HPV is known to be the causal agent in the majority of cervical cancers. However, the role of the cervical bacterial microbiome in cervical cancer is not clear. To investigate that possibility, we collected cervical cytobrush samples from 144 Tanzanian women and performed deep sequencing of bacterial 16S rRNA genes. We found that HIV-positive patients had greater bacterial richness (P = 0.01) than HIV-negative patients. We also observed that women with high-grade squamous intraepithelial lesions (HSIL) had greater cervical bacterial diversity than women with cytologically normal cervices. Data from our precise sampling of cervical lesions leads us to propose that Mycoplasma contributes to a cervical microbiome status that promotes HPV-related cervical lesions. These results suggest a greater influence of the bacterial microbiota on the outcome of HPV infection than previously thought.

Twenty Holstein cows, 12 primiparous and 8 multiparous, with (mean ± SD) 91 ± 19 d in milk and 595 ± 81 kg were used in replicated 4 × 4 Latin squares to compare the effects of feeding conventional dried distillers grains with solubles (DDGS) and reduced-fat DDGS (RFDDGS) in combination with rumen-inert fat (RIF) on milk production and rumen fermentation; one square contained rumen cannulated animals for rumen measurements. In each 21-d period, cows were randomly assigned to 1 of 4 dietary treatments (values on a dry matter basis): (1) control (CON) that contained 0% DDGS; (2) DG contained 30% DDGS; (3) RFDG contained 30% RFDDGS in substitution of DDGS; and (4) RFDG+RIF was similar to RFDG with the addition of 1.9% RIF. Unlike most practical diets in the dairy field, our diets had <22% forage neutral detergent fiber and >18.0% crude protein. Dry matter intake was similar across treatments with any form of DDGS averaging 26.0 ± 0.6 kg/d, whereas the CON diet resulted in less dry matter intake, 21.6 ± 0.6 kg/d. Milk yield tended to be 1.7 kg/d greater for diets with either type of DDGS. Concentration of milk protein was greatest for the DG and RFDG diets, intermediate for the RFDG+RIF diet, and least for the CON diet, namely 3.22, 3.21, 3.12, and 3.07 ± 0.05%. Reduced milk fat percentage and yield were observed when cows consumed the DG diet, 3.27 ± 0.10% and 1.11 ± 0.04 kg/d, respectively, whereas these responses were similar among CON, RFDG, and RFDG+RIF, which averaged 3.68 ± 0.10% and 1.22 ± 0.04 kg/d. The presence of trans-10,cis-12 conjugated linoleic acid was only detected in milk from cows consuming the DG diet; similarly, concentration and yield of trans-10 18:1 were greater for cows consuming this diet. Rumen ammonia was similar across treatments averaging 27.0 ± 2.1mg/dL. The CON and RFDG+RIF diets had similar mean pH, 6.1 ± 0.11, whereas DG and RFDG resulted in lower pH averaging 5.79 ± 0.11. No effect on total concentration of volatile fatty acids was observed; the overall mean was 121 ± 4.11 mM; molar proportion of acetate was affected by treatment resulting in 67.3, 63.2, 61.4, and 60.9 ± 0.93 mol/100 mol for CON, RFDG+RIF, RFDG, and DG, respectively. Results from DNA sequencing showed that rumen bacterial community structure was relatively stable with minor changes at the family and genus levels; these changes may be associated with low starch diets, and hence reduced amylolytic bacteria populations. Feeding high proportions of RFDDGS resulted in greater dry matter intake with low risk for milk fat depression while supporting ruminal fermentation.

A variety of microorganisms inhabit the gastrointestinal tract of animals including bacteria, archaea, fungi, protozoa, and viruses. Pioneers in gut microbiology have stressed the critical importance of diet:microbe interactions and how these interactions may contribute to health status. As scientists have overcome the limitations of culture-based microbiology, the importance of these interactions has become more clear even to the extent that the gut microbiota has emerged as an important immunologic and metabolic organ. Recent advances in metagenomics and metabolomics have helped scientists to demonstrate that interactions among the diet, the gut microbiota, and the host to have profound effects on animal health and disease. However, although scientists have now accumulated a great deal of data with respect to what organisms comprise the gastrointestinal landscape, there is a need to look more closely at causative effects of the microbiome. The objective of this review is intended to provide: 1) a review of what is currently known with respect to the dynamics of microbial colonization of the porcine gastrointestinal tract; 2) a review of the impact of nutrient:microbe effects on growth and health; 3) examples of the therapeutic potential of prebiotics, probiotics, and synbiotics; and 4) a discussion about what the future holds with respect to microbiome research opportunities and challenges. Taken together, by considering what is currently known in the four aforementioned areas, our overarching goal is to set the stage for narrowing the path towards discovering how the porcine gut microbiota (individually and collectively) may affect specific host phenotypes.

