Summary of Study ST002275
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 PR001456. The data can be accessed directly via it's Project DOI: 10.21228/M8HQ5P 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 | ST002275 |
| Study Title | Insights from hippocampal neurogenesis and brain tumor development in a mouse model of experimental colitis induced by dextran sodium sulfate |
| Study Summary | We here reported investigations on a model of chemically induced experimental colitis by oral administration of sodium dextran sulfate (DSS) in C57BL/6 mice. We investigated, in vivo, the crosstalk between the intestine and the brain, evaluating the consequences of intestinal inflamma-tion on neuroinflammation and hippocampal adult neurogenesis. By using different DSS admin-istration strategies, we were able to induce acute or chronic colitis simulating clinical character-istics observed in IBD patients |
| Institute | Agenzia Nazionale per le Nuove Tecnologie, l'Energia e lo Sviluppo Economico Sostenibile |
| Last Name | Lorenzo Rebenaque |
| First Name | Laura |
| Address | calle seminari sn Alfara del Patriarca |
| laura.lorenzorebenaque@uchceu.es | |
| Phone | 615056012 |
| Submit Date | 2022-08-30 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | raw(Thermo) |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-09-16 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001456 |
| Project DOI: | doi: 10.21228/M8HQ5P |
| Project Title: | Gut-brain axis: Insights from hippocampal neurogenesis and brain tumor development in a mouse model of experimental colitis induced by dextran sodium sulfate |
| Project Summary: | We here reported investigations on a model of chemically induced experimental colitis by oral administration of sodium dextran sulfate (DSS) in C57BL/6 mice. We investigated, in vivo, the crosstalk between the intestine and the brain, evaluating the consequences of intestinal inflamma-tion on neuroinflammation and hippocampal adult neurogenesis. By using different DSS admin-istration strategies, we were able to induce acute or chronic colitis simulating clinical character-istics observed in IBD patients |
| Institute: | Agenzia Nazionale per le Nuove Tecnologie, l'Energia e lo Sviluppo Economico Sostenibile |
| Last Name: | Lorenzo Rebenaque |
| First Name: | Laura |
| Address: | calle seminari sn Alfara del Patriarca |
| Email: | laura.lorenzorebenaque@uchceu.es |
| Phone: | 615056012 |
Subject:
| Subject ID: | SU002361 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Group |
|---|---|---|
| SA217842 | DSS A WK2 2 | DSS | Moment:14 ACUTE |
| SA217843 | DSS A WK2 3 | DSS | Moment:14 ACUTE |
| SA217844 | DSS A WK2 4 | DSS | Moment:14 ACUTE |
| SA217845 | DSS A WK2 1 | DSS | Moment:14 ACUTE |
| SA217846 | DSS A WK2 5 | DSS | Moment:14 ACUTE |
| SA217847 | DSS A WK1 1 | DSS | Moment:7 ACUTE |
| SA217848 | DSS A WK1 2 | DSS | Moment:7 ACUTE |
| SA217849 | DSS A WK1 5 | DSS | Moment:7 ACUTE |
| SA217850 | DSS A WK1 3 | DSS | Moment:7 ACUTE |
| SA217851 | DSS A WK1 4 | DSS | Moment:7 ACUTE |
| SA217852 | DSS C5 | DSS | Moment:CRONICA |
| SA217853 | DSS C8 | DSS | Moment:CRONICA |
| SA217854 | DSS C7 | DSS | Moment:CRONICA |
| SA217855 | DSS C4 | DSS | Moment:CRONICA |
| SA217856 | DSS C2 | DSS | Moment:CRONICA |
| SA217857 | DSS C3 | DSS | Moment:CRONICA |
| SA217858 | DSS C6 | DSS | Moment:CRONICA |
| SA217859 | DSS C1 | DSS | Moment:CRONICA |
| SA217860 | UN A WK2 1 | UN | Moment:14 ACUTE |
| SA217861 | UN A WK2 2 | UN | Moment:14 ACUTE |
| SA217862 | UN A WK1 3 | UN | Moment:7 ACUTE |
