Collateral damage from oral ciprofloxacin versus nitrofurantoin in outpatients with urinary tract infections: A culture-free analysis of gut microbiota

A. J. Stewardson, N. Gaïa, P. François, Surbhi Malhotra-Kumar, C. Delémont, B. Martinez de Tejada, Jacques Schrenzel, Stephan Harbarth, V. Lazarevic, Jascha Vervoort, Christine Lammens, Niels Adriaenssens, Samuel Coenen, Herman Goossens, Anna Kowalczyk, Maciek Godycki-Cwirko, Caroline Brossier, Benedikt Huttner, for the SATURN WP1 and WP3 Study Groups

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Abstract

Recent treatment guidelines for uncomplicated urinary tract infections (UTIs) discourage fluoroquinolone prescription because of collateral damage to commensal microbiota, but the ecologic impact of alternative agents has not been evaluated by culture-free techniques. We prospectively collected faecal samples at three time points from ambulatory patients with UTIs treated with ciprofloxacin or nitrofurantoin, patients not requiring antibiotics and household contacts of ciprofloxacin-treated patients. We described changes in gut microbiota using a culture-independent approach based on pyrosequencing of the V3-V4 region of the bacterial 16S rRNA gene. All groups were similar at baseline. Ciprofloxacin had a significant global impact on the gut microbiota whereas nitrofurantoin did not. The end of ciprofloxacin treatment correlated with a reduced proportion of Bifidobacterium (Actinobacteria), Alistipes (Bacteroidetes) and four genera from the phylum Firmicutes (Faecalibacterium, Oscillospira, Ruminococcus and Dialister) and an increased relative abundance of Bacteroides (Bacteroidetes) and the Firmicutes genera Blautia, Eubacterium and Roseburia. Substantial recovery had occurred 4 weeks later. Nitrofurantoin treatment correlated with a reduced relative proportion of the genus Clostridium and an increased proportion of the genus Faecalibacterium. This study supports use of nitrofurantoin over fluoroquinolones for treatment of uncomplicated UTIs to minimize perturbation of intestinal microbiota.

Original languageEnglish
Pages (from-to)344.e1-344.e11
Number of pages11
JournalClinical Microbiology and Infection
Volume21
Issue number4
DOIs
Publication statusPublished - 1 Apr 2015
Externally publishedYes

Keywords

  • Antibiotics
  • Ecologic damage
  • Microbiomics
  • Microbiota
  • Urinary tract infection

Cite this

Stewardson, A. J., Gaïa, N., François, P., Malhotra-Kumar, S., Delémont, C., Martinez de Tejada, B., Schrenzel, J., Harbarth, S., Lazarevic, V., Vervoort, J., Lammens, C., Adriaenssens, N., Coenen, S., Goossens, H., Kowalczyk, A., Godycki-Cwirko, M., Brossier, C., Huttner, B., & for the SATURN WP1 and WP3 Study Groups (2015). Collateral damage from oral ciprofloxacin versus nitrofurantoin in outpatients with urinary tract infections: A culture-free analysis of gut microbiota. Clinical Microbiology and Infection, 21(4), 344.e1-344.e11. https://doi.org/10.1016/j.cmi.2014.11.016