Culturomics: bacterial species isolated in 3 healthy donors for faecal microbiota transplantation in Clostridium difficile infection

Abstract

SummaryBackground. Clostridium difficile infections are the main cause of nosocomial acquired diarrhea, because of prolonged antibiotic regimens. In the last years, mortality has increased due to recurrent infections caused by metronidazole and vancomicin resistant hypervirulent C. difficile strain 027. Faecal Microbiota Transplantation (FMT) is an infusion of faecal material obtained from healthy donors. This procedure reduces mortality in recurrent C. difficile infections (CDI). In this study we identified bacterial species obtained from donors' stool samples using culturomics.Materials and methods. Three donors were selected for FMT in three recipients affected by CDI. Faces obtained for FMT underwent culturomics, applying 17 different culture methods.Results and conclusions. Several different bacteria were isolated from donors. In two donors 4 potentially pathogenic bacteria were isolated; this suggests the use of culturomics for donors' screening or for selection of bacteria to infuse.

A Literature Review of Metagenomics and Culturomics of the Peri-implant Microbiome: Current Evidence and Future Perspectives

“…Culturomics consists of the use of different culture conditions and of the identification by matrix-assisted laser desorption ionization–time of flight mass spectrometry (MALDI–TOF MS) with the aim of increasing the bacterial repertoire [54,55].…”

“…The first aim of culturomics was to provide different culture conditions with the aim of promoting the growth of fastidious bacteria living in the human gut [55]. Culture media were improved using blood and rumen fluid in blood culture bottles and the growth of minority populations was promoted [41].…”

Culturomics and metagenomics: In understanding of environmental resistome

“…Culturomics, coupled with a taxonogenomic strategy, has aided in the mapping of the microbial diversity of the human gut. Masucci et al (2017) described culturomics as an approach of culture conditions, originally applied to study living bacterial populations considered as unculturable. Most importantly, culturomics was introduced to optimize culture conditions and to show that the term "uncultivable organism" is misleading, since all microorganisms are cultivable using the right conditions and tools (Bilen et al, 2018).…”

“…In culturomics research, various culture conditions are applied: various broth and solid media, blood culture bottles, selective agar media, different temperatures and times of incubation from a few days to months, various pH, oxygen and pressure sensitivity. To date, culturomics analysis has been used in taxonomic identification of clinical microbes and in the discovery of new species (Khelaifia et al, 2016;Masucci et al, 2017;Bilen et al, 2018;Seck et al, 2018). reported the description of a new bacterial species using culturomics.…”

“…nov. In the study of Masucci et al (2017), culturomics was used for isolation of Clostridium difficile from faecal samples obtained from healthy donors of faecal microbiota transplantation (FMT). Further, Seck et al (2018) used a culturomics study to isolate the halophilic bacterium Bacillus saliss sp.…”