Overestimation of the abundance of sulfate-reducing bacteria in human feces by quantitative PCR targeting the Desulfovibrio 16S rRNA gene.

The dominant genus of sulfate-reducing bacteria (SRB) in humans is Desulfovibrio, and quantitative PCR (QPCR) targeting the 16S rRNA gene is often used in assays. We show that the 16S rRNA gene assay overestimated SRB abundance in feces from 24 adults compared to QPCR assays using primers targeting two genes involved in SRB energy metabolism.

Resistant starch, large bowel fermentation and a broader perspective of prebiotics and probiotics.

The metabolic end products of the large bowel microbiota contribute significantly to human health. After weaning to solid foods, some of the most important of these are the short chain fatty acids (SCFA) produced by the fermentation of undigested dietary components and endogenous secretions. The main SCFA are acetate, propionate and butyrate which have numerous documented effects promoting large bowel function. Of the major acids, butyrate seems especially important. It is a major metabolic fuel for colonocytes and promotes a normal phenotype in these cells, potentially lowering the risk of diseases such as colo-rectal cancer. Imbalances in the microbiota are thought to predispose to large bowel dysfunction and probiotics are being developed to correct this. However, most commercial products contain bacteria (lactobacilli and bifidobacteria) which are dominant species in milk-fed infants but have limited roles in adults. Prebiosis is defined usually by the specific stimulation of these bacteria. However, the end products of most probiotics do not include butyrate or propionate which raises questions about their effectiveness in promoting bowel health in adults. Resistant starch (RS) is a dietary fibre component and its fermentation generally favours butyrate production. Dietary RS intakes and faecal butyrate levels are high in populations at low risk of diet-related large bowel diseases. Conversely, RS intakes and faecal butyrate levels are very low in high risk groups. This raises the possibility that greater RS consumption could be of health benefit. RS is not regarded widely as a prebiotic but (according to the accepted definition) most forms show the requisite features in stimulating specific bacteria, giving raised total SCFA and butyrate levels and a consequent benefit to the host. Current efforts to improve public health through increasing RS consumption could be facilitated by greater recognition of its prebiotic role.

In vitro methane emission and acetate:propionate ratio are decreased when artificial stimulation of the rumen wall is combined with increasing grain diets in sheep.

The interaction of retention time in the rumen and concentrate diet on methane production in vitro and acetate:propionate ratio was examined. Twenty-four fistulated sheep were used in a complete factorial design with the sheep randomly divided into 4 groups. The sheep had a 5-wk acclimatization period on an oaten chaff diet, followed by two 3-wk diet phases. Two of the 4 groups were maintained on the oaten chaff diet for the duration of the experiment, with pot scrubbers added to the rumen of 1 of the 2 groups. The remaining 2 groups were offered a low-grain diet (35% grain) in the first diet phase followed by a high-grain diet (70% grain) in the second diet phase. Pot scrubbers were also added to the rumen of 1 of these 2 groups of grain-fed sheep. Pot scrubbers in combination with a low-grain diet decreased the amount of methane produced in vitro from 4.25 to 3.71 mmol/mL of digesta when compared with oaten chaff-fed sheep without pot scrubbers (P < 0.05). The acetate:propionate ratio was 1.6 in sheep fed a high-grain diet with pot scrubbers compared with 2.4 in sheep fed a high-grain diet without pot scrubbers in their rumen (P < 0.05). At high levels of grain, when employing a multivariate statistical analysis including all data, sheep given the combined treatment of grain and pot scrubbers were different from all other sheep groups in this experiment (P < 0.05). Furthermore, sheep fed a high-grain diet were different from sheep receiving the oaten chaff diets with and without pot scrubbers (P < 0.01 and P < 0.05, respectively). In conclusion, pot scrubbers combined with grain alter the rumen fermentation, and introducing pot scrubbers into the rumens of livestock consuming low levels of grain may be a way to lower methane emissions.