{"database":"biostudies-literature","file_versions":[],"scores":{"citationCount":0,"reanalysisCount":0,"viewCount":46,"searchCount":0},"additional":{"omics_type":["Unknown"],"volume":["10"],"submitter":["Naud S"],"pubmed_abstract":["Culturomics, a high throughput culture method with rapid identification of the colonies by Matrix Assisted Laser Desorption Ionization/Time Of Flight Mass Spectrometry (MALDI-TOF MS), has demonstrated its contribution to the exploration of the gut microbiota over the past 10 years. However, the cost, work time and workload, considerably limit its use on a large scale or emergency context. Here, by testing two different stool samples, including a stool sample from a patient requiring rapid immunotherapy treatment, we tested a new fast culturomic protocol using two pre-incubation media, blood culture bottle and YCFA modified medium. Both media were supplemented with 2 ml of rumen fluid filtered at 0.2 ?m and 2 ml of defibrinated and sterile sheep blood. Unlike the standard culturomics, subculturing of blood culture bottle were performed at reduced incubation time (3 h, 6 h, 9 h, 24 h) and at a longer incubation time (3 days, 7 days, and 10 days) at 37°C. By testing 5,200 colonies per MALDI-TOF MS and obtaining a comparable number of cultured bacterial species (131 to 143) in a stool sample, this new protocol reduced the number of colonies tested by 57%, working time by 78.6% and cost by 72.2%. In addition, we highlighted that the proportion of strict anaerobic species has increased by 24%, known to be the preferential targets for biotherapy, including <i>Faecalibacterium prausnitzii</i>, <i>Akkermansia muciniphila, Christensenella minuta</i>, and <i>Phascolarctobacterium faecium.</i> Finally, this work showed that some bacterial species grew earlier but disappeared with prolonged incubation times."],"journal":["Frontiers in cellular and infection microbiology"],"pagination":["524769"],"full_dataset_link":["https://www.ebi.ac.uk/biostudies/studies/S-EPMC7719802"],"repository":["biostudies-literature"],"pubmed_title":["Proof of Concept of Culturomics Use of Time of Care."],"pmcid":["PMC7719802"],"pubmed_authors":["Lagier JC","Naud S","Mbogning Fonkou MD","Khelaifia S","Dione N","Raoult D"],"view_count":["46"],"additional_accession":[]},"is_claimable":false,"name":"Proof of Concept of Culturomics Use of Time of Care.","description":"Culturomics, a high throughput culture method with rapid identification of the colonies by Matrix Assisted Laser Desorption Ionization/Time Of Flight Mass Spectrometry (MALDI-TOF MS), has demonstrated its contribution to the exploration of the gut microbiota over the past 10 years. However, the cost, work time and workload, considerably limit its use on a large scale or emergency context. Here, by testing two different stool samples, including a stool sample from a patient requiring rapid immunotherapy treatment, we tested a new fast culturomic protocol using two pre-incubation media, blood culture bottle and YCFA modified medium. Both media were supplemented with 2 ml of rumen fluid filtered at 0.2 ?m and 2 ml of defibrinated and sterile sheep blood. Unlike the standard culturomics, subculturing of blood culture bottle were performed at reduced incubation time (3 h, 6 h, 9 h, 24 h) and at a longer incubation time (3 days, 7 days, and 10 days) at 37°C. By testing 5,200 colonies per MALDI-TOF MS and obtaining a comparable number of cultured bacterial species (131 to 143) in a stool sample, this new protocol reduced the number of colonies tested by 57%, working time by 78.6% and cost by 72.2%. In addition, we highlighted that the proportion of strict anaerobic species has increased by 24%, known to be the preferential targets for biotherapy, including <i>Faecalibacterium prausnitzii</i>, <i>Akkermansia muciniphila, Christensenella minuta</i>, and <i>Phascolarctobacterium faecium.</i> Finally, this work showed that some bacterial species grew earlier but disappeared with prolonged incubation times.","dates":{"release":"2020-01-01T00:00:00Z","publication":"2020","modification":"2021-02-20T16:46:13Z","creation":"2021-02-20T16:46:13Z"},"accession":"S-EPMC7719802","cross_references":{"pubmed":["33330116"],"doi":["10.3389/fcimb.2020.524769"]}}