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Proteomics as the final step in the functional metagenomics study of antimicrobial resistance
Fouhy, Fiona STANTON, CATHERINE Cotter, Paul D. Hill, Colin Walsh, Fiona
Fouhy, Fiona
STANTON, CATHERINE
Cotter, Paul D.
Hill, Colin
Walsh, Fiona
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03/03/2015
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fmicb-06-00172.pdf
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Fiona Fouhy, Catherine Stanton, Paul D. Cotter, Colin Hill and Fiona Walsh. Proteomics as the final step in the functional metagenomics study of antimicrobial resistance. Front. Microbiol., 03 March 2015. Doi: 10.3389/fmicb.2015.00172
Abstract
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.