Summary of Study ST001439
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 PR000989. The data can be accessed directly via it's Project DOI: 10.21228/M8VH7G This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Study ID | ST001439 |
| Study Title | Metabolites in contents of small intestine in wild type and DAOG181R/G181R mice |
| Study Summary | To investigate if DAO regulates metabolites in intestinal lumen, we compared metabolites in contents of small intestine in wild type and DAOG181R/G181R mice. All mice have C57BL/6 background and 8 weeks of age. |
| Institute | Keio University |
| Department | Pharmacology |
| Last Name | Suzuki |
| First Name | Masataka |
| Address | 35, Shinanomachi, Shinjuku-ku, Tokyo |
| masataka.s@keio.jp | |
| Phone | +81-3-5363-3750 |
| Submit Date | 2019-12-17 |
| Analysis Type Detail | MS(Dir. Inf.) |
| Release Date | 2020-08-04 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR000989 |
| Project DOI: | doi: 10.21228/M8VH7G |
| Project Title: | D-amino acids control IgA production |
| Project Summary: | Intestinal microbiota produces D-amino acids, which are bacteria-specific metabolites, for their growth and their communication. Host intestine release D-amino acid oxidase (DAO) to degrade bacterial D-amino acids that results in regulation of microbiota. However, it is not clarified whether bacterial D-amino acids affect host’s immunity. In the present study, we investigated the metabolites in intestinal contents of DAO null mice compared to wild type animals. We did not find any significant difference in metabolites when we did not distinguish chirality. However, we found that DAO null mice had much higher amount of D-alanine in the intestinal epithelium, suggesting that D-alanine are involved in activated immune response in DAO null mice. |
| Institute: | Keio University |
| Department: | Pharmacology |
| Last Name: | Suzuki |
| First Name: | Masataka |
| Address: | 35, Shinanomachi,, Shinjuku-ku, Tokyo, 160-8582, Japan |
| Email: | masataka.s@keio.jp |
| Phone: | +81-3-5363-3750 |
Subject:
| Subject ID: | SU001513 |
| Subject Type: | Bacteria |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | C57BL/6 |
| Age Or Age Range: | 8 weeks of age |
| Gender: | Male |
Factors:
Subject type: Bacteria; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Genotype |
|---|---|---|
| SA122100 | CSI-DAO3 | DAOG181R |
| SA122101 | CSI-DAO4 | DAOG181R |
| SA122102 | CSI-DAO5 | DAOG181R |
| SA122103 | CSI-DAO2 | DAOG181R |
| SA122104 | CSI-DAO1 | DAOG181R |
| SA122105 | CSI-wt2 | wild type |
| SA122106 | CSI-wt3 | wild type |
| SA122107 | CSI-wt4 | wild type |
| SA122108 | CSI-wt5 | wild type |
| SA122109 | CSI-wt1 | wild type |
| Showing results 1 to 10 of 10 |
Collection:
| Collection ID: | CO001508 |
| Collection Summary: | Mice were euthanized and collect half length of small intestine (ileum). Contents of small intestine were mechanically squeezed by pipet tip into 1.5 mL tube and then flash-frozen in liquid nitrogen. |
| Sample Type: | contents of small intestine |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR001528 |
| Treatment Summary: | Mice were generated by in vitro fertilization and transplantation to surrogate mothers, and pups C-sectioned on E20 were fostered to CD-1 mother with strain-selected microbiota in the animal facility of CIEA. |
Sample Preparation:
| Sampleprep ID: | SP001521 |
| Sampleprep Summary: | For extracting ionic metabolites. approximately 20 mg of contents of small intestine were dissolved in H2O containing internal standards (H3304-1002, HMT, Japan) with ratio of 1:9. After centrifugation, the supernatant was the centrifugically filtered through a Milipore 5000-Da cutoff filter to remove macromolecules for subsequent analysis with CE-TOFMS. For extracting non-ionic metabolites, approximately 20 mg of contents of small intestine were dissolved in 1 mL of methanol containing internal standard (H3304-1002, HMT). After centrifugation, 1o uL of the supernatant was transferred into grass vials for evaporation under nitrogen gas and reconstituted with 200 uL of 50% isopropanol for subsequent analysis with LC-TOFMS. |
Combined analysis:
| Analysis ID | AN002403 | AN002404 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | None (Direct infusion) | None (Direct infusion) |
| Chromatography system | none | none |
| Column | none | none |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Agilent 6210 TOF | Agilent 6230 TOF |
| Ion Mode | UNSPECIFIED | UNSPECIFIED |
| Units | relative_area | relative_area |
Chromatography:
| Chromatography ID: | CH001766 |
| Instrument Name: | none |
| Column Name: | none |
| Chromatography Type: | None (Direct infusion) |
MS:
| MS ID: | MS002244 |
| Analysis ID: | AN002403 |
| Instrument Name: | Agilent 6210 TOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | System control: Agilent G2201AA ChemStation software version B .03.01 Peaks were extracted using automatic integration software MasterHands to obtain peal information including m/z, peak area and migration time. Detected metabolites were plotted on metabolic pathway maps using VANTED software. |
| Ion Mode: | UNSPECIFIED |
| MS ID: | MS002245 |
| Analysis ID: | AN002404 |
| Instrument Name: | Agilent 6230 TOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | System control: Agilent G2201AA ChemStation software version B .03.01 Peaks were extracted using automatic integration software MasterHands to obtain peal information including m/z, peak area and retention time. Detected metabolites were plotted on metabolic pathway maps using VANTED software. |
| Ion Mode: | UNSPECIFIED |
