Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia

Salmonella enterica subspecies enterica serovar Enteritidis is one of the major foodborne zoonotic pathogens globally. It has significantly impacted human health and global trade. In this investigation, whole-genome sequencing was employed to determine the antimicrobial resistance (AMR) pattern of a...

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Main Authors: Zakaria, Zunita, Hassan, Latiffah, Ahmad, Norazah, Amir Husin, Suraya, Mohd Ali, Rohaya, Sharif, Zawiyah, Mohamed Sohaimi, Norfitriah, Garba, Bashiru
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Language:English
Published: Frontiers Media 2021
Online Access:http://psasir.upm.edu.my/id/eprint/96749/1/ABSTRACT.pdf
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spelling oai:psasir.upm.edu.my:96749 http://psasir.upm.edu.my/id/eprint/96749/ Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia Zakaria, Zunita Hassan, Latiffah Ahmad, Norazah Amir Husin, Suraya Mohd Ali, Rohaya Sharif, Zawiyah Mohamed Sohaimi, Norfitriah Garba, Bashiru Salmonella enterica subspecies enterica serovar Enteritidis is one of the major foodborne zoonotic pathogens globally. It has significantly impacted human health and global trade. In this investigation, whole-genome sequencing was employed to determine the antimicrobial resistance (AMR) pattern of a collection of Salmonella Enteritidis isolated from humans, poultry, and food sources. The study also investigated the virulence genes profile of the isolates as well as the phylogenetic relationships among strains. Illumina NextSeq technology was used to sequence the genome of 82 Salmonella Enteritidis strains isolated over 3 years (2016-2018) in Peninsular Malaysia. The pattern of resistance showed that tetracycline had the highest frequency (37/82, 45.12%), and isolates from food samples showed the highest rate of 9/18 (50.00%), followed by human 17/35 (48.57%) and then poultry 11/29 (37.93%). The second drug with the highest resistance rate is ampicillin with 5/29 (17.24%) for poultry, 4/35 (11.43%) for human, and 0/18 (0.00%) for food isolates respectively. Similarly, a total of 19 antimicrobial resistance (AMR) genes corresponding to the nine drugs used in the disc diffusion assay were evaluated from the whole genome sequence data. The aminoglycoside resistance gene aac(6')-ly was detected in 79 of the 82 isolates (96.34%). While the phylogenetic analysis revealed distinct lineages isolated, the three sources indicating possible cross-contamination. In conclusion, the results showed that the genomic profile of Salmonella Enteritidis isolated from humans, poultry, and food samples share genetic traits, hence the need to institute measures at controlling the continuous spread of these resistant pathogens. Frontiers Media 2021 Article PeerReviewed text en http://psasir.upm.edu.my/id/eprint/96749/1/ABSTRACT.pdf Zakaria, Zunita and Hassan, Latiffah and Ahmad, Norazah and Amir Husin, Suraya and Mohd Ali, Rohaya and Sharif, Zawiyah and Mohamed Sohaimi, Norfitriah and Garba, Bashiru (2021) Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia. Frontiers in Microbiology, 12. art. no. 652642. pp. 1-12. ISSN 1664-302X https://www.frontiersin.org/articles/10.3389/fmicb.2021.652642/full 10.3389/fmicb.2021.652642
institution UPM IR
collection UPM IR
language English
description Salmonella enterica subspecies enterica serovar Enteritidis is one of the major foodborne zoonotic pathogens globally. It has significantly impacted human health and global trade. In this investigation, whole-genome sequencing was employed to determine the antimicrobial resistance (AMR) pattern of a collection of Salmonella Enteritidis isolated from humans, poultry, and food sources. The study also investigated the virulence genes profile of the isolates as well as the phylogenetic relationships among strains. Illumina NextSeq technology was used to sequence the genome of 82 Salmonella Enteritidis strains isolated over 3 years (2016-2018) in Peninsular Malaysia. The pattern of resistance showed that tetracycline had the highest frequency (37/82, 45.12%), and isolates from food samples showed the highest rate of 9/18 (50.00%), followed by human 17/35 (48.57%) and then poultry 11/29 (37.93%). The second drug with the highest resistance rate is ampicillin with 5/29 (17.24%) for poultry, 4/35 (11.43%) for human, and 0/18 (0.00%) for food isolates respectively. Similarly, a total of 19 antimicrobial resistance (AMR) genes corresponding to the nine drugs used in the disc diffusion assay were evaluated from the whole genome sequence data. The aminoglycoside resistance gene aac(6')-ly was detected in 79 of the 82 isolates (96.34%). While the phylogenetic analysis revealed distinct lineages isolated, the three sources indicating possible cross-contamination. In conclusion, the results showed that the genomic profile of Salmonella Enteritidis isolated from humans, poultry, and food samples share genetic traits, hence the need to institute measures at controlling the continuous spread of these resistant pathogens.
format Article
author Zakaria, Zunita
Hassan, Latiffah
Ahmad, Norazah
Amir Husin, Suraya
Mohd Ali, Rohaya
Sharif, Zawiyah
Mohamed Sohaimi, Norfitriah
Garba, Bashiru
spellingShingle Zakaria, Zunita
Hassan, Latiffah
Ahmad, Norazah
Amir Husin, Suraya
Mohd Ali, Rohaya
Sharif, Zawiyah
Mohamed Sohaimi, Norfitriah
Garba, Bashiru
Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
author_facet Zakaria, Zunita
Hassan, Latiffah
Ahmad, Norazah
Amir Husin, Suraya
Mohd Ali, Rohaya
Sharif, Zawiyah
Mohamed Sohaimi, Norfitriah
Garba, Bashiru
author_sort Zakaria, Zunita
title Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
title_short Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
title_full Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
title_fullStr Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
title_full_unstemmed Discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of Salmonella isolates across the human, poultry and food materials sources in Malaysia
title_sort discerning the antimicrobial resistance, virulence, and phylogenetic relatedness of salmonella isolates across the human, poultry and food materials sources in malaysia
publisher Frontiers Media
publishDate 2021
url http://psasir.upm.edu.my/id/eprint/96749/1/ABSTRACT.pdf
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score 13.4562235