Bioinformatics analysis of antimicrobial resistance genes and prophages colocalized in human gut metagenomes

   
Starikova E.V.1 , Prianichnikov N.A.1, Zdobnov E.2, Govorun V.M.1

1. Federal Research and Clinical Center of Physical-Chemical Medicine, Moscow, Russia
2. University of Geneva Medical School, Geneva, Switzerland
Section: Bioinformatics/Proteomics
DOI: 10.18097/PBMC20176306508      PubMed Id: 29251611
Year: 2017  Volume: 63  Issue: 6  Pages: 508-512
The constant increase of antibiotic-resistant strains of bacteria is caused by extensive uses of antibiotics in medicine and animal breeding. It was suggested that the gut microbiota serves as a reservoir for antibiotics resistance genes that can be carried from symbiotic bacteria to pathogenic ones, in particular, as a result of transduction. In the current study, we have searched for antibiotics resistance genes that are located inside prophages in human gut microbiota using PHASTER prophage predicting tool and CARD antibiotics resistance database. After analysing metagenomic assemblies of eight samples of antibiotic treated patients, lsaE, mdfA and cpxR/cpxA genes were identified inside prophages. The abovementioned genes confer resistance to antimicrobial peptides, pleuromutilin, lincomycins, streptogramins and multidrug resistance. Three (0.46%) of 659 putative prophages predicted in metagenomic assemblies contained antibiotics resistance genes in their sequences.
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Keywords: metagenomics, antibiotic resistance, bacteriophages
Citation:

Starikova, E. V., Prianichnikov, N. A., Zdobnov, E., Govorun, V. M. (2017). Bioinformatics analysis of antimicrobial resistance genes and prophages colocalized in human gut metagenomes. Biomeditsinskaya khimiya, 63(6), 508-512.
This paper is also available as the English translation: 10.1134/S1990750818020129
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