Summary of Study ST000907
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR000629. The data can be accessed directly via it's Project DOI: 10.21228/M8C972 This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
This study contains a large results data set and is not available in the mwTab file. It is only available for download via FTP as data file(s) here.
| Study ID | ST000907 |
| Study Title | Murine vitamin A deficiency results in a hypermetabolic state and alterations in bacterial community structure and metabolism.(Urine) |
| Study Summary | Vitamin A deficiency (A-) is a significant public health problem. To better understand how vitamin A status influences gut microbiota and host metabolism, we systematically analyzed urine, cecum, serum, and liver samples from vitamin A sufficient (A+) and A- mice using 1H NMR-based metabolomics, quantitative (q)PCR, and 16S rRNA gene sequencing coupled with multivariate data analysis. The microbiota in the cecum of A- mice showed compositional as well as functional shifts compared to the microbiota from A+ mice. Targeted 1H NMR analyses revealed significant changes in microbial metabolite concentrations including higher butyrate and hippurate and decreased acetate and 4-hydroxyphenylacetate in A+ relative to A- mice. Bacterial butyrate-producing genes including butyryl-CoA:acetate CoA-transferase and butyrate kinase were significantly higher in bacteria from A+ versus bacteria from A- mice. A - mice had disturbances in multiple metabolic pathways including alterations in energy metabolism (hyperglycemia, glycogenesis, TCA cycle, and lipoprotein biosynthesis) and the A- host showed metabolites indicative of a hypermetabolic state (higher levels of amino acids and nucleic acids). A- mice had hyperglycemia, liver dysfunction, changes in bacterial metabolism, and altered gut microbial communities. Moreover, integrative analyses indicated a strong correlation between gut microbiota and host energy metabolism pathways in the liver. Vitamin A regulates the microbiota, bacterial metabolism and the effects of vitamin A on the microbiota results in alterations to host metabolism. |
| Institute | Pennsylvania State University |
| Last Name | Nichols |
| First Name | Robert |
| Address | 101 Life science building, University park, PA, 16803 |
| rgn5011@psu.edu | |
| Phone | 17247662694 |
| Submit Date | 2017-09-26 |
| Analysis Type Detail | NMR |
| Release Date | 2018-02-07 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000629 |
| Project DOI: | doi: 10.21228/M8C972 |
| Project Title: | Murine vitamin A deficiency results in a hypermetabolic state and alterations in bacterial community structure and metabolism |
| Project Summary: | Vitamin A deficiency (A-) is a significant public health problem. To better understand how vitamin A status influences gut microbiota and host metabolism, we systematically analyzed urine, cecum, serum, and liver samples from vitamin A sufficient (A+) and A- mice using 1H NMR-based metabolomics, quantitative (q)PCR, and 16S rRNA gene sequencing coupled with multivariate data analysis. The microbiota in the cecum of A- mice showed compositional as well as functional shifts compared to the microbiota from A+ mice. Targeted 1H NMR analyses revealed significant changes in microbial metabolite concentrations including higher butyrate and hippurate and decreased acetate and 4-hydroxyphenylacetate in A+ relative to A- mice. Bacterial butyrate-producing genes including butyryl-CoA:acetate CoA-transferase and butyrate kinase were significantly higher in bacteria from A+ versus bacteria from A- mice. A - mice had disturbances in multiple metabolic pathways including alterations in energy metabolism (hyperglycemia, glycogenesis, TCA cycle, and lipoprotein biosynthesis) and the A- host showed metabolites indicative of a hypermetabolic state (higher levels of amino acids and nucleic acids). A- mice had hyperglycemia, liver dysfunction, changes in bacterial metabolism, and altered gut microbial communities. Moreover, integrative analyses indicated a strong correlation between gut microbiota and host energy metabolism pathways in the liver. Vitamin A regulates the microbiota, bacterial metabolism and the effects of vitamin A on the microbiota results in alterations to host metabolism. |
| Institute: | Pennsylvania State University |
| Last Name: | Nichols |
| First Name: | Robert |
| Address: | 101 Life science building, University Park, State college, PA, 16803 |
| Email: | rgn5011@psu.edu |
| Phone: | 7247662694 |
Subject:
| Subject ID: | SU000944 |
| Subject Type: | mouse |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Species Group: | Mammal |
Factors:
Subject type: mouse; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Treatment |
|---|---|---|
| SA053040 | C1 | Control |
| SA053041 | C6 | Control |
| SA053042 | C5 | Control |
| SA053043 | C2 | Control |
| SA053044 | C3 | Control |
| SA053045 | C4 | Control |
| SA053046 | T6 | Vit-A deficient food |
| SA053047 | T5 | Vit-A deficient food |
| SA053048 | T1 | Vit-A deficient food |
| SA053049 | T2 | Vit-A deficient food |
| SA053050 | T3 | Vit-A deficient food |
| SA053051 | T4 | Vit-A deficient food |
| Showing results 1 to 12 of 12 |
Collection:
| Collection ID: | CO000938 |
| Collection Summary: | urine |
| Sample Type: | Urine |
Treatment:
| Treatment ID: | TR000958 |
| Treatment Summary: | Twelve male litters were weaned at 3 wks and continuously fed the vitamin A sufficient diet, vitamin A deficient diet, or the vitamin A deficient diet, supplemented with retenoic acid until the end of the experiment. |
Sample Preparation:
| Sampleprep ID: | SP000951 |
| Sampleprep Summary: | The NMR sample prep for the urine, liver, cecal contents and serum are attached. |
Analysis:
| Analysis ID: | AN001474 |
| Analysis Type: | NMR |
| Num Factors: | 2 |
| Num Metabolites: | 5 |
| Units: | total peak intensity per metabolite |
NMR:
| NMR ID: | NM000113 |
| Analysis ID: | AN001474 |
| Instrument Name: | Bruker Avance III |
| Instrument Type: | FT-NMR |
| NMR Experiment Type: | 1D 1H |
| Spectrometer Frequency: | 600 MHz |
