In vivo Microbiome Profiling of the Luminal and Mucosal Surface of the Duodenum Using a Cannulated Yearling Bovine Model

Stockler, Ricardo M.; Higgins, Keah V.; Hallowell, Haley; Groover, Erin S.; Hiltbold, Elizabeth M.; Newcomer, Benjamin W.; Walz, Paul H.

doi:10.3389/fvets.2020.601874

Cited by 2 publications

(2 citation statements)

References 34 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…These ndings strongly indicated greater microbial diversity at mucosal sites in the gut of oriental rat snakes. These results were consistent with previous ndings in studies of pigs [37], donkeys [38], and cattle [39], which revealed higher Chao1, Shannon, and ACE values in mucosal scrapings than in luminal contents. However, data from studies of humans [40] and chickens [15] suggest that microbial diversity is greater in intestinal contents than in mucosal samples.…”

Section: The Mucosal Microbiome Exhibits Greater Diversitysupporting

confidence: 93%

“…In macaques, Bacteroidetes was dominant in both luminal and mucosal microbiomes, whereas Firmicutes was more abundant in the luminal microbiome and Proteobacteria was more abundant in the mucosal microbiome [14,35]. In cattle, Firmicutes and Proteobacteria were more abundant in epimural biopsy samples, whereas Bacteroidetes and Proteobacteria were more abundant in luminal samples [34,39]. To our knowledge, no study has explored the mucosal microbiome in snakes, but there is evidence that dominant phyla in the snake microbiome are in uenced by many factors, including host species [25,27], venom secretion [29], gastrointestinal biogeography [30], and foraging pattern [31].…”

Section: The Mucosal Microbiome Exhibits Greater Diversitymentioning

confidence: 99%

See 1 more Smart Citation

Heterogeneity and Co-occurrence in the Luminal and Mucosal Gut Microbiomes and Metabolomes of Oriental Rat snake (Ptyas mucosus)

Wei

Zhou

Fang

et al. 2022

Preprint

View full text Add to dashboard Cite

Background The gut microbiomes of animals have been widely investigated, but the effects of sampling sites in the gastrointestinal tract remain unclear. Previous studies regarding the gastrointestinal biogeography of microbiomes generally focused on longitudinal comparisons, whereas few studies have compared luminal and mucosal microbiomes. Investigations of the snake gut microbiome have attracted interest because of the unique digestive physiology and hibernation behavior, but adequate sampling methods must be developed. Here, we used an omics approach combining 16S rRNA gene sequencing with untargeted metabolomics to profile the luminal and mucosal gut microbiomes and metabolomes in oriental rat snakes, with the goal of revealing the heterogeneity and co-occurrence at these sites. Results The α-diversity of the gut microbiome was significantly higher at mucosal sites than at luminal sites. Microbial composition also differed according to sampling site, with significant differences in the abundances of dominant phyla and genera, as well as β-diversity clustering and distribution. Metabolome profiling revealed differences that were mainly related to cholinergic substances and nucleic acids. Analysis of variations in Kyoto Encyclopedia of Genes and Genomes functions of microbes and metabolites showed that the mucosal microbiome was more frequently involved in genetic information processing and cellular processes, whereas the luminal microbiome generally participated in metabolic regulation. Notably, we found a greater abundance of the opportunistic pathogen genus Escherichia-Shigella at luminal sites, and higher levels of the lipid-regulator metabolite fenfluramine at mucosal sites. Despite the extensive differences between the two sampling sites, the results revealed similarities in terms of amplicon sequence variant composition and dominant core microbes. Conclusions Our results partly support the hypothesis that the luminal microbiome is associated with metabolism, whereas the mucosal microbiome mainly contributes to immune function. Although studies of the snake microbiome have been limited, this pilot exploration of luminal and mucosal microbiomes and metabolites provides key insights to guide future research.

show abstract