Draft genome sequence of an extensively drug-resistant Pseudomonas aeruginosa isolate belonging to ST644 isolated from a footpad infection in a Magellanic penguin (Spheniscus magellanicus)

Fábio P Sellera; Miriam R Fernandes; Quézia Moura; Tiago A Souza; Cristiane L Nascimento; Louise Cerdeira; Nilton Lincopan

doi:10.1016/j.jgar.2017.12.009

Draft genome sequence of an extensively drug-resistant Pseudomonas aeruginosa isolate belonging to ST644 isolated from a footpad infection in a Magellanic penguin (Spheniscus magellanicus)

J Glob Antimicrob Resist. 2018 Mar:12:88-89. doi: 10.1016/j.jgar.2017.12.009. Epub 2017 Dec 22.

Authors

Fábio P Sellera¹, Miriam R Fernandes², Quézia Moura³, Tiago A Souza⁴, Cristiane L Nascimento⁵, Louise Cerdeira², Nilton Lincopan⁶

Affiliations

¹ Department of Internal Medicine, School of Veterinary Medicine and Animal Science, University of São Paulo, São Paulo, Brazil. Electronic address: [email protected].
² Department of Clinical Analysis, Faculty of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil.
³ Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
⁴ Genome Investigation and Analysis Laboratory (GENIAL), Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil.
⁵ Veterinary Unit of Santos Aquarium, Santos, Brazil.
⁶ Department of Clinical Analysis, Faculty of Pharmaceutical Sciences, University of São Paulo, São Paulo, Brazil; Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, São Paulo, Brazil. Electronic address: [email protected].

PMID: 29277728
DOI: 10.1016/j.jgar.2017.12.009

Abstract

Objectives: The incidence of multidrug-resistant bacteria in wildlife animals has been investigated to improve our knowledge of the spread of clinically relevant antimicrobial resistance genes. The aim of this study was to report the first draft genome sequence of an extensively drug-resistant (XDR) Pseudomonas aeruginosa ST644 isolate recovered from a Magellanic penguin with a footpad infection (bumblefoot) undergoing rehabilitation process.

Methods: The genome was sequenced on an Illumina NextSeq^® platform using 150-bp paired-end reads. De novo genome assembly was performed using Velvet v.1.2.10, and the whole genome sequence was evaluated using bioinformatics approaches from the Center of Genomic Epidemiology, whereas an in-house method (mapping of raw whole genome sequence reads) was used to identify chromosomal point mutations.

Results: The genome size was calculated at 6436450bp, with 6357 protein-coding sequences and the presence of genes conferring resistance to aminoglycosides, β-lactams, phenicols, sulphonamides, tetracyclines, quinolones and fosfomycin; in addition, mutations in the genes gyrA (Thr83Ile), parC (Ser87Leu), phoQ (Arg61His) and pmrB (Tyr345His), conferring resistance to quinolones and polymyxins, respectively, were confirmed.

Conclusion: This draft genome sequence can provide useful information for comparative genomic analysis regarding the dissemination of clinically significant antibiotic resistance genes and XDR bacterial species at the human-animal interface.

Keywords: Bumblefoot; Pododermatitis; Quinolone resistance-determining region; Seabirds; Whole-genome sequencing; Wildlife.

Publication types

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

MeSH terms

Animals
Anti-Bacterial Agents / pharmacology
Base Sequence
Bird Diseases / microbiology*
Drug Resistance, Multiple, Bacterial*
Foot Diseases / microbiology
Foot Diseases / veterinary*
Genome Size
Genome, Bacterial
Phylogeny
Pseudomonas Infections / microbiology
Pseudomonas Infections / veterinary*
Pseudomonas aeruginosa / classification
Pseudomonas aeruginosa / drug effects
Pseudomonas aeruginosa / genetics*
Pseudomonas aeruginosa / isolation & purification*
Spheniscidae / microbiology

Substances

Anti-Bacterial Agents