A fiber-deprived diet disturbs the fine-scale spatial architecture of the murine colon microbiome

Riva, Alessandra; Kuzyk, Orest; Forsberg, Erica M.; Siuzdak, Gary; Pfann, Carina; Herbold, Craig W.; Daims, Holger; Loy, Alexander; Warth, Benedikt; Berry, David

doi:10.1038/s41467-019-12413-0

Cited by 96 publications

(73 citation statements)

References 57 publications

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“… 17 , 29 Several epidemiological and experimental studies have shown that the health benefits of dietary fibers are related to the composition and function of the intestinal microbiota. 30–32 However, differences in the amount and type of plant derived polysaccharides associated either with short-term or life-long alterations of the microbiota make comparisons difficult. 33–35 For this reason, the current study specifically investigated the effects of cellulose, the most abundant dietary fiber, by feeding normal and gnotobiotic mice fiber-free diets or diets containing cellulose as only fiber source.…”

Section: Discussionmentioning

confidence: 99%

Dietary cellulose induces anti-inflammatory immunity and transcriptional programs via maturation of the intestinal microbiota

Fischer¹,

Romero²,

Hellhund³

et al. 2020

Gut Microbes

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Although it is generally accepted that dietary fiber is health promoting, the underlying immunological and molecular mechanisms are not well defined, especially with respect to cellulose, the most ubiquitous dietary fiber. Here, the impact of dietary cellulose on intestinal microbiota, immune responses and gene expression in health and disease was examined. Lack of dietary cellulose disrupted the age-related diversification of the intestinal microbiota, which subsequently remained in an immature state. Interestingly, one of the most affected microbial genera was Alistipes which is equipped with enzymes to degrade cellulose. Absence of cellulose changed the microbial metabolome, skewed intestinal immune responses toward inflammation, altered the gene expression of intestinal epithelial cells and mice showed increased sensitivity to colitis induction. In contrast, mice with a defined microbiota including A. finegoldii showed enhanced colonic expression of intestinal IL-22 and Reg3γ restoring intestinal barrier function. This study supports the epidemiological observations and adds a causal explanation for the health promoting effects of the most common biopolymer on earth.

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Section: Discussionmentioning

confidence: 99%

Dietary cellulose induces anti-inflammatory immunity and transcriptional programs via maturation of the intestinal microbiota

Fischer¹,

Romero²,

Hellhund³

et al. 2020

Gut Microbes

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show abstract

“…The authors revealed that anaerobe classes such as Clostridia, Bacteroidia and Fusobacteria peaked in the summer months and then declined in winter, while, in most cases, facultative anaerobes like LAB showed an inverse trend. Moreover, variations in gut microbial community abundance could be not only affected by seasonal factors but also related to fish physiology and diet 79,80 . In addition, in the present study the reduction of the oxygen level in the environment may have contributed to the modulation of gut microbiota favouring the presence of obligate anaerobic Firmicutes such as Clostridiales.…”

Section: Discussionmentioning

confidence: 99%

Effects of dietary organic acids and nature identical compounds on growth, immune parameters and gut microbiota of European sea bass

Busti

Rossi²,

Volpe

et al. 2020

Sci Rep

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A 71-day study was conducted to explore the effect of increasing dietary levels (0, 250, 500, 1000 mg kg feed−1; D0, D250, D500 and D1000, respectively) of a blend of microencapsulated organic acids (OA, specifically citric and sorbic acid) and nature identical compounds (NIC, specifically thymol and vanillin), on growth, intestinal immune parameters and gut microbiota (GM) of European sea bass juveniles reared under normal and subsequently suboptimal environmental conditions (high temperature, 30.0 ± 0.4 °C and low oxygen, 4.6 ± 0.6 mg L−1). OA and NIC did not promote growth, feed utilisation and feed intake at the inclusion tested but induced a significantly upregulation of IL-8, IL-10 and TGFβ. GM analyzed by next-generation sequencing showed that OA and NIC were able to exert prebiotic properties stimulating the development of beneficial bacteria taxa such as Lactobacillus, Leuconostoc, and Bacillus sp. Picrust analyses displayed a significant potential functional reconfiguration of GM promoting a decrease in inflammation-promoting and homeostatic functions at increasing OA and NIC administration. For the first time on this species the exposure to suboptimal rearing conditions was able to modify GM structure reducing LAB and increasing Proteobacteria, findings which were consistent with the inflammatory process observed at mRNA level.

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“…5a). At the time of BacMix and BacMixC administration, the mouse diet was switched from a standard diet (V1124-300; Ssniff, Soest, Germany) to a isocaloric polysaccharide-deficient chow 76 with sucrose but no cellulose or starch (Ssniff, Soest, Germany). For the BacMixC adoptive transfer, each mouse (n = 10 per group) received 5,000,000 CFU of a 3-bacteria suspension (BacMixC, containing equal numbers of Anaerotruncus sp.…”

Section: Methodsmentioning

confidence: 99%

Rational design of a microbial consortium of mucosal sugar utilizers reduces Clostridiodes difficile colonization

et al. 2020

Self Cite

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Many intestinal pathogens, including Clostridioides difficile, use mucus-derived sugars as crucial nutrients in the gut. Commensals that compete with pathogens for such nutrients are therefore ecological gatekeepers in healthy guts, and are attractive candidates for therapeutic interventions. Nevertheless, there is a poor understanding of which commensals use mucin-derived sugars in situ as well as their potential to impede pathogen colonization. Here, we identify mouse gut commensals that utilize mucus-derived monosaccharides within complex communities using single-cell stable isotope probing, Raman-activated cell sorting and mini-metagenomics. Sequencing of cell-sorted fractions reveals members of the underexplored family Muribaculaceae as major mucin monosaccharide foragers, followed by members of Lachnospiraceae, Rikenellaceae, and Bacteroidaceae families. Using this information, we assembled a five-member consortium of sialic acid and N-acetylglucosamine utilizers that impedes C. difficile’s access to these mucosal sugars and impairs pathogen colonization in antibiotic-treated mice. Our findings underscore the value of targeted approaches to identify organisms utilizing key nutrients and to rationally design effective probiotic mixtures.

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A fiber-deprived diet disturbs the fine-scale spatial architecture of the murine colon microbiome

Cited by 96 publications

References 57 publications

Dietary cellulose induces anti-inflammatory immunity and transcriptional programs via maturation of the intestinal microbiota

Dietary cellulose induces anti-inflammatory immunity and transcriptional programs via maturation of the intestinal microbiota

Effects of dietary organic acids and nature identical compounds on growth, immune parameters and gut microbiota of European sea bass

Rational design of a microbial consortium of mucosal sugar utilizers reduces Clostridiodes difficile colonization

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