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SRX799359: GSM1561127: CACO-2 cells incubated with HMO-grown B. infantis, replicate 1; Homo sapiens; RNA-Seq
1 ILLUMINA (Illumina HiSeq 2000) run: 47.9M spots, 4.8G bases, 2.9Gb downloads

Submitted by: Gene Expression Omnibus (GEO)
Study: RNA sequencing of CACO-2 cells incubated with bifidobacteria grown on human milk oligosaccharides.
show Abstracthide Abstract
Background: Breastfed human infants are predominantly colonized by bifidobacteria that thrive on human milk oligosaccharides (HMO). The two most predominant species of bifidobacteria in infant feces are Bifidobacterium breve (B. breve) and Bifidobacterium longum subsp. infantis (B. infantis), both avid HMO-consumer strains. Our laboratory has previously shown that B. infantis, when grown on HMO, increase adhesion to intestinal cells and increase the expression of the anti-inflammatory cytokine interleukin-10. The purpose of the current study was to investigate the effects of carbon source—glucose, lactose, or HMO—on the ability of B. breve and B. infantis to adhere to and affect the transcription of intestinal epithelial cells on a genome-wide basis. Results: HMO-grown B. infantis had higher percent binding to Caco-2 cell monolayers compared to B. infantis grown on glucose or lactose. B. breve had low adhesive ability regardless of carbon source. Despite differential binding ability, both HMO-grown strains significantly differentially affected the Caco-2 transcriptome compared to their glucose or lactose grown controls. HMO-grown B. breve and B. infantis both down-regulated genes in Caco-2 cells associated with chemokine activity. Conclusion: The choice of carbon source affects the interaction of bifidobacteria with intestinal epithelial cells. HMO-grown bifidobacteria reduce markers of inflammation, compared to glucose or lactose-grown bifidobacteria. In the future, the design of preventative or therapeutic probiotic supplements may need to include appropriately chosen prebiotics. Overall design: CACO-2 cells incubated with Bifidobacterium longum subsp. infantis grown on (1) glucose, (2) lactose, or (3) human milk oligosaccharides. All experiments were run in triplicate.
Sample: CACO-2 cells incubated with HMO-grown B. infantis, replicate 1
SAMN03255139 • SRS782478 • All experiments • All runs
Organism: Homo sapiens
Library:
Instrument: Illumina HiSeq 2000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Caco-2 cell monolayers were gently washed three times with PBS and RNA was extracted from Caco-2 cells using the Trizol method according to the manufacturer’s instructions (Invitrogen, Carlsbad, CA). Sequencing libraries of mRNA were prepared using the Illumina TruSeq RNA Sample Prep Kit v2 Pooled libraries were sequenced on an Illumina HiSeq 2000. Sequencing was run for 100 cycles, with read length of 100 bp (single reads).
Experiment attributes:
GEO Accession: GSM1561127
Links:
External link:
Runs: 1 run, 47.9M spots, 4.8G bases, 2.9Gb
Run# of Spots# of BasesSizePublished
SRR169670547,939,5974.8G2.9Gb2017-02-10

ID:
1142935

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