Lactobacillus saniviri sp. nov. and Lactobacillus senioris sp. nov., isolated from human faeces

Oki, Kaihei; Kudo, Yotaro; Watanabe, Koichi

doi:10.1099/ijs.0.031658-0

Cited by 45 publications

(34 citation statements)

References 21 publications

(21 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…A BLAST search of CDD59473 against the nonredundant database revealed amino acid sequences (61 to 59% identity) that cluster with CDD59473 encoded by Lactobacillus spp. isolated from the gut of pigeon, such as L. agilis (KRM65245.1 and WP_050611824.1) and L. ingluviei (WP_019206370.1 and KRL88436.1) (31, 32), L. hayakitensis (WP_025022266.1 and KRM19149.1) from healthy equine (33), L. saniviri isolated form human feces (34), and L. curvatus isolated from kimchi (WP_089557116.1 and WP_085844664.1) (35) (Fig. 5).…”

Section: Resultsmentioning

confidence: 99%

Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3α-, 3β-, and 12α-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence

Mythen

Devendran

Méndez–García³

et al. 2018

Appl Environ Microbiol

View full text Add to dashboard Cite

Gut metagenomic sequences provide a rich source of microbial genes, the majority of which are annotated by homology or unknown. Genes and gene pathways that encode enzymes catalyzing biotransformation of host bile acids are important to identify in gut metagenomic sequences due to the importance of bile acids in gut microbiome structure and host physiology. Hydroxysteroid dehydrogenases (HSDHs) are pyridine nucleotide-dependent enzymes with stereospecificity and regiospecificity for bile acid and steroid hydroxyl groups. HSDHs have been identified in several protein families, including medium-chain and short-chain dehydrogenase/reductase families as well as the aldo-keto reductase family. These protein families are large and contain diverse functionalities, making prediction of HSDH-encoding genes difficult and necessitating biochemical characterization. We located a gene cluster in sp. CAG:298 predicted to encode three HSDHs (CDD59473, CDD59474, and CDD59475) and synthesized the genes for heterologous expression in We then screened bile acid substrates against the purified recombinant enzymes. CDD59475 is a novel 12α-HSDH, and we determined that CDD59474 (3α-HSDH) and CDD59473 (3β-HSDH) constitute novel enzymes in an iso-bile acid pathway. Phylogenetic analysis of these HSDHs with other gut bacterial HSDHs and closest homologues in the database revealed predictable clustering of HSDHs by function and identified several likely HSDH sequences from bacteria isolated or sequenced from diverse mammalian and avian gut samples. Bacterial HSDHs have the potential to significantly alter the physicochemical properties of bile acids, with implications for increased/decreased toxicity for gut bacteria and the host. The generation of oxo-bile acids is known to inhibit host enzymes involved in glucocorticoid metabolism and may alter signaling through nuclear receptors such as farnesoid X receptor and G-protein-coupled receptor TGR5. Biochemical or similar approaches are required to fill in many gaps in our ability to link a particular enzymatic function with a nucleic acid or amino acid sequence. In this regard, we have identified a novel 12α-HSDH and a novel set of genes encoding an iso-bile acid pathway (3α-HSDH and 3β-HSDH) involved in epimerization and detoxification of harmful secondary bile acids.

show abstract

Section: Resultsmentioning

confidence: 99%

Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3α-, 3β-, and 12α-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence

Mythen

Devendran

Méndez–García³

et al. 2018

Appl Environ Microbiol

View full text Add to dashboard Cite

show abstract

“…Naser et al (2007) examined the differentiating power of the pheS and rpoA partial gene sequences on the basis of 201 well-characterized strains representing 98 species and 17 subspecies of the genus Lactobacillus from different origins. In the L. buchneri group, their high resolution has been verified in several different cases (Vancanneyt et al , 2005, 2006; Oki et al , 2012). With primers rpoA-21-F and rpoA-23-R, we amplified and sequenced a 821 bp rpoA gene from strain CCTCC M 2011381 T .…”

mentioning

confidence: 88%

Lactobacillus curieae sp. nov., isolated from stinky tofu brine

Xiao

Sun

Xie

et al. 2013

International Journal of Systematic and Evolutionary Microbiology

View full text Add to dashboard Cite

A lactic acid bacterium, strain CCTCC M 2011381 T , isolated from the brine of the traditional Chinese snack, stinky tofu, was studied to determine its taxonomic position. It was a Gram-stainpositive, non-motile, facultatively anaerobic rod-shaped bacterium that did not exhibit catalase activity. The DNA G+C content of the strain was 44.1 % and its peptidoglycan was characterized by the presence of meso-diaminopimelic acid. Levels of 16S rRNA gene sequence similarity between strain CCTCC M 2011381 T and the most closely related species Lactobacillus senioris JCM 17472 T , Lactobacillus parafarraginis JCM 14109 T and Lactobacillus diolivorans JCM 12183 T were 96.5, 96.4 and 96.4 %, respectively. Combined with data from high-resolution genomic markers recA, rpoA and pheS, strain CCTCC M 2011381 T was classified as representing a novel species. The strain could also be distinguished from other related species of the genus Lactobacillus by its physiological and biochemical characteristics. Based on the phylogenetic, physiological and biochemical data, it is proposed that the new isolate can be classified as representing a novel species of the genus Lactobacillus, for which the name Lactobacillus curieae sp. nov. (type strain CCTCC M 2011381 T 5S1L19 T 5JCM 18524 T ) is proposed.

show abstract

“…Nevertheless, new Lactobacillu s spp. from human gastrointestinal tract are still being reported ( Roos et al , 2005 ; Oki et al , 2012 ), indicating that even the 38 known gastrointestinal Lactobacillus sp. (Fig.…”

Section: Introduction – a Historical Perspectivementioning

confidence: 99%

The first 1000 cultured species of the human gastrointestinal microbiota

2014

View full text Add to dashboard Cite

The microorganisms that inhabit the human gastrointestinal tract comprise a complex ecosystem with functions that significantly contribute to our systemic metabolism and have an impact on health and disease. In line with its importance, the human gastrointestinal microbiota has been extensively studied. Despite the fact that a significant part of the intestinal microorganisms has not yet been cultured, presently over 1000 different microbial species that can reside in the human gastrointestinal tract have been identified. This review provides a systematic overview and detailed references of the total of 1057 intestinal species of Eukarya (92), Archaea (8) and Bacteria (957), based on the phylogenetic framework of their small subunit ribosomal RNA gene sequences. Moreover, it unifies knowledge about the prevalence, abundance, stability, physiology, genetics and the association with human health of these gastrointestinal microorganisms, which is currently scattered over a vast amount of literature published in the last 150 years. This detailed physiological and genetic information is expected to be instrumental in advancing our knowledge of the gastrointestinal microbiota. Moreover, it opens avenues for future comparative and functional metagenomic and other high-throughput approaches that need a systematic and physiological basis to have an impact.

show abstract

Lactobacillus saniviri sp. nov. and Lactobacillus senioris sp. nov., isolated from human faeces

Cited by 45 publications

References 21 publications

Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3α-, 3β-, and 12α-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence

Targeted Synthesis and Characterization of a Gene Cluster Encoding NAD(P)H-Dependent 3α-, 3β-, and 12α-Hydroxysteroid Dehydrogenases from Eggerthella CAG:298, a Gut Metagenomic Sequence

Lactobacillus curieae sp. nov., isolated from stinky tofu brine

The first 1000 cultured species of the human gastrointestinal microbiota

Contact Info

Product

Resources

About