This grant is based on several central postulates: (1) diet and nutritional status are among the most important, modifiable determinants of global human health;(2) the nutritional value of food is not an absolute entity, but rather a relative term influenced in part by a person's gut microbiota and microbiome;(3) there is a dynamic interrelationship between diet and the structure and operations of our gut microbiota/microbiomes;(4) the gut microbiota and its microbiome should be considered as factors in our energy balance equation and thus interpersonal variations in the structure and operations of this community may affect risk for development of obesity (or malnutrition);(5) the gut microbiota, and the host genes it manipulates to modulate nutrient processing/energy balance are attractive targets for treatment or prevention of obesity, and for a more informed, more personalized era of human nutrition. DK70977 has 2 specific aims.
Aim 1 - Use a randomized factorial diet oscillation study design, elaborated based on successive rounds of data modeling, where diets with systematically altered carbohydrate, protein and fat content are sequentially presented, in varied order, to individual gnotobiotic mice harboring a defined consortia of sequenced human gut microbes, with and without hydrogen-consuming methanogens, acetogens and sulfate reducing bacteria, and the effects on microbial community composition, gene expression, and metabolism are determined using a variety of methods centered around the massively parallel Illumina GA-II DNA sequencer [multiplex shotgun sequencing of random genomic fragments generated from fecal DNA to quantify community membership;sequencing of cDNA, generated from rRNA-depleted community RNA preparations (microbial RNASeq)], and RNASeq-informed metabolite quantification.
Aim 2 - Use animals from Aim 1 to study the impact of diet, and the representation and metabolic activities of hydrogen consumers, on energy extraction from food, host energy balance (using serial physiological profiling methods within gnotobiotic isolators), and intestinal expression of G-protein coupled receptors plus genes affected by products emanating from sulfate reducing bacteria. The proposed proof-of-principle/proof-of-mechanism experiments should help efforts to develop new ways for assessing nutritional status, for making nutritional recommendations, and for determining whether targeted manipulation of the representation or metabolic activities of hydrogen-consuming gut microbes would provide a safe and effective means for controlling energy and nutrient flux from diet to host.

Public Health Relevance

Diet and nutritional status are among the most important, modifiable determinants of global human health. The nutritional value of food is not an absolute entity, but rather is influenced in part by the collection of microbes present in our intestines. This grant uses methods based on a revolutionary new field of microbiology, known as metagenomics, plus mice colonized with members of the human gut microbial community, to determine whether components of this community known as hydrogen consumers play a key role in shaping how our gut functions to extract nutrients and energy from the food we eat. The proposed experiments should help develop new ways for assessing our nutritional status, for making nutritional recommendations, and for determining whether deliberate manipulation of the representation or metabolic activities of these hydrogen-consuming gut microbes will provide a safe and effective way for treating and preventing obesity.

Agency
National Institute of Health (NIH)
Institute
National Institute of Diabetes and Digestive and Kidney Diseases (NIDDK)
Type
Research Project (R01)
Project #
5R01DK070977-10
Application #
8683155
Study Section
Gastrointestinal Mucosal Pathobiology Study Section (GMPB)
Program Officer
Karp, Robert W
Project Start
2005-08-01
Project End
2015-05-31
Budget Start
2014-06-01
Budget End
2015-05-31
Support Year
10
Fiscal Year
2014
Total Cost
$323,532
Indirect Cost
$110,682
Name
Washington University
Department
Pathology
Type
Schools of Medicine
DUNS #
068552207
City
Saint Louis
State
MO
Country
United States
Zip Code
63130
Ahern, Philip P; Faith, Jeremiah J; Gordon, Jeffrey I (2014) Mining the human gut microbiota for effector strains that shape the immune system. Immunity 40:815-23
Seedorf, Henning; Griffin, Nicholas W; Ridaura, Vanessa K et al. (2014) Bacteria from diverse habitats colonize and compete in the mouse gut. Cell 159:253-66
Faith, Jeremiah J; Ahern, Philip P; Ridaura, Vanessa K et al. (2014) Identifying gut microbe-host phenotype relationships using combinatorial communities in gnotobiotic mice. Sci Transl Med 6:220ra11
Werner, Jeffrey J; Garcia, Marcelo L; Perkins, Sarah D et al. (2014) Microbial community dynamics and stability during an ammonia-induced shift to syntrophic acetate oxidation. Appl Environ Microbiol 80:3375-83
McNulty, Nathan P; Wu, Meng; Erickson, Alison R et al. (2013) Effects of diet on resource utilization by a model human gut microbiota containing Bacteroides cellulosilyticus WH2, a symbiont with an extensive glycobiome. PLoS Biol 11:e1001637
Ridaura, Vanessa K; Faith, Jeremiah J; Rey, Federico E et al. (2013) Gut microbiota from twins discordant for obesity modulate metabolism in mice. Science 341:1241214
Faith, Jeremiah J; Guruge, Janaki L; Charbonneau, Mark et al. (2013) The long-term stability of the human gut microbiota. Science 341:1237439
Rey, Federico E; Gonzalez, Mark D; Cheng, Jiye et al. (2013) Metabolic niche of a prominent sulfate-reducing human gut bacterium. Proc Natl Acad Sci U S A 110:13582-7
Wei, Xiaochao; Yang, Zhen; Rey, Federico E et al. (2012) Fatty acid synthase modulates intestinal barrier function through palmitoylation of mucin 2. Cell Host Microbe 11:140-52
McNulty, Nathan P; Yatsunenko, Tanya; Hsiao, Ansel et al. (2011) The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. Sci Transl Med 3:106ra106

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