Summary of Study ST003724
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 PR002313. The data can be accessed directly via it's Project DOI: 10.21228/M8NK0N 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 | ST003724 |
| Study Title | Metabolomic analysis of skeletal muscle from control WT, immobilized WT, control mFoxO1,3,4-/- and immobilized mFoxO1,3,4-/- mice. |
| Study Summary | The Forkhead box O (FoxO) transcription factors have been reported to be critical factors for muscle atrophy in a variety of pathological and physiological conditions, and triple-knockout of FoxO1,3,4 prevented immobilization-induced muscle atrophy in mice. To better understand the FoxO-dependent metabolic changes in skeletal muscle during immobilization, we performed a metabolomic analysis of skeletal muscle (gastrocnemius muscle) from control and 11-day immobilized 4-month-old WT (FoxO1,3,4flox/flox) male mice and age-matched mFoxO1,3,4-/- male mice using CE-TOFMS. Our data show that triple knockout of FoxO1,3,4 prevented the metabolomic remodeling in skeletal muscles caused by immobilization. |
| Institute | Kyoto Prefectural University |
| Last Name | Kamei |
| First Name | Yasutomi |
| Address | 1-5 Hangi-cho, Shimogamo, Sakyo-ku, Kyoto, Kyoto, 606-8522, Japan |
| oyabu0507@gmail.com | |
| Phone | +81-75-703-5661 |
| Submit Date | 2025-01-20 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2025-07-14 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002313 |
| Project DOI: | doi: 10.21228/M8NK0N |
| Project Title: | FoxO-dependent metabolomic changes in immobilization-induced muscle atrophy in mice. |
| Project Summary: | To better understand the FoxO-dependent metabolic changes in skeletal muscle during immobilization, we performed a metabolomic analysis of skeletal muscle (gastrocnemius muscle) from control and 11-day immobilized 4-month-old WT (FoxO1,3,4flox/flox) male mice and age-matched mFoxO1,3,4-/- male mice using CE-TOFMS. |
| Institute: | Kyoto Prefectural University |
| Last Name: | Kamei |
| First Name: | Yasutomi |
| Address: | 1-5 Hangi-cho, Shimogamo, Sakyo-ku, Kyoto, Kyoto, 606-8522, Japan |
| Email: | oyabu0507@gmail.com |
| Phone: | +81-75-703-5661 |
Subject:
| Subject ID: | SU004169 |
| Subject Type: | Mammal |
| Subject Species: | Mus musculus |
| Taxonomy ID: | 10090 |
| Genotype Strain: | B6-129SvJ mixed with C57BL/6J |
| Age Or Age Range: | 4-month-old |
| Weight Or Weight Range: | 46.64 g, 43.45 g, 37.64 g, and 33.4 g for control WT (FoxO1,3,4flox/flox) mice (n = 4), 36.72 g, 30.92 g, 30.86 g, 30.57 g, and 28.74 g for immobilized WT (FoxO1,3,4flox/flox) mice (n = 5), 42.79 g, 40.88 g, 37.59 g, and 34.91 g for control mFoxO1,3,4-/- mice (n = 4), and 38.09 g, 34.42 g, 34.09 g, 32.69 g, and 30.52 g for immobilized mFoxO1,3,4-/- mice (n = 5). |
| Gender: | Male |
| Animal Animal Supplier: | CLEA Japan (Tokyo, Japan) |
| Animal Light Cycle: | 12-h light-dark cycle |
| Animal Feed: | CE2 |
| Species Group: | Mammals |
Factors:
Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)
| mb_sample_id | local_sample_id | Group | Sample source | Genotype | Treatment | Time |
|---|---|---|---|---|---|---|
| SA464431 | TKO-Cont-2 | TKO-Control | Gastrocnemius muscle | FoxO1,3,4-/- | Control | - |
| SA464432 | TKO-Cont-4 | TKO-Control | Gastrocnemius muscle | FoxO1,3,4-/- | Control | - |
| SA464433 | TKO-Cont-3 | TKO-Control | Gastrocnemius muscle | FoxO1,3,4-/- | Control | - |
| SA464434 | TKO-Cont-1 | TKO-Control | Gastrocnemius muscle | FoxO1,3,4-/- | Control | - |
| SA464435 | TKO-IM11-1 | TKO-IM11 | Gastrocnemius muscle | FoxO1,3,4-/- | Immobilization | 11 days |
| SA464436 | TKO-IM11-2 | TKO-IM11 | Gastrocnemius muscle | FoxO1,3,4-/- | Immobilization | 11 days |
| SA464437 | TKO-IM11-3 | TKO-IM11 | Gastrocnemius muscle | FoxO1,3,4-/- | Immobilization | 11 days |
| SA464438 | TKO-IM11-4 | TKO-IM11 | Gastrocnemius muscle | FoxO1,3,4-/- | Immobilization | 11 days |
