First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa
Objectives: The underlying resistance mechanisms, defence systems, mobilome, virulome, clonality and global phylogenetic relationship of a novel sequence type (ST) 658 Aeromonas hydrophilia (A34a) isolated from a pig abattoir in South Africa was determined using whole-genome sequence (WGS) technolog...
Main Authors: | , , , , , , , |
---|---|
Format: | Article |
Language: | English |
Published: |
Elsevier
2021-03-01
|
Series: | Journal of Global Antimicrobial Resistance |
Subjects: | |
Online Access: | http://www.sciencedirect.com/science/article/pii/S2213716521000060 |
id |
doaj-a78459e90dd44f9b8f94c4ffd11c751e |
---|---|
record_format |
Article |
spelling |
doaj-a78459e90dd44f9b8f94c4ffd11c751e2021-06-09T05:58:15ZengElsevierJournal of Global Antimicrobial Resistance2213-71652021-03-0124175177First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South AfricaYogandree Ramsamy0Daniel G. Amoako1Akebe Luther King Abia2Mushal Allam3Arshad Ismail4Phillip Senzo Mtshali5Koleka P. Mlisana6Sabiha Y. Essack7Medical Microbiology, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa; National Health Laboratory Service, South Africa; Antimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South AfricaAntimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa; Corresponding author.Antimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South AfricaSequencing Core Facility, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South AfricaSequencing Core Facility, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South AfricaSequencing Core Facility, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South AfricaNational Health Laboratory Service, South AfricaAntimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South AfricaObjectives: The underlying resistance mechanisms, defence systems, mobilome, virulome, clonality and global phylogenetic relationship of a novel sequence type (ST) 658 Aeromonas hydrophilia (A34a) isolated from a pig abattoir in South Africa was determined using whole-genome sequence (WGS) technology. Methods: Following isolation on chromogenic agar (CHROMID® CARBA SMART), microbial identification and antibiotic susceptibility testing were performed using a VITEK®2 platform. Genotyping involved WGS performed with an Illumina MiSeq platform. Results: The antibiotic resistome agreed with the resistance phenotype of the isolate and included antibiotic resistance determinants for β-lactams (blaCPHA3 and blaOXA-724). BLASTn analysis of resistome-encoding contigs affirmed chromosomally-mediated resistance. BURST algorithmic analysis identified the novel ST658 as a satellite variant. Virulome analysis predicted virulence genes of Aeromonas whose expression are critical for establishing infection in the host. Global phylogenomic analyses showed strain A34a is closely related to two international isolates from Sri Lanka (Ae25) and the USA (RU34A), although there is little to suggest that it was imported from abroad. Conclusion: This is the first report on the genomic analysis of a novel ST658 A. hydrophilia, offering useful insights into its pathogenicity and global phylogenetics.http://www.sciencedirect.com/science/article/pii/S2213716521000060GenomicsAeromonas hydrophiliaSequence typePigAbattoirGlobal phylogenomic tree |
collection |
DOAJ |
language |
English |
format |
Article |
sources |
DOAJ |
author |
Yogandree Ramsamy Daniel G. Amoako Akebe Luther King Abia Mushal Allam Arshad Ismail Phillip Senzo Mtshali Koleka P. Mlisana Sabiha Y. Essack |
spellingShingle |
Yogandree Ramsamy Daniel G. Amoako Akebe Luther King Abia Mushal Allam Arshad Ismail Phillip Senzo Mtshali Koleka P. Mlisana Sabiha Y. Essack First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa Journal of Global Antimicrobial Resistance Genomics Aeromonas hydrophilia Sequence type Pig Abattoir Global phylogenomic tree |
author_facet |
Yogandree Ramsamy Daniel G. Amoako Akebe Luther King Abia Mushal Allam Arshad Ismail Phillip Senzo Mtshali Koleka P. Mlisana Sabiha Y. Essack |
author_sort |
Yogandree Ramsamy |
title |
First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa |
title_short |
First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa |
title_full |
First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa |
title_fullStr |
First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa |
title_full_unstemmed |
First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa |
title_sort |
first genome sequence of aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in south africa |
publisher |
Elsevier |
series |
Journal of Global Antimicrobial Resistance |
issn |
2213-7165 |
publishDate |
2021-03-01 |
description |
Objectives: The underlying resistance mechanisms, defence systems, mobilome, virulome, clonality and global phylogenetic relationship of a novel sequence type (ST) 658 Aeromonas hydrophilia (A34a) isolated from a pig abattoir in South Africa was determined using whole-genome sequence (WGS) technology. Methods: Following isolation on chromogenic agar (CHROMID® CARBA SMART), microbial identification and antibiotic susceptibility testing were performed using a VITEK®2 platform. Genotyping involved WGS performed with an Illumina MiSeq platform. Results: The antibiotic resistome agreed with the resistance phenotype of the isolate and included antibiotic resistance determinants for β-lactams (blaCPHA3 and blaOXA-724). BLASTn analysis of resistome-encoding contigs affirmed chromosomally-mediated resistance. BURST algorithmic analysis identified the novel ST658 as a satellite variant. Virulome analysis predicted virulence genes of Aeromonas whose expression are critical for establishing infection in the host. Global phylogenomic analyses showed strain A34a is closely related to two international isolates from Sri Lanka (Ae25) and the USA (RU34A), although there is little to suggest that it was imported from abroad. Conclusion: This is the first report on the genomic analysis of a novel ST658 A. hydrophilia, offering useful insights into its pathogenicity and global phylogenetics. |
topic |
Genomics Aeromonas hydrophilia Sequence type Pig Abattoir Global phylogenomic tree |
url |
http://www.sciencedirect.com/science/article/pii/S2213716521000060 |
work_keys_str_mv |
AT yogandreeramsamy firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT danielgamoako firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT akebelutherkingabia firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT mushalallam firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT arshadismail firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT phillipsenzomtshali firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT kolekapmlisana firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica AT sabihayessack firstgenomesequenceofaeromonashydrophilianovelsequencetype658strainisolatedfromlivestockinsouthafrica |
_version_ |
1721388385171406848 |