Functional verification of computationally predicted qnr genes

BACKGROUND: The quinolone resistance (qnr) genes are widely distributed among bacteria. We recently developed and applied probabilistic models to identify tentative novel qnr genes in large public collections of DNA sequence data including fragmented metagenomes. FINDINGS: By using inducible recombi...

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Autores principales: Flach, Carl-Fredrik, Boulund, Fredrik, Kristiansson, Erik, Larsson, DG Joakim
Formato: Online Artículo Texto
Lenguaje:English
Publicado: BioMed Central 2013
Materias:
Short Report
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4222258/
https://www.ncbi.nlm.nih.gov/pubmed/24257207
http://dx.doi.org/10.1186/1476-0711-12-34
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author Flach, Carl-Fredrik
Boulund, Fredrik
Kristiansson, Erik
Larsson, DG Joakim
author_facet Flach, Carl-Fredrik
Boulund, Fredrik
Kristiansson, Erik
Larsson, DG Joakim
author_sort Flach, Carl-Fredrik
collection PubMed
description BACKGROUND: The quinolone resistance (qnr) genes are widely distributed among bacteria. We recently developed and applied probabilistic models to identify tentative novel qnr genes in large public collections of DNA sequence data including fragmented metagenomes. FINDINGS: By using inducible recombinant expressions systems the functionality of four identified qnr candidates were evaluated in Escherichia coli. Expression of several known qnr genes as well as two novel candidates provided fluoroquinolone resistance that increased with elevated inducer concentrations. The two novel, functionally verified qnr genes are termed Vfuqnr and assembled qnr 1. Co-expression of two qnr genes suggested non-synergistic action. CONCLUSION: The combination of a computational model and recombinant expression systems provides opportunities to explore and identify novel antibiotic resistance genes in both genomic and metagenomic datasets.
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spelling pubmed-42222582014-11-07 Functional verification of computationally predicted qnr genes Flach, Carl-Fredrik Boulund, Fredrik Kristiansson, Erik Larsson, DG Joakim Ann Clin Microbiol Antimicrob Short Report BACKGROUND: The quinolone resistance (qnr) genes are widely distributed among bacteria. We recently developed and applied probabilistic models to identify tentative novel qnr genes in large public collections of DNA sequence data including fragmented metagenomes. FINDINGS: By using inducible recombinant expressions systems the functionality of four identified qnr candidates were evaluated in Escherichia coli. Expression of several known qnr genes as well as two novel candidates provided fluoroquinolone resistance that increased with elevated inducer concentrations. The two novel, functionally verified qnr genes are termed Vfuqnr and assembled qnr 1. Co-expression of two qnr genes suggested non-synergistic action. CONCLUSION: The combination of a computational model and recombinant expression systems provides opportunities to explore and identify novel antibiotic resistance genes in both genomic and metagenomic datasets. BioMed Central 2013-11-21 /pmc/articles/PMC4222258/ /pubmed/24257207 http://dx.doi.org/10.1186/1476-0711-12-34 Text en Copyright © 2013 Flach et al.; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated.
spellingShingle Short Report
Flach, Carl-Fredrik
Boulund, Fredrik
Kristiansson, Erik
Larsson, DG Joakim
Functional verification of computationally predicted qnr genes
title Functional verification of computationally predicted qnr genes
title_full Functional verification of computationally predicted qnr genes
title_fullStr Functional verification of computationally predicted qnr genes
title_full_unstemmed Functional verification of computationally predicted qnr genes
title_short Functional verification of computationally predicted qnr genes
title_sort functional verification of computationally predicted qnr genes
topic Short Report
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4222258/
https://www.ncbi.nlm.nih.gov/pubmed/24257207
http://dx.doi.org/10.1186/1476-0711-12-34
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