Proteomics as the final step in the functional metagenomics study of antimicrobial resistance

The majority of clinically applied antimicrobial agents are derived from natural products generated by soil microorganisms and therefore resistance is likely to be ubiquitous in such environments. This is supported by the fact that numerous clinically important resistance mechanisms are encoded with...

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Published inFrontiers in microbiology Vol. 6; p. 172
Main Authors Fouhy, Fiona, Stanton, Catherine, Cotter, Paul D, Hill, Colin, Walsh, Fiona
Format Journal Article
LanguageEnglish
Published Switzerland Frontiers Media S.A 03.03.2015
Subjects
antibiotic resistance
functional metagenomics
Microbiology
novel mechanisms
Proteins
microbiology
novel mechanisms
antibiotic resistance
proteins
functional metagenomics
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Summary:The majority of clinically applied antimicrobial agents are derived from natural products generated by soil microorganisms and therefore resistance is likely to be ubiquitous in such environments. This is supported by the fact that numerous clinically important resistance mechanisms are encoded within the genomes of such bacteria. Advances in genomic sequencing have enabled the in silico identification of putative resistance genes present in these microorganisms. However, it is not sufficient to rely on the identification of putative resistance genes, we must also determine if the resultant proteins confer a resistant phenotype. This will require an analysis pipeline that extends from the extraction of environmental DNA, to the identification and analysis of potential resistance genes and their resultant proteins and phenotypes. This review focuses on the application of functional metagenomics and proteomics to study antimicrobial resistance in diverse environments.
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Edited by: Ana C. Esteves, University of Aveiro, Portugal
This article was submitted to Antimicrobials, Resistance and Chemotherapy, a section of the journal Frontiers in Microbiology.
Reviewed by: Celia Manaia, Universidade Católica Portuguesa, Portugal; Kjell Sergeant, Luxembourg Institute of Science and Technology, Luxembourg
ISSN:1664-302X
1664-302X
DOI:10.3389/fmicb.2015.00172