Faecal phageome of healthy individuals: presence of antibiotic resistance genes and variations caused by ciprofloxacin treatment
Por:
Fernandez-Orth, D, Miro, E, Brown-Jaque, M, Rodriguez-Rubio, L, Espinal, P, Rodriguez-Navarro, J, Gonzalez-Lopez, JJ, Muniesa, M, Navarro, F
Publicada:
1 abr 2019
Resumen:
Objectives Antimicrobial resistance genes (ARGs) can be transferred by means of mobile genetic elements, which play a critical role in the dissemination of resistance in the bacterial community. ARG transmission within mobile genetic elements has been reported in plasmids and transposons but less frequently in bacteriophages. Here, the bacteriophage fraction of seven human faecal samples was purified and deep-sequenced to detect the presence of ARGs in the phage particles.
Methods Seven faecal samples (five from healthy individuals and two from a patient before and after receiving ciprofloxacin treatment) were used to extract phage DNA, which was purified and then sequenced in a MiSeq (Illumina). Generated reads were checked for quality and assembled, and then the generated contigs analysed with Kraken, PHASTER, VirSorter and Prokka. Some genes were also validated by quantitative PCR.
Results Analysis of the purified phage DNA by Kraken identified from 4 to 266 viruses in the samples. The viral fraction corresponded mainly to the order Caudovirales, including phages from the Siphoviridae and Myoviridae families. Bacterial genes associated with antimicrobial resistance were detected in the viral DNA, as confirmed by quantitative PCR. Higher densities of ARG-carrying phage particles were observed in the post- versus pre-ciprofloxacin treatment sample.
Conclusions The finding of ARGs in phage particles supports the description of phages as mobile elements contributing to the dissemination of bacterial antibiotic resistance and suggests ciprofloxacin treatment may play a role in the release of ARG-carrying particles, thereby increasing resistance.
Filiaciones:
Fernandez-Orth, D:
Univ Barcelona, Hosp Clin, ISGlobal, Barcelona, Spain
Miro, E:
Hosp Santa Creu & Sant Pau, Inst Invest Biomed St Pau, Microbiol Serv, St Quinti 89, E-08041 Barcelona, Spain
Brown-Jaque, M:
Univ Barcelona, Dept Genet Microbiol & Stat, Diagonal 643,Floor 0, E-08028 Barcelona, Spain
Rodriguez-Rubio, L:
Univ Barcelona, Dept Genet Microbiol & Stat, Diagonal 643,Floor 0, E-08028 Barcelona, Spain
Espinal, P:
Hosp Santa Creu & Sant Pau, Inst Invest Biomed St Pau, Microbiol Serv, St Quinti 89, E-08041 Barcelona, Spain
Rodriguez-Navarro, J:
Hosp Santa Creu & Sant Pau, Inst Invest Biomed St Pau, Microbiol Serv, St Quinti 89, E-08041 Barcelona, Spain
Univ Autonoma Barcelona, Dept Genet & Microbiol, Barcelona, Spain
Gonzalez-Lopez, JJ:
Univ Autonoma Barcelona, Dept Genet & Microbiol, Barcelona, Spain
Hosp Valle De Hebron, Vall dHebron Inst Recerca VHIR, Dept Clin Microbiol, Pg Vall dHebron 119-129, Barcelona 08035, Spain
Muniesa, M:
Univ Barcelona, Dept Genet Microbiol & Stat, Diagonal 643,Floor 0, E-08028 Barcelona, Spain
Navarro, F:
Hosp Santa Creu & Sant Pau, Inst Invest Biomed St Pau, Microbiol Serv, St Quinti 89, E-08041 Barcelona, Spain
Univ Autonoma Barcelona, Dept Genet & Microbiol, Barcelona, Spain
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