Summary of Study ST000570

This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench,, where it has been assigned Project ID PR000418. The data can be accessed directly via it's Project DOI: 10.21228/M81880 This work is supported by NIH grant, U2C- DK119886.


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Study IDST000570
Study TitleMetabolome analysis of the cecal contents of GF mice and GF mice colonized with dominant gut microbes present in the ceca of neonatal and adult mice
Study SummaryMetabolome profiles of GF or GF mice reconstituted with Esherichia coli (EC), Bacteroides acidifaciens (Bac), or Clostridia consortium (CL) were compared.
Keio University
DepartmentInstitute for Advanced Biosciences
Last NameFukuda
First NameShinji
AddressTsuruoka, Yamagata 997-0052, Japan
Submit Date2017-03-09
Num Groups4
Total Subjects17
Raw Data AvailableYes
Raw Data File Type(s)d
Analysis Type DetailLC-MS
Release Date2018-04-10
Release Version1
Shinji Fukuda Shinji Fukuda application/zip

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Sample Preparation:

Sampleprep ID:SP000599
Sampleprep Summary:CE-TOFMS-based metabolome analysis(sample preparation) Fecal samples were freeze dried, and disrupted by vigorous shaking at 1,500 rpm for 10 min with four 3 mm zirconia beads by Shake Master NEO (Bio Medical Science Inc.). 10 mg (±0.5 mg) fecal samples were homogenized with 500 μl MeOH containing internal standards (20 μM each of methionine sulfone, and D-camphor-10-sulfonic acid (CSA)) and 100 mg of 0.1 mm and four of 3 mm zirconia/silica beads (BioSpec Products). After vigorous shaking (1,500 rpm for 5 min) by Shake Master NEO (Bio Medical Science Inc.), 200 μl of Milli-Q water and 500 μl of chloroform was added and then shaking in a same manner as before. After centrifugation at 4,600 × g for 15 min at 4°C, the supernatant was transferred to a 5kDa cutoff centrifugal filter tube. The filtrate was centrifugally concentrated at 40°C and reconstituted with 40 μl of Milli-Q water.
Sampleprep Protocol Filename:Sample_Prep_Protocol.pdf
Processing Method:Homogenized with 500 μl MeOH containing internal standards and 100 mg of 0.1 mm and four of 3 mm zirconia/silica beads
Processing Storage Conditions:On ice
Extraction Method:Chloroform
Extract Cleanup:5kDa cutoff centrifugal filter tube
Sample Resuspension:40 μl of Milli-Q water