title: Rise of Microbial Culturomics: Noncontiguous Finished Genome Sequence and Description of Beduini massiliensis gen. nov., sp. nov.
abstract: Microbial culturomics is a new field of omics sciences that examines the bacterial diversity of human gut coupled with a taxono-genomic strategy. Using microbial culturomics, we report here for the first time a novel Gram negative, catalase- and oxidase-negative, strict anaerobic bacilli named Beduini massiliensis gen. nov., sp nov. strain GM1 (= CSUR P1440 = DSM 100188), isolated from the stools of a female nomadic Bedouin from Saudi Arabia. With a length of 2,850,586 bp, the Beduini massiliensis genome exhibits a G + C content of 35.9%, and contains 2819 genes (2744 protein-coding and 75 RNA genes including 57 tRNA and 18 rRNA genes). It is composed of 6 scaffolds (composed of 6 contigs). A total of 1859 genes (67.75%) were assigned a putative function (by COGs or by NR blast). At least 1457 (53%) orthologous proteins were not shared with the closest phylogenetic species. 274 genes (10.0%) were identified as ORFans. These results show that microbial culturomics can dramatically improve the characterization of the human microbiota repertoire, deciphering new bacterial species and new genes. Further studies will clarify the geographic specificity and the putative role of these new microbes and their related functional genetic content in health and disease. Microbial culturomics is an emerging frontier of omics systems sciences and integrative biology and thus, warrants further consideration as part of the postgenomics methodology toolbox.
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .|2 Regional Doctoral School of Central Africa , Franceville, Gabon .
authors.forename: Gaël
authors.initials: G
authors.lastname: Mourembou
authors.affiliation: 3 Special Infectious Agents Unit, King Fahd Medical Research Center , King Abdulaziz University , Jeddah, Saudi Arabia .
authors.forename: Muhammad
authors.initials: M
authors.lastname: Yasir
authors.affiliation: 3 Special Infectious Agents Unit, King Fahd Medical Research Center , King Abdulaziz University , Jeddah, Saudi Arabia .|4 Department of Medical Laboratory Technology, King Abdulaziz University , Jeddah, Saudi Arabia .
authors.forename: Esam Ibraheem
authors.initials: EI
authors.lastname: Azhar
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .
authors.forename: Jean Christophe
authors.initials: JC
authors.lastname: Lagier
authors.affiliation: 3 Special Infectious Agents Unit, King Fahd Medical Research Center , King Abdulaziz University , Jeddah, Saudi Arabia .
authors.forename: Fehmida
authors.initials: F
authors.lastname: Bibi
authors.affiliation: 5 Department of Medical Microbiology and Parasitology, King Abdulaziz University , Jeddah, Saudi Arabia .
authors.forename: Asif Ahmad
authors.initials: AA
authors.lastname: Jiman-Fatani
authors.affiliation: 6 Department of Obstetrics and Gynaecology, Suliman Fageeh Hospital , Jeddah, Saudi Arabia .
authors.forename: Nayel
authors.initials: N
authors.lastname: Helmy
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .
authors.forename: Catherine
authors.initials: C
authors.lastname: Robert
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .
authors.forename: Jaishriram
authors.initials: J
authors.lastname: Rathored
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .
authors.forename: Pierre-Edouard
authors.initials: PE
authors.lastname: Fournier
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .|3 Special Infectious Agents Unit, King Fahd Medical Research Center , King Abdulaziz University , Jeddah, Saudi Arabia .
authors.forename: Didier
authors.initials: D
authors.lastname: Raoult
authors.affiliation: 1 Aix Marseille University , URMITE, UM63, CNRS 7278, IRD 198, INSERM 1095, Marseille, France .
authors.forename: Matthieu
authors.initials: M
authors.lastname: Million
mesh_terms: D000328:Adult; D001407:Bacillus / Q000145:classification* / Q000187:drug effects / Q000235:genetics* / Q000648:ultrastructure; D005260:Female; D000069196:Gastrointestinal Microbiome; D016680:Genome, Bacterial; D023281:Genomics; D006801:Humans; D054892:Metagenome; D056186:Metagenomics / Q000379:methods; D010641:Phenotype; D010802:Phylogeny; D012336:RNA, Ribosomal, 16S / Q000235:genetics
chemical_list: D012336:RNA, Ribosomal, 16S