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Functional verification of computationally predicted qnr genes

Journal article
Authors Carl-Fredrik Flach
Fredrik Boulund
Erik Kristiansson
D. G. Joakim Larsson
Published in Annals of Clinical Microbiology and Antimicrobials
Volume 12
Pages artikel nr 34
ISSN 1476-0711
Publication year 2013
Published at Department of Mathematical Sciences, Mathematical Statistics
Institute of Biomedicine, Department of Infectious Medicine
Pages artikel nr 34
Language en
Links http://dx.doi.org/10.1186/1476-071...
https://gup.ub.gu.se/file/119662
Keywords qnr, Vfuqnr, assembled qnr 1, Functional verification, Recombinant expression, E. coli
Subject categories Functional genomics, Other Natural Sciences, Microbiology in the medical area

Abstract

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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