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Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter

A total of four strains of the ‘environmental superbug’ Pedobacter isolated from sludge produced at Norwegian drinking water treatment plants, were characterized by whole genome sequencing and antibiotic susceptibility assays. As with previous studies on members of this genus, we found that the isol...

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Autores principales: Ullmann, Ingvild Falkum, Nygaard, Anders Benteson, Tunsjø, Hege Smith, Charnock, Colin
Formato: Online Artículo Texto
Lenguaje:English
Publicado: Oxford University Press 2020
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7254926/
https://www.ncbi.nlm.nih.gov/pubmed/32386210
http://dx.doi.org/10.1093/femsec/fiaa088
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author Ullmann, Ingvild Falkum
Nygaard, Anders Benteson
Tunsjø, Hege Smith
Charnock, Colin
author_facet Ullmann, Ingvild Falkum
Nygaard, Anders Benteson
Tunsjø, Hege Smith
Charnock, Colin
author_sort Ullmann, Ingvild Falkum
collection PubMed
description A total of four strains of the ‘environmental superbug’ Pedobacter isolated from sludge produced at Norwegian drinking water treatment plants, were characterized by whole genome sequencing and antibiotic susceptibility assays. As with previous studies on members of this genus, we found that the isolates were multi-drug resistant, and that this resistance included clinically important beta-lactams, aminoglycosides and the fluoroquinolone ciprofloxacin. Using the minION sequencing platform (Oxford Nanopore Technologies) combined with HiSeq PE150 Illumina sequencing data, the four isolates were assembled into genomes of single contigs. Analysis of the genomes revealed potential genetic factors possibly underlying some of the specific resistances observed. Metallo-beta-lactamase activity was detected in one isolate, and the same isolate contained a putative metallo-betalactamase gene resembling pedo-2. Furthermore, several genes related to multidrug efflux systems were found using the resistance database CARD. Additionally, the present study extends our knowledge on the phylogeny of this genus, adding four new genomes to the existing 50.
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spelling pubmed-72549262020-06-03 Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter Ullmann, Ingvild Falkum Nygaard, Anders Benteson Tunsjø, Hege Smith Charnock, Colin FEMS Microbiol Ecol Research Article A total of four strains of the ‘environmental superbug’ Pedobacter isolated from sludge produced at Norwegian drinking water treatment plants, were characterized by whole genome sequencing and antibiotic susceptibility assays. As with previous studies on members of this genus, we found that the isolates were multi-drug resistant, and that this resistance included clinically important beta-lactams, aminoglycosides and the fluoroquinolone ciprofloxacin. Using the minION sequencing platform (Oxford Nanopore Technologies) combined with HiSeq PE150 Illumina sequencing data, the four isolates were assembled into genomes of single contigs. Analysis of the genomes revealed potential genetic factors possibly underlying some of the specific resistances observed. Metallo-beta-lactamase activity was detected in one isolate, and the same isolate contained a putative metallo-betalactamase gene resembling pedo-2. Furthermore, several genes related to multidrug efflux systems were found using the resistance database CARD. Additionally, the present study extends our knowledge on the phylogeny of this genus, adding four new genomes to the existing 50. Oxford University Press 2020-05-09 /pmc/articles/PMC7254926/ /pubmed/32386210 http://dx.doi.org/10.1093/femsec/fiaa088 Text en © FEMS 2020. http://creativecommons.org/licenses/by/4.0/ This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Research Article
Ullmann, Ingvild Falkum
Nygaard, Anders Benteson
Tunsjø, Hege Smith
Charnock, Colin
Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title_full Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title_fullStr Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title_full_unstemmed Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title_short Whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus Pedobacter
title_sort whole genome sequencing and antibiotic diffusion assays, provide new insight on drug resistance in the genus pedobacter
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7254926/
https://www.ncbi.nlm.nih.gov/pubmed/32386210
http://dx.doi.org/10.1093/femsec/fiaa088
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