Summary of Study ST004302
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 PR002718. The data can be accessed directly via it's Project DOI: 10.21228/M8B26Z 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 | ST004302 |
| Study Title | Metabolomic analysis of wild-type and TauT-/- murine Mesenchymal Stromal Cells (MSCs) |
| Study Summary | 16 week old TauT+/+ and TauT-/- mice were sacrificed, stromal populations were isolated and magnetically enriched or flow sorted for MSCs (CD45-Ter119-). MSC cultures were washed with PBS and detached using TrypLE. Cells were washed with PBS containing 5 mM glucose and centrifuged at 3000g for 1 min, snap frozen, and processed for untargeted metabolomics. |
| Institute | University of Rochester Medical Center |
| Last Name | Smith |
| First Name | Bradley |
| Address | 575 Elmwood Ave, Rochester, NY, 14620 |
| bradley_smith@urmc.rochester.edu | |
| Phone | 585-275-1445 |
| Submit Date | 2025-10-17 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2025-11-12 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR002718 |
| Project DOI: | doi: 10.21228/M8B26Z |
| Project Title: | Metabolomic analysis of wild-type and TauT-/- murine Mesenchymal Stromal Cells (MSCs) |
| Project Summary: | Bone marrow mesenchymal stromal cells (BMSCs) are a type of multipotent stem cell found in the bone marrow stroma that can differentiate into various cell types, support the bone marrow's microenvironment, and regulate other stem cells. Their key functions include providing physical support to hematopoietic stem cells, secreting factors that control their homeostasis, and undergoing differentiation into bone, cartilage, and fat cells. BMSCs are also being explored for various cell therapies due to their ability to be expanded in vitro. To determine the role of taurine in regulating metabolism of bone marrow mesenchymal stromal cells (MSCs), we carried out untargeted metabolomic analysis of murine taurine transporter (TauT) wild-type and knockout MSCs. Briefly, 16 week old TauT+/+ and TauT-/- mice were sacrificed, stromal populations were isolated and magnetically enriched or flow sorted for MSCs. Next, untargeted metabolomic analysis was carried out to identify metabolic changes induced by inhibiting taurine uptake in MSCs. This analysis identified inositol metabolism as a downstream effector of taurine in MSCs. |
| Institute: | University of Rochester Medical Center |
| Last Name: | Smith |
| First Name: | Bradley |
| Address: | 575 Elmwood Ave, Rochester, NY, 14620 |
| Email: | bradley_smith@urmc.rochester.edu |
| Phone: | 585-275-1445 |
Subject:
| Subject ID: | SU004455 |
| 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 | Sample source | Genotype |
|---|---|---|---|
| SA505185 | KO_1a_7 | Mesenchymal Stromal Cells | KO |
| SA505186 | KO_1b_8 | Mesenchymal Stromal Cells | KO |
| SA505187 | KO_2a_3 | Mesenchymal Stromal Cells | KO |
| SA505188 | KO_2b_4 | Mesenchymal Stromal Cells | KO |
| SA505189 | KO_6a_10 | Mesenchymal Stromal Cells | KO |
| SA505190 | WT_1a_1 | Mesenchymal Stromal Cells | WT |
| SA505191 | WT_1b_2 | Mesenchymal Stromal Cells | WT |
| SA505192 | WT_2a_5 | Mesenchymal Stromal Cells | WT |
| SA505193 | WT_2b_6 | Mesenchymal Stromal Cells | WT |
| SA505194 | WT_6a_9 | Mesenchymal Stromal Cells | WT |
| Showing results 1 to 10 of 10 |
Collection:
| Collection ID: | CO004448 |
| Collection Summary: | 16 week old TauT+/+ and TauT-/- mice were sacrificed, stromal populations were isolated and magnetically enriched or flow sorted for MSCs (CD45-Ter119-). MSC cultures were washed with PBS and detached using TrypLE. Cells were washed with PBS containing 5mM glucose and centrifuged at 3000g for 1 min, snap frozen, and processed for untargeted metabolomics. |
| Sample Type: | Mesenchymal stromal cells |
Treatment:
| Treatment ID: | TR004464 |
| Treatment Summary: | N/A |
Sample Preparation:
| Sampleprep ID: | SP004461 |
| Sampleprep Summary: | Frozen cell pellets were resuspended at 1 million cells per 1 mL of 80% MeOH via vortexing, transferred to -80°C for 30 min and then regular ice for 30 minutes with vortexing every 10 minutes. Next, samples were centrifuged at 17,000x g for 10 minutes and 90% of supernatant was dried down in a vacuum evaporator (Thermo). Samples were reconstituted in 50% acetonitrile (A955, Fisher Scientific), at a volume equal to 10% of dried down volume, and transferred to glass vials for LC/MS analysis. |
Chromatography:
| Chromatography ID: | CH005437 |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Waters XBridge XP BEH Amide (150 mm x 2.1 mm, 2.5 µm) |
| Column Temperature: | 25℃ |
| Flow Gradient: | 0 minutes, 100% B; 2 minutes, 100% B; 3 minutes, 90% B; 5 minutes, 90% B; 6 minutes, 85% B; 7 minutes, 85% B; 8 minutes, 75% B; 9 minutes, 75% B; 10 minutes, 55% B; 12 minutes, 55% B; 13 minutes, 35%, 20 minutes, 35% B; 20.1 minutes, 35% B; 20.6 minutes, 100% B; 22.2 minutes, 100% B; 28 minutes, 100% B. |
| Flow Rate: | 150 μL/min for first 22.7 minutes, then 300 μL/min for 22.7 to 28 minutes |
| Solvent A: | 100% water; 10 mM ammonium acetate; 0.1% ammonium hydroxide; 0.1% medronic acid |
| Solvent B: | 90% acetonitrile/10% water; 10 mM ammonium acetate; 0.1% ammonium hydroxide; 0.1% medronic acid |
| Chromatography Type: | HILIC |
| Chromatography ID: | CH005438 |
| Instrument Name: | Thermo Vanquish |
| Column Name: | Waters XBridge XP BEH Amide (150 mm x 2.1 mm, 2.5 µm) |
| Column Temperature: | 25℃ |
| Flow Gradient: | 0 minutes, 100% B; 2 minutes, 100% B; 3 minutes, 90% B; 5 minutes, 90% B; 6 minutes, 85% B; 7 minutes, 85% B; 8 minutes, 75% B; 9 minutes, 75% B; 10 minutes, 55% B; 12 minutes, 55% B; 13 minutes, 35%, 20 minutes, 35% B; 20.1 minutes, 35% B; 20.6 minutes, 100% B; 22.2 minutes, 100% B; 28 minutes, 100% B. |
| Flow Rate: | 150 μL/min for first 22.7 minutes, then 300 μL/min for 22.7 to 28 minutes |
| Solvent A: | 100% water; 10 mM ammonium formate; 0.125% formic acid |
| Solvent B: | 90% acetonitrile/10% water; 10 mM ammonium formate; 0.125% formic acid |
| Chromatography Type: | HILIC |
Analysis:
| Analysis ID: | AN007158 |
| Analysis Type: | MS |
| Chromatography ID: | CH005437 |
| Has Mz: | 1 |
| Has Rt: | 1 |
| Rt Units: | Minutes |
| Results File: | ST004302_AN007158_Results.txt |
| Units: | area |
| Analysis ID: | AN007159 |
| Analysis Type: | MS |
| Chromatography ID: | CH005438 |
| Has Mz: | 1 |
| Has Rt: | 1 |
| Rt Units: | Minutes |
| Results File: | ST004302_AN007159_Results.txt |
| Units: | area |
