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Effect of Bifidobacterium infantis or its secreted byproducts, Bacteroides thetaiotaomicron or heat-killed B. infantis on human colonic epithelial cells transcriptome

ABSTRACT: Effect of Bifidobacterium infantis or its secreted byproducts, Bacteroides thetaiotaomicron or heat-killed B. infantis on human colonic epithelial cells transcriptome

PROVIDER: PRJNA978251 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR24785827_1.fastq.gz	Fastqsanger.gz
	SRR24785827_2.fastq.gz	Fastqsanger.gz
	SRR24785828_1.fastq.gz	Fastqsanger.gz
	SRR24785828_2.fastq.gz	Fastqsanger.gz
	SRR24785829_1.fastq.gz	Fastqsanger.gz

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Effect of Bifidobacterium infantis, Bacteroides thetaiotaomicron or heat-killed B. infantis on murine colonic transcriptome

Project description:Effect of Bifidobacterium infantis, Bacteroides thetaiotaomicron or heat-killed B. infantis on murine colonic transcriptome

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Effect of Bifidobacterium infantis or its secreted byproducts, Bacteroides thetaiotaomicron or heat-killed B. infantis on human colonic epithelial cells transcriptome

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Effect of Bifidobacterium infantis, Bacteroides thetaiotaomicron or heat-killed B. infantis on murine colonic transcriptome

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Bifidobacterium longum subsp. infantis (B. infantis) strain dependent utilization of human milk oligosaccharides

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Bifidobacterium infantis intracellular 2-oxogluturate concentration is inversely related to nitrogen accessibility

Project description:Bifidobacterium longum subsp. infantis (B. infantis) resides in the human infant gut and helps with the utilization of human milk-derived nutrient components. While its utilization of various carbohydrate sources has been studied extensively, mechanisms behind utilization of nitrogen components from human milk remain largely unknown. In this study, we present B. infantis growth profiles on the N-containing human milk oligosaccharides (HMO) as nitrogen sources, namely, lacto-N-tetraose (LNT) and lacto-N-neotetraose (LNnT). Dietary 2-Oxoglutarate (2-OG) in known in mice model for its protective effects against intestinal inflammation and colitis development. In this study, we have shown that B. infantis had increased 2-OG concentration when utilizes LNT or LNnT as a primary nitrogen source. As LNT and LNnT are the isomers of HMO core structures, N-acetyl glucosamine (NAG), the N-containing monosaccharide, was regarded as the nitrogen provider of the HMO core structures. Differentially expressed gene patterns in B. infantis were analyzed under the less efficient nitrogen conditions (HMOs and NAG) relative to the complex nitrogen controls. Proteomics analysis of B. infantis using 15N-labeled NAG revealed that NAG nitrogen was incorporated into B. infantis metabolism. Transcriptomics results of B. infantis in LNT, LNnT and NAG nitrogen were consistent with the proteomics results. This further indicated that B. infantis metabolism was affected by NAG nitrogen in nitrogen assimilation, HMO catabolism, NAD cofactor biosynthesis and regeneration, and peptidoglycan biosynthesis pathways. In summary, B. infantis can use NAG-containing HMO as a nitrogen source and incorporate NAG nitrogen into metabolism pathways.

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Project description:The adult human gut microbial community is typically dominated by two bacterial phyla (divisions), the Firmicutes and the Bacteroidetes. Little is known about the factors that govern the interactions between their members. Here we examine the niches of representatives of both phyla in vivo. Finished genome sequences were generated from E. rectale and E. eligens, which belong to Clostridium Cluster XIVa, one of the most common gut Firmicute clades. Comparison of these and 25 other gut Firmicutes and Bacteroidetes indicated that the former possess smaller genomes and a disproportionately smaller number of glycan-degrading enzymes. Germ-free mice were then colonized with E. rectale and/or a prominent human gut Bacteroidetes, Bacteroides thetaiotaomicron, followed by whole genome transcriptional profiling of both organisms in their distal gut (cecal) habitat as well as host responses, high resolution proteomic analysis of cecal contents, and biochemical assays of carbohydrate metabolism. B. thetaiotaomicron adapts to E. rectale by upregulating expression of a variety of polysaccharide utilization loci (PULs) encoding numerous glycoside hydrolase gene families, and by signaling the host to produce mucosal glycans that it, but not E. rectale, can access. E. rectale adapts to B. thetaiotaomicron by decreasing production of its glycan-degrading enzymes, increasing expression of selected amino acid and sugar transporters, and facilitating glycolysis by reducing levels of NADH, in part via generation of butyrate from acetate, which in turn is utilized by the gut epithelium. This simplified model of the human gut microbiota illustrates niche specialization and functional redundancy within members of major gut bacterial phyla, and the importance of host glycans as a nutrient foundation that ensures ecosystem stability.

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