| SA464439 | TKO-IM11-5 | TKO-IM11 | Gastrocnemius muscle | FoxO1,3,4-/- | Immobilization | 11 days |
| SA464440 | WT-Cont-4 | WT-Control | Gastrocnemius muscle | FoxO1,3,4flox/flox | Control | - |
| SA464441 | WT-Cont-2 | WT-Control | Gastrocnemius muscle | FoxO1,3,4flox/flox | Control | - |
| SA464442 | WT-Cont-3 | WT-Control | Gastrocnemius muscle | FoxO1,3,4flox/flox | Control | - |
| SA464443 | WT-Cont-1 | WT-Control | Gastrocnemius muscle | FoxO1,3,4flox/flox | Control | - |
| SA464444 | WT-IM11-2 | WT-IM11 | Gastrocnemius muscle | FoxO1,3,4flox/flox | Immobilization | 11 days |
| SA464445 | WT-IM11-3 | WT-IM11 | Gastrocnemius muscle | FoxO1,3,4flox/flox | Immobilization | 11 days |
| SA464446 | WT-IM11-4 | WT-IM11 | Gastrocnemius muscle | FoxO1,3,4flox/flox | Immobilization | 11 days |
| SA464447 | WT-IM11-5 | WT-IM11 | Gastrocnemius muscle | FoxO1,3,4flox/flox | Immobilization | 11 days |
| SA464448 | WT-IM11-1 | WT-IM11 | Gastrocnemius muscle | FoxO1,3,4flox/flox | Immobilization | 11 days |
| Showing results 1 to 18 of 18 |
Collection:
| Collection ID: | CO004162 |
| Collection Summary: | Gastrocnemius muscles from control and 11-day immobilized 4-month-old WT (FoxO1,3,4flox/flox) male mice and age-matched mFoxO1,3,4-/- male mice were collected and snap frozen in liquid nitrogen (n = 4–5 mice/group). |
| Sample Type: | Muscle |
| Storage Conditions: | -80℃ |
Treatment:
| Treatment ID: | TR004178 |
| Treatment Summary: | To create the immobilized model of mFoxO1,3,4-/- (triple-knockout: TKO) and control FoxO1,3,4flox/flox (wild-type: WT) male mice, we immobilized the right hindlimb of the mouse using a plastic tube and an appropriately sized 200 μL pipette tip (strong cyanoacrylate mini was used for adhesion; only a portion of the 200-μL pipette tip was glued to the leg to avoid pressure). This procedure prevented movement of the immobilized leg alone. |
Sample Preparation:
| Sampleprep ID: | SP004175 |
| Sampleprep Summary: | Gastrocnemius muscles and 750 μL of 50% acetonitrile solution (v/v) (internal standard concentration: 20 μM) were added to the crushing tubes, and the sample was crushed (3,500 rpm, 60 sec × 2 times) using a crusher under cooling, and then the same volume of 50% acetonitrile solution (v/v) was further added. After the tissue was crushed, centrifugation (2,300 × g, 4°C, 5 min) was performed. After centrifugation, the supernatant was transferred to an ultrafiltration tube (Ultrafree MC PLHCC, HMT, centrifugal filter unit 5 kDa). This was centrifuged (9,100 × g, 4°C, 120 min) and subjected to ultrafiltration. The filtrate was dried and resuspended in Milli-Q water for metabolome analyses at Human Metabolome Technologies (HMT). |
Chromatography:
| Chromatography ID: | CH005050 |
| Chromatography Summary: | The column used has a model number TSP050375 from Polymicro Technologies. Specifically, this item was purchased and then cut and processed for use. |
| Instrument Name: | Agilent 7100 CE |
| Column Name: | Fused silica capillary i.d. 50 μm x 80 cm |
| Column Temperature: | N/A |
| Flow Gradient: | N/A |
| Flow Rate: | N/A |
| Solvent A: | Cation Buffer Solution (p/n : H3301-1001) |
| Solvent B: | N/A |
| Chromatography Type: | CE |
| Chromatography ID: | CH005051 |
| Chromatography Summary: | The column used has a model number TSP050375 from Polymicro Technologies. Specifically, this item was purchased and then cut and processed for use. |
| Instrument Name: | Agilent 7100 CE |
| Column Name: | Fused silica capillary i.d. 50 μm x 80 cm |
| Column Temperature: | N/A |
| Flow Gradient: | N/A |
| Flow Rate: | N/A |
| Solvent A: | Anion Buffer Solution (p/n : I3302-1023) |
| Solvent B: | N/A |
| Chromatography Type: | CE |
Analysis:
| Analysis ID: | AN006644 |
| Analysis Type: | MS |
| Chromatography ID: | CH005050 |
| Num Factors: | 4 |
| Num Metabolites: | 154 |
| Units: | arbitrary unit |
| Analysis ID: | AN006645 |
| Analysis Type: | MS |
| Chromatography ID: | CH005051 |
| Num Factors: | 4 |
| Num Metabolites: | 68 |
| Units: | arbitrary unit |
