W. Y., & Perovic, O. (2024). Bacterial and Genetic Features of Raw Retail Pork Meat: Integrative Analysis of Antibiotic Susceptibility, Whole Genome Sequencing and Metagenomics. Preprints. https://doi.org/10.20944/preprints202407.0217.v1
Chicago/Turabian Style
Lowe, M., Wai Yin Chan and Olga Perovic. 2024 "Bacterial and Genetic Features of Raw Retail Pork Meat: Integrative Analysis of Antibiotic Susceptibility, Whole Genome Sequencing and Metagenomics" Preprints. https://doi.org/10.20944/preprints202407.0217.v1
Abstract
The global antibiotic resistance crisis, driven by antibiotic overuse and misuse, is multifaceted. This study aimed to assess the microbiological and genetic characteristics of raw retail pork meat, including the isolation, antibiotic susceptibility testing (AST), whole genome sequencing (WGS) of selected indicator bacteria, antibiotic residue testing, and metagenomic sequencing. Samples were purchased from 10 randomly selected retail stores in Gauteng, South Africa. Samples were aseptically separated, with a portion sent to an external laboratory for isolating indicator bacteria and antibiotic residue testing. Identification of the isolated bacteria was reconfirmed using matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS). AST was performed using the Microscan Walkaway system. WGS and metagenomic sequencing were performed using the Illumina NextSeq 550 instrument. The isolated E. coli and enterococci exhibited little phenotypic resistance, with WGS revealing tetracycline resistance genes. Isolated bacteria and meat samples all harboured tetracycline resistance genes, and the antibiotic residue concentrations were within acceptable limits for human consumption. In the metagenomic context, most identified bacteria were of food/meat spoilage and environmental origin, with the resistome analysis primarily indicating beta-lactam, tetracycline and multidrug resistance genes. Further research is needed to understand the broader implications of these findings on environmental health and antibiotic resistance.
Keywords
whole genome sequencing; metagenomics; antibiotic residue testing; retail pork meat; South Africa
Subject
Public Health and Healthcare, Public, Environmental and Occupational Health
Copyright:
This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
