|
| Status |
Public on Nov 01, 2011 |
| Title |
The impact of a consortium of fermented milk strains on the gut microbiome of gnotobiotic mice and monozygotic twins. (RNA-Seq) |
| Organisms |
Bacteroides; Ruminococcus; Streptococcus thermophilus; Lactobacillus; Lactobacillus delbrueckii subsp. bulgaricus; Collinsella; Clostridia; Parabacteroides; human gut metagenome; Lactococcus lactis subsp. lactis CNCM I-1631; Bifidobacterium animalis subsp. lactis CNCM I-2494; Streptococcus thermophilus CNCM I-1630 |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Understanding how the human gut microbiota and host are impacted by probiotic bacterial strains requires carefully controlled studies in humans, and in mouse models of the gut ecosystem where potentially confounding variables that are difficult to control in humans can be constrained. Therefore, we characterized the fecal microbiomes and metatranscriptomes of adult female monozygotic twin pairs through repeated sampling 4 weeks prior to, 7 weeks during, and 4 weeks following consumption of a commercially-available fermented milk product (FMP) containing a consortium of Bifidobacterium animalis subsp. lactis, two strains of Lactobacillus delbrueckii subsp. bulgaricus, Lactococcus lactis subsp. cremoris, and Streptococcus thermophilus. In addition, gnotobiotic mice harboring a 15-species model human gut microbiota whose genomes contain 58,399 known or predicted protein-coding genes were studied prior to and after gavage with all five sequenced FMP strains.
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| Overall design |
73 samples total. Evaluation of changes in a model community's metatranscriptome over time after exposure to a consortium of 5 fermented milk product (FMP) strains (40 samples); evaluation of the gene expression of the FMP strains in other in vitro conditions, including MRS medium (B. animalis subsp. lactis only, 4 samples) and a commercial FMP fermentation (all 5 strains, 6 samples); evaluation of the gene expression of native human microbiomes before and after the consumption of a commercial FMP (23 samples).
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| Contributor(s) |
McNulty NP |
| Citation(s) |
22030749 |
| Submission date |
Aug 25, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Nathan P McNulty |
| E-mail(s) |
nathan.p.mcnulty@gmail.com
|
| Phone |
314-362-3963
|
| Organization name |
Washington University School of Medicine
|
| Department |
Center for Genome Sciences and Systems Biology
|
| Lab |
Gordon
|
| Street address |
4444 Forest Park Ave. (5th Floor)
|
| City |
Saint Louis |
| State/province |
MO |
| ZIP/Postal code |
63108 |
| Country |
USA |
| |
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| Platforms (4)
|
| GPL14231 |
Illumina Genome Analyzer IIx (Bifidobacterium animalis subsp. lactis CNCM I-2494) |
| GPL14348 |
Illumina Genome Analyzer IIx (human gut metagenome) |
| GPL14349 |
Illumina Genome Analyzer IIx (Bacteroides; Bifidobacterium animalis subsp. lactis CNCM I-2494; Clostridia; Collinsella; Lactobacillus; Parabacteroides; Ruminococcus; Streptococcus thermophilus) |
| GPL14350 |
Illumina Genome Analyzer IIx (Bifidobacterium animalis subsp. lactis CNCM I-2494; Lactobacillus delbrueckii subsp. bulgaricus; Lactococcus lactis subsp. cremoris CNCM I-1631; Streptococcus thermophilus CNCM I-1630) |
|
| Samples (73)
|
| GSM786018 |
in vitro culture NM1200_InVitro_1_1.5L |
| GSM786019 |
in vitro culture NM1200_InVitro_2_2.5L |
| GSM786020 |
in vitro culture NM1200_InVitro_1_1.5S |
|
| Relations |
| SRA |
SRP007940 |
| BioProject |
PRJNA145383 |
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