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.

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Study IDST002275
Study TitleInsights from hippocampal neurogenesis and brain tumor development in a mouse model of experimental colitis induced by dextran sodium sulfate
Study SummaryWe 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 NameLorenzo Rebenaque
First NameLaura
Addresscalle seminari sn Alfara del Patriarca
Emaillaura.lorenzorebenaque@uchceu.es
Phone615056012
Submit Date2022-08-30
Raw Data AvailableYes
Raw Data File Type(s)raw(Thermo)
Analysis Type DetailLC-MS
Release Date2022-09-16
Release Version1
Laura Lorenzo Rebenaque Laura Lorenzo Rebenaque
https://dx.doi.org/10.21228/M8HQ5P
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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 Moment
SA217842DSS A WK2 2DSS 14 ACUTE
SA217843DSS A WK2 3DSS 14 ACUTE
SA217844DSS A WK2 4DSS 14 ACUTE
SA217845DSS A WK2 1DSS 14 ACUTE
SA217846DSS A WK2 5DSS 14 ACUTE
SA217847DSS A WK1 1DSS 7 ACUTE
SA217848DSS A WK1 2DSS 7 ACUTE
SA217849DSS A WK1 5DSS 7 ACUTE
SA217850DSS A WK1 3DSS 7 ACUTE
SA217851DSS A WK1 4DSS 7 ACUTE
SA217852DSS C5DSS CRONICA
SA217853DSS C8DSS CRONICA
SA217854DSS C7DSS CRONICA
SA217855DSS C4DSS CRONICA
SA217856DSS C2DSS CRONICA
SA217857DSS C3DSS CRONICA
SA217858DSS C6DSS CRONICA
SA217859DSS C1DSS CRONICA
SA217860UN A WK2 1UN 14 ACUTE
SA217861UN A WK2 2UN 14 ACUTE
SA217862UN A WK1 3UN 7 ACUTE
SA217863UN A WK1 5UN 7 ACUTE
SA217864UN A WK1 4UN 7 ACUTE
SA217865UN A WK1 1UN 7 ACUTE
SA217866UN A WK1 2UN 7 ACUTE
SA217867UN C 3UN CRONICA
SA217868UN C 2UN CRONICA
SA217869UN C 1UN CRONICA
SA217870UN C 4UN CRONICA
SA217871UN C 5UN CRONICA
SA217872UN C 6UN CRONICA
SA217873UN C 7UN 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
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