Description of a new member of the family Erysipelotrichaceae : Dakotella fusiforme gen. nov., sp. nov., isolated from healthy human feces

• Published in: PeerJ (San Francisco, CA) Vol. 8; p. e10071
• Main Authors: Ghimire, Sudeep, Wongkuna, Supapit, Scaria, Joy
• Format: Journal Article
• Language: English
• Published: San Diego PeerJ. Ltd 05-10-2020; PeerJ, Inc; PeerJ Inc
• Subjects: Acetic acid; Clostridium; Culturomics; Dakotella fusiforme; Deoxyribonucleic acid; DNA; DNA sequencing; Ecology; Erysipelotrichaceae; Fatty acids; Feces; Gastroenterology and Hepatology; Genomes; Genomic taxonomy; Genomics; Gut microbiome; Microbiology; New species; Phylogenetics; Phylogeny; RNA; rRNA 16S; Taxonomy; United States > US
• ISSN: 2167-8359; 2167-8359
• DOI: 10.7717/peerj.10071

A Gram-positive, non-motile, rod-shaped facultative anaerobic bacterial strain SG502.sup.T was isolated from healthy human fecal samples in Brookings, SD, USA. The comparison of the 16S rRNA gene placed the strain within the family Erysipelotrichaceae. Within this family, Clostridium innocuum ATCC 14501.sup.T , Longicatena caecimuris strain PG-426-CC-2, Eubacterium dolichum DSM 3991.sup.T and E. tortuosum DSM 3987.sup.T (=ATCC 25548.sup.T ) were its closest taxa with 95.28%, 94.17%, 93.25%, and 92.75% 16S rRNA sequence identities respectively. The strain SG502.sup.T placed itself close to C. innocuum in the 16S rRNA phylogeny. The members of genus Clostridium within family Erysipelotrichaceae was proposed to be reassigned to genus Erysipelatoclostridium to resolve the misclassification of genus Clostridium. Therefore, C. innocuum was also classified into this genus temporarily with the need to reclassify it in the future because of its difference in genomic properties. Similarly, genome sequencing of the strain and comparison with its 16S phylogenetic members and proposed members of the genus Erysipelatoclostridium, SG502.sup.T warranted a separate genus even though its 16S rRNA similarity was >95% when comapred to C. innocuum. The strain was 71.8% similar at ANI, 19.8% [17.4-22.2%] at dDDH and 69.65% similar at AAI to its closest neighbor C. innocuum. The genome size was nearly 2,683,792 bp with 32.88 mol% G+C content, which is about half the size of C. innocuum genome and the G+C content revealed 10 mol% difference. Phenotypically, the optimal growth temperature and pH for the strain SG502.sup.T were 37°C and 7.0 respectively. Acetate was the major short-chain fatty acid product of the strain when grown in BHI-M medium. The major cellular fatty acids produced were C.sub.18:1 [omega]9c, C.sub.18:0 and C.sub.16:0 . Thus, based on the polyphasic analysis, for the type strain SG502.sup.T (=DSM 107282.sup.T = CCOS 1889.sup.T ), the name Dakotella fusiforme gen. nov., sp. nov., is proposed.