Summary of Study ST002172
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 PR001381. The data can be accessed directly via it's Project DOI: 10.21228/M86T35 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 | ST002172 |
| Study Title | Cecal metabolome of gnotobiotic (containing a 14-member synthetic human gut microbiota), and germ-free mice fed with two distinct rodent diets with varying fiber content. |
| Study Summary | In an effort to discern the effects of diverse fibers on host immunity, we employed five distinct rodent diets with varying fiber content in gnotobiotic (containing a 14-member synthetic human gut microbiota), and germ-free mice. |
| Institute | Luxembourg Institute of Health |
| Department | Department of Infection and Immunity |
| Last Name | Desai |
| First Name | Mahesh S |
| Address | 4354 Esch-sur-Alzette, Luxembourg |
| mahesh.desai@lih.lu | |
| Phone | +352 26970-389 |
| Submit Date | 2022-05-19 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | d |
| Analysis Type Detail | LC-MS |
| Release Date | 2023-05-18 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001381 |
| Project DOI: | doi: 10.21228/M86T35 |
| Project Title: | Cecal and serum metabolome of specific-pathogen-free, gnotobiotic (containing a 14-member synthetic human gut microbiota), and germ-free mice fed with five distinct rodent diets with varying fiber content and source. |
| Project Summary: | In an effort to discern the effects of diverse fibers on host immunity, we employed five distinct rodent diets with varying fiber content and source in specific-pathogen-free, gnotobiotic (containing a 14-member synthetic human gut microbiota), and germ-free mice. |
| Institute: | Luxembourg Institute of Health |
| Department: | Department of Infection and Immunity |
| Last Name: | Desai |
| First Name: | Mahesh S |
| Address: | 4354 Esch-sur-Alzette, Luxembourg |
| Email: | mahesh.desai@lih.lu |
| Phone: | +352 26970-389 |
Subject:
| Subject ID: | SU002258 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Gender: | Male and female |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Organ | Treatment | Diet |
|---|---|---|---|---|
| SA208908 | AF20_BC_197 | Cecum | Germfree | Fiber-free |
| SA208909 | AF20_BC_205 | Cecum | Germfree | Fiber-free |
| SA208910 | AF20_BC_196 | Cecum | Germfree | Fiber-free |
| SA208911 | AF20_BC_198 | Cecum | Germfree | Fiber-free |
| SA208912 | AF20_BC_192 | Cecum | Germfree | Fiber-rich |
| SA208913 | AF20_BC_195 | Cecum | Germfree | Fiber-rich |
| SA208914 | AF20_BC_191 | Cecum | Germfree | Fiber-rich |
| SA208915 | AF20_BC_194 | Cecum | Germfree | Fiber-rich |
| SA208916 | AF19_BC_217 | Cecum | Gnotobiote (14SM) | Fiber-free |
| SA208917 | AF19_BC_219 | Cecum | Gnotobiote (14SM) | Fiber-free |
| SA208918 | AF20_BC_209 | Cecum | Gnotobiote (14SM) | Fiber-free |
| SA208919 | AF19_BC_218 | Cecum | Gnotobiote (14SM) | Fiber-free |
| SA208920 | AF19_BC_214 | Cecum | Gnotobiote (14SM) | Fiber-rich |
| SA208921 | AF19_BC_215 | Cecum | Gnotobiote (14SM) | Fiber-rich |
| SA208922 | AF19_BC_216 | Cecum | Gnotobiote (14SM) | Fiber-rich |
| SA208923 | AF20_BC_206 | Cecum | Gnotobiote (14SM) | Fiber-rich |
| Showing results 1 to 16 of 16 |
Collection:
| Collection ID: | CO002251 |
| Collection Summary: | Cecal metabolome of gnotobiotic (containing a 14-member synthetic human gut microbiota), and germ-free mice fed with two distinct rodent diets with varying fiber content. |
| Sample Type: | Cecum |
Treatment:
| Treatment ID: | TR002270 |
| Treatment Summary: | Germ-free BALB/c mice were bred in isolators and transferred to iso-cages prior to experimental feeding and/or 14SM colonization. Mice were fed on their respective diets for 40 days and then sacrificed by cervical dislocation. |
Sample Preparation:
| Sampleprep ID: | SP002264 |
| Sampleprep Summary: | Cecal contents were lyophilized using a VD-800R lyophilizer (TAITEC) for 24 hours. Freeze-dried samples were disrupted with 3.0-mm Zirconia Beads (Biomedical Science) by vigorous shaking (1,500 rpm for 10 min) using Shake Master (Biomedical Science). Cecal metabolites were extracted using the methanol:chloroform:water extraction protocol. |
Combined analysis:
| Analysis ID | AN003559 | AN003560 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | CE | CE |
| Chromatography system | Agilent CE | Agilent CE |
| Column | Fused-silica,50um(cation) | COSMO(+),50um(anion |
| MS Type | ESI | ESI |
| MS instrument type | TOF | TOF |
| MS instrument name | Agilent CE-TOFMS | Agilent CE-TOFMS |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | nmol/g | nmol/g |
Chromatography:
| Chromatography ID: | CH002630 |
| Instrument Name: | Agilent CE |
| Column Name: | Fused-silica,50um(cation) |
| Chromatography Type: | CE |
| Chromatography ID: | CH002631 |
| Instrument Name: | Agilent CE |
| Column Name: | COSMO(+),50um(anion |
| Chromatography Type: | CE |
MS:
| MS ID: | MS003316 |
| Analysis ID: | AN003559 |
| Instrument Name: | Agilent CE-TOFMS |
| Instrument Type: | TOF |
| MS Type: | ESI |
| MS Comments: | In-house software (MasterHands) was used for peak area integration and annotation. |
| Ion Mode: | POSITIVE |
| MS ID: | MS003317 |
| Analysis ID: | AN003560 |
| Instrument Name: | Agilent CE-TOFMS |
| Instrument Type: | TOF |
| MS Type: | ESI |
| MS Comments: | In-house software (MasterHands) was used for peak area integration and annotation. |
| Ion Mode: | NEGATIVE |
