First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa

Yogandree Ramsamy; Daniel G Amoako; Akebe Luther King Abia; Mushal Allam; Arshad Ismail; Phillip Senzo Mtshali; Koleka P Mlisana; Sabiha Y Essack

doi:10.1016/j.jgar.2020.12.021

First genome sequence of Aeromonas hydrophilia novel sequence type 658 strain isolated from livestock in South Africa

J Glob Antimicrob Resist. 2021 Mar:24:175-177. doi: 10.1016/j.jgar.2020.12.021. Epub 2021 Jan 15.

Authors

Yogandree Ramsamy¹, Daniel G Amoako², Akebe Luther King Abia³, Mushal Allam⁴, Arshad Ismail⁴, Phillip Senzo Mtshali⁴, Koleka P Mlisana⁵, Sabiha Y Essack³

Affiliations

¹ Medical 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 Africa.
² Antimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa. Electronic address: amoakodg@gmail.com.
³ Antimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa.
⁴ Sequencing Core Facility, National Institute for Communicable Diseases, National Health Laboratory Service, Johannesburg, South Africa.
⁵ National Health Laboratory Service, South Africa.

PMID: 33460845
DOI: 10.1016/j.jgar.2020.12.021

Abstract

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 (bla_CPHA3 and bla_OXA-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.

Keywords: Abattoir; Aeromonas hydrophilia; Genomics; Global phylogenomic tree; Pig; Sequence type.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Aeromonas* / genetics
Animals
Drug Resistance, Multiple, Bacterial*
Livestock
Phylogeny
South Africa
Swine