Summary of Study ST003142
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 PR001953. The data can be accessed directly via it's Project DOI: 10.21228/M88M77 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 | ST003142 |
| Study Title | Effect of liver Acox1 knockout on serum lipidome in mice |
| Study Summary | The liver gene expression of the peroxisomal β-oxidation enzyme acyl-coenzyme A oxidase 1 (ACOX1), which catabolizes very long chain fatty acids (VLCFA), increases in the context of obesity. To check if liver peroxisomal fatty acids beta-oxidation deficiency will affect whole body metabolic homeostasis through circulating lipids. We analyzed serum samples from 5 WT and 5 Acox1-LKO mice. |
| Institute | Washington University in St. Louis |
| Last Name | Lu |
| First Name | Dongliang |
| Address | 660 S. Euclid Ave. |
| ludong-liang@wustl.edu | |
| Phone | 3147476766 |
| Submit Date | 2024-03-19 |
| Analysis Type Detail | LC-MS |
| Release Date | 2024-03-27 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001953 |
| Project DOI: | doi: 10.21228/M88M77 |
| Project Title: | Global Lipidomics of Serum Samples from control and ACOX1-LKO Mouse |
| Project Summary: | In this study, we use a Acox1 liver specific knock mouse to explore the role of liver peroxisomal fatty acids beta-oxidation in whole body metabolic homeostasis. As the key enzyme of peroxisomal fatty acid beta-oxidation, knock out Acox1 in liver will affect the very long chain fatty acid accoumaltion in liver and their secretion into circulating. |
| Institute: | Washington University School of Medicine |
| Last Name: | Lu |
| First Name: | Dongliang |
| Address: | 660 S. Euclid Ave., St. Louis, Missouri, 63110, USA |
| Email: | ludong-liang@wustl.edu |
| Phone: | 3147476766 |
Subject:
| Subject ID: | SU003259 |
| 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_ID | Sample source |
|---|---|---|---|
| SA340618 | Sample8 | Acox1-LKO | mouse serum |
| SA340619 | Sample9 | Acox1-LKO | mouse serum |
| SA340620 | Sample10 | Acox1-LKO | mouse serum |
| SA340621 | Sample7 | Acox1-LKO | mouse serum |
| SA340622 | Sample6 | Acox1-LKO | mouse serum |
| SA340623 | Sample2 | Wild-type | mouse serum |
| SA340624 | Sample3 | Wild-type | mouse serum |
| SA340625 | Sample4 | Wild-type | mouse serum |
| SA340626 | Sample5 | Wild-type | mouse serum |
| SA340627 | Sample1 | Wild-type | mouse serum |
| Showing results 1 to 10 of 10 |
Collection:
| Collection ID: | CO003252 |
| Collection Summary: | After collecting the whole blood of mice, allow the blood to clot by leaving at room temperature for 30 minutes. Then serum were collected by centrifugation at 2000 g for 10 minutes, and save at -80C |
| Sample Type: | Blood (serum) |
Treatment:
| Treatment ID: | TR003268 |
| Treatment Summary: | WT and Acox1-LKO mice were maintained under constant temperature (24°C), circulating air and humidity (45-65%) with 12h:12h light/dark cycle. All mice had free access to chew diet and water. 10 weeks age mice were used for analysis. |
Sample Preparation:
| Sampleprep ID: | SP003266 |
| Sampleprep Summary: | The lipids extraction was performed strictly following the SOP established based on a modified Folch liquid-liquid extraction protocol. Briefly, an aliquot of 4.5 μL of each sample was vortexed with 1.5 μL of internal standard solution and methanol, followed by adding dichloromethane and vortexing for another 20 s. A clean-up step was performed with water and 10 seconds of vortex. Samples were allowed to equilibrate at room temperature for 10 min and centrifuged at 16,000 g for 10 min at 4°C. An aliquot of the organic layer was evaporated to dryness with a nitrogen blowdown evaporator. The residue was re-suspended in 4.5 μL of NovaMT MixB, vortexed for 1 min, and diluted with 40.5 μL of NovaMT MixA |
Combined analysis:
| Analysis ID | AN005155 | AN005156 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Reversed phase | Reversed phase |
| Chromatography system | Thermo Dionex Ultimate 3000 | Thermo Dionex Ultimate 3000 |
| Column | Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um) | Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Bruker Impact HD | Bruker Impact HD |
| Ion Mode | POSITIVE | NEGATIVE |
| Units | peak area | peak area |
Chromatography:
| Chromatography ID: | CH003903 |
| Instrument Name: | Thermo Dionex Ultimate 3000 |
| Column Name: | Waters ACQUITY UPLC CSH C18 (100 x 2.1mm,1.7um) |
| Column Temperature: | 42 °C |
| Flow Gradient: | t = 0 min, 5% B; t = 10 min, 40% B; t = 18.8 min, 98% B; t = 20.5 min, 98% B. |
| Flow Rate: | 250 μL/min. |
| Solvent A: | 50% Methanol/40% Acetonitrile/10% Water; 10 mM Ammonium formate |
| Solvent B: | 95% Isopropyl alcohol/5% water; 10 mM Ammonium formate |
| Chromatography Type: | Reversed phase |
MS:
| MS ID: | MS004891 |
| Analysis ID: | AN005155 |
| Instrument Name: | Bruker Impact HD |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | The acquisition rate was 1.44 Hz for MS acquisition and 4 – 10 Hz for MS/MS spectra acquisition, with an m/z range from 150 to 1500. For both positive and negative ionization. Intensity threshold:2500 cts for positive ionization. Lipid features were extracted and aligned using software LipidScreener 1.1.0 |
| Ion Mode: | POSITIVE |
| Capillary Voltage: | 4200 V |
| Collision Energy: | 10-70 eV |
| Dry Gas Flow: | 5.0 L/min |
| Dry Gas Temp: | 240°C |
| Nebulizer: | 1.2 Bar |
| MS ID: | MS004892 |
| Analysis ID: | AN005156 |
| Instrument Name: | Bruker Impact HD |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | The acquisition rate was 1.44 Hz for MS acquisition and 4 – 10 Hz for MS/MS spectra acquisition, with an m/z range from 150 to 1500. For both positive and negative ionization. Intensity threshold:1500 cts for negative ionization. Lipid features were extracted and aligned using software LipidScreener 1.1.0 |
| Ion Mode: | NEGATIVE |
| Capillary Voltage: | 4200 V |
| Collision Energy: | 10-70 eV |
| Dry Gas Flow: | 5.0 L/min |
| Dry Gas Temp: | 240°C |
| Nebulizer: | 1.2 Bar |