| SA217863 | UN A WK1 5 | UN | Moment:7 ACUTE |
| SA217864 | UN A WK1 4 | UN | Moment:7 ACUTE |
| SA217865 | UN A WK1 1 | UN | Moment:7 ACUTE |
| SA217866 | UN A WK1 2 | UN | Moment:7 ACUTE |
| SA217867 | UN C 3 | UN | Moment:CRONICA |
| SA217868 | UN C 2 | UN | Moment:CRONICA |
| SA217869 | UN C 1 | UN | Moment:CRONICA |
| SA217870 | UN C 4 | UN | Moment:CRONICA |
| SA217871 | UN C 5 | UN | Moment:CRONICA |
| SA217872 | UN C 6 | UN | Moment:CRONICA |
| SA217873 | UN C 7 | UN | Moment:CRONICA |
| Showing results 1 to 32 of 32 |
Collection:
| Collection ID: | CO002354 |
| Collection Summary: | Fecal sample were collected and immediately snap frozen for metabolomics analysis at the end of experiment |
| Sample Type: | Colon |
Treatment:
| Treatment ID: | TR002373 |
| Treatment Summary: | For induction of acute colitis, male mice of 8 weeks of age were administered with a single cycle of 0.7% (w/v) DSS for 7 days followed by 3 or 7 days of DSS-free drinking water. For induction of chronic colitis, male mice of 8 weeks of age were treated with 3 repeated DSS cycles of 7 days each followed by a recovery period of 14 days with DSS-free drinking water. |
Sample Preparation:
| Sampleprep ID: | SP002367 |
| Sampleprep Summary: | A pool of 2 frozen stool samples from 2 independent mice (total dry weigh 15-25mg) from the different experimental groups [UN-Acute n=5; UN-Chronic n= 7; DSS-acute, at the end (n=5) or one week after DSS treatment (n=5) and DSS-chronic (n=8)] were mixed and shacked for two times in 750 l of aqueous solution with 75% of methanol, 0.1% of formic acid and 1ug/ml of formonetin as internal control for 20 min at room temperature. The mixture was then vortexed for 3 min followed by centrifugation at 15 000g for 15 min. The suspension (600μL) was used for metabolic profiling. For the LC-ESI-MS analysis, samples were transferred to HPLC tubes and an aliquot of 3 μL was injected for the analysis. Liquid chromatography coupled to high-resolution mass spectrometry conditions were as pre-viously reported https://www.mdpi.com/1422-0067/22/18/9716. |
Combined analysis:
| Analysis ID | AN003717 | AN003718 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Thermo Dionex Ultimate | Thermo Dionex Ultimate |
| Column | Phenomenex Luna (100 x 2.1mm,2.5um) | Phenomenex Luna (100 x 2.1mm,2.5um) |
| MS Type | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Orbitrap | Thermo Q Exactive Orbitrap |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | m/z ratio | m/z ratio |
Chromatography:
| Chromatography ID: | CH002754 |
| Instrument Name: | Thermo Dionex Ultimate |
| Column Name: | Phenomenex Luna (100 x 2.1mm,2.5um) |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS003466 |
| Analysis ID: | AN003717 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | ESI/APCI. Untargeted metabolomics was performed using the Compound Discovered software (Thermofisher Scientific), which performs chromatogram alignment, peak picking, and public database (e.g., ChemSpider, KEGG, Metabolika) querying based on accurate masses (m/z). |
| Ion Mode: | POSITIVE |
| MS ID: | MS003467 |
| Analysis ID: | AN003718 |
| Instrument Name: | Thermo Q Exactive Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | ESI/APCI. Untargeted metabolomics was performed using the Compound Discovered software (Thermofisher Scientific), which performs chromatogram alignment, peak picking, and public database (e.g., ChemSpider, KEGG, Metabolika) querying based on accurate masses (m/z). |
| Ion Mode: | NEGATIVE |
