Summary of Study ST001738
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 PR001112. The data can be accessed directly via it's Project DOI: 10.21228/M8ZM49 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 | ST001738 |
| Study Title | AdipoAtlas: A Reference Lipidome for Human White Adipose Tissue |
| Study Summary | Obesity, characterized by expansion and metabolic dysregulation of white adipose tissue (WAT), has reached pandemic proportions and acts as a primer for a wide range of metabolic disorders. Remodelling of WAT lipidome in obesity and associated comorbidities can explain disease etiology and provide valuable diagnostic and prognostic markers. To support understanding of WAT lipidome remodelling at molecular level, we performed in-depth lipidomics profiling of human subcutaneous and visceral WAT of lean and obese individuals. Tissue-tailored preanalytical and analytical workflows allowed accurate identification and semi-absolute quantification of 1636 and 737 lipid molecular species, respectively, and summarized here in a form of human WAT reference lipidome. Deep lipidomic profiling allowed to identify main lipid (sub)classes undergoing depot/phenotype specific remodelling. Furthermore, previously unanticipated diversity of WAT ceramides was uncovered. AdipoