Journal: The ISME Journal

Article Title: Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

doi: 10.1038/ismej.2014.14

Figure Lengend Snippet: Known pathways for propionate formation in human gut bacteria. (P1), Succinate pathway; (P2), acrylate pathway; (P3), propanediol pathway. Substrates utilised are shown in boxes. Genes targeted as molecular markers for the specific pathways are indicated. DHAP, dihydroxyacetonephosphate; PEP, phosphoenolpyruvate.

Article Snippet: These bacteria are not reported to produce propionate ( R. obeum produces acetate, R. torques produces lactate and acetate and R. gnavus produces acetate and formate on PYG medium, Ezaki, 2009b ).

Techniques: Bacteria

Journal: The ISME Journal

Article Title: Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

doi: 10.1038/ismej.2014.14

Figure Lengend Snippet: Occurrence of genes diagnostic for different pathways of propionate and butyrate production in the genomes of dominant species of human colonic anaerobes

Article Snippet: These bacteria are not reported to produce propionate ( R. obeum produces acetate, R. torques produces lactate and acetate and R. gnavus produces acetate and formate on PYG medium, Ezaki, 2009b ).

Techniques: Diagnostic Assay, Sequencing

Journal: The ISME Journal

Article Title: Phylogenetic distribution of three pathways for propionate production within the human gut microbiota

doi: 10.1038/ismej.2014.14

Figure Lengend Snippet: Distribution of different pathways for propionate and butyrate formation in dominant human gut bacteria, based on genome searches of corresponding genes (Table 2; note that no sequence information is currently available for C. lactatifermentans), metagenomic mining (Figures 3 and ​and4)4) and validation of degenerate primers (Supplementary Table S1). C. lactatifermentans and M elsdenii originate from animal hosts (chicken and sheep, respectively). They are included as closely related bacteria are carriers of the acrylate pathway based on human metagenome mining (Figure 3). 16S rRNA sequences were obtained from the Ribosomal Database Project (Cole et al., 2009). Phylogenetic assignment—Lach.: Lachnospiraceae, Rum.: Ruminococcaceae, Neg.: Negativicutes, Ver.: Verrucomicrobia, Bact.: Bacteroidetes. P1–P3, B1–B2: Propionate and butyrate pathways as per Table 2. Question marks indicate the presence of genes with ⩾50% sequence identity (Table 2). As M. elsdenii is known to produce butyrate and A. munciniphila propionate, this has been taken into consideration for the assignment of pathways.

Article Snippet: These bacteria are not reported to produce propionate ( R. obeum produces acetate, R. torques produces lactate and acetate and R. gnavus produces acetate and formate on PYG medium, Ezaki, 2009b ).

Techniques: Bacteria, Sequencing, Biomarker Discovery