The objectives of this study were to evaluate the effect of dried distillers grains with solubles (DDGS) on ruminal biohydrogenation and duodenal flow of fatty acids, and to evaluate effects on the ruminal and duodenal microbial community using Roche 454 pyro-sequencing. Three crossbred steers (average BW 780 ± 137 kg) fitted with ruminal and duodenal cannulae were used in a 3-diet, 6-period crossover design. Animals were housed in individual free stalls and fed twice daily at 0700 and 1900 h. Diets (DM basis) were 1) CONTROL, 19.5% corn bran, 20% sorghum silage, 60% brome hay, 0.5% trace minerals, and 0.25% urea, but no DDGS; 2) LOW DDGS, inclusion of 9.75% DDGS replacing equal percentage of corn bran; 3) HIGH DDGS, inclusion of 19.5% DDGS completely replacing corn bran. Feed ingredients and duodenal digesta samples were analyzed for fatty acid composition. The DNA was extracted from isolated mixed ruminal bacterial samples and from intestinal digesta samples. The V1-V3 region of the 16S rRNA gene was sequenced, and bacterial phylogenetic analysis was conducted. Data were analyzed using the MIXED procedure of SAS. Biohydrogenation of C18:1 increased (P < 0.01) with DDGS inclusion; means were 68.3, 75.6, and 79.3 ± 4.3% for CONTROL, LOW DDGS, and HIGH DDGS, respectively. In the same order, means of biohydrogenation of C18:2 (P < 0.05) were 84.1, 91.5, and 93.3 ± 3.4%. Duodenal flow of total fatty acids increased (P < 0.01) with DDGS inclusion; means were 134, 168, and 223 ± 33 g/d for CONTROL, LOW DDGS, and HIGH DDGS, respectively. In the same order, means of C18:0 flow (P < 0.01) were 51, 86, and 121 ± 18 g/d. DDGS did not affect the predominant bacterial phyla in the gut, which were Bacteroidetes (P = 0.62) and Firmicutes (P = 0.71). However, the phylum Fibrobacteres decreased (P < 0.01) when DDGS was fed with means of 5.5, 6.0 and 3.7 ± 0.6% for CONTROL, LOW DDGS, and HIGH DDGS, respectively. Fibrobacteres were lower (P < 0.01) in isolated ruminal bacterial samples compared to duodenal digesta samples with means of 0.1 and 10.1 ± 0.6%, respectively. Overall, the inclusion of DDGS in diets increased ruminal biohydrogenation of C18:1 and C18:2, which increased duodenal flow of C18:0. In addition, the bacterial community of the rumen clustered separately from that of the duodenum suggesting different bacterial diversity between isolated ruminal bacteria and duodenal digesta.

Aims: The effect of feeding dried distillers grains with solubles (DDGS) or reduced-fat DDGS (RFDG) on ruminal methanogenesis and the rumen bacterial community of dairy cattle was evaluated. Methods and Results: Treatments were CONT, a diet with no distillers grains; DG, inclusion of 20% DDGS; rfDG, inclusion of 20% RFDG; and MIX, inclusion of 10% DDGS and 10% RFDG. Methane emission was measured; rumen bacterial community was evaluated by sequencing the V4 region of the 16S rRNA gene. Total methane production remained unaffected. However, feeding distillers grains tended to reduce methanogenesis per unit of feed intake, decreased the abundance of the phylum Bacteroidetes and tended to increase Firmicutes. The abundance of Prevotellaceae positively correlated with feed intake; methane emission was positively correlated with the abundance of Prevotellaceae and was negatively correlated with the abundance of Succinivibrionaceae. Conclusions: DDGS or RFDG may reduce methanogenesis per unit of feed intake; shifts in the abundance of predominant ruminal bacterial families may influence methane formation, likely because of their role on hydrogen liberation and utilization pathways. Significance and Impact of the Study: Replacing corn and soybean meal with DDGS or RFDG in dairy rations may reduce the proportion of dietary energy wasted as methane, without detrimental effects on the overall bacterial population.