Summary of Study ST002342
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 PR001504. The data can be accessed directly via it's Project DOI: 10.21228/M88X2F 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 | ST002342 |
| Study Title | The gut microbiome has sexually dimorphic effects on bone tissue energy metabolism and multiscale bone quality in C57BL/6J mice |
| Study Summary | Male and female germ-free and conventional were euthanized at 20 weeks of age, and various tissues were obtained to assess differences in bone properties associated with microbiome status and sex. For metabolomic analyses, the humeri was obtained, bone marrow was flushed using PBS, and subchondral bone metabolites were extracted using a methanol:acetone precipitation approach. Next, samples were injected, ionized, and data was acquired using LC-MS. Data was processed and converted using MSConvert and XCMS. Following this step, metabolic phenotypes of mice that differ by microbiome status and sex were investigated using MetaboAnalyst. Differences in metabolism were related to lipid, energy, and amino acid metabolism. Specifically, females, both conventional and germ-free, had dysregulated lipid metabolism, whereas, males, both conventional and germ-free had dysregulated amino acid metabolism. Other differences detected between male and female mice that differ by germ-free status corresponded to differences in bone strength, bone marrow adiposity, and osteocyte density. |
| Institute | Montana State University |
| Department | Mechanical & Industrial Engineering, Chemistry & Biochemistry |
| Last Name | Welhaven |
| First Name | Hope |
| Address | Culbertson Hall, 100 |
| hwelhaven@gmail.com | |
| Phone | 4066961526 |
| Submit Date | 2022-10-19 |
| Num Groups | 4 |
| Total Subjects | 33 |
| Num Males | 17 |
| Num Females | 16 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2022-11-28 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Combined analysis:
| Analysis ID | AN003826 |
|---|---|
| Analysis type | MS |
| Chromatography type | HILIC |
| Chromatography system | Agilent 1290 |
| Column | Cogent Diamond Hydride (150 × 2.1mm,4um) |
| MS Type | ESI |
| MS instrument type | Single quadrupole |
| MS instrument name | Agilent 6538 QTOF |
| Ion Mode | POSITIVE |
| Units | Peak Intensity |
Chromatography:
| Chromatography ID: | CH002831 |
| Chromatography Summary: | Samples were analyzed using an Agilent 1290 UPLC coupled to an Agilent 6538 QTOF. All samples were run in normal phase using a Cogent Diamond Hydride HILIC column (150 x 2.1 mm; 100Å pore size on a 4µm particle size). Solvents: 0.1% formic acid in water (A), 0.1% formic acid in acetonitrile (B). Elution gradient: 100 to 25% solvent B over 17 minutes, 0 to 70% solvent A over 20 minutes, at 21 minutes, B increases from 25% to 100% till 25 minutes while A decreases from 70% to 0% till 25 minutes. The last 4 minutes act as a wash. Total run time = 25 minute method (per sample) |
| Instrument Name: | Agilent 1290 |
| Column Name: | Cogent Diamond Hydride (150 × 2.1mm,4um) |
| Flow Gradient: | 100 to 25% solvent B over 17 minutes, 0 to 70% solvent A over 20 minutes, at 21 minutes, B increases from 25% to 100% till 25 minutes while A decreases from 70% to 0% till 25 minutes. The last 4 minutes act as a wash. |
| Flow Rate: | 0.400 mL/min |
| Injection Temperature: | 4C |
| Solvent A: | 100% water; 0.1% formic acid |
| Solvent B: | 100% acetonitrile; 0.1% formic acid |
| Analytical Time: | 25 minutes |
| Chromatography Type: | HILIC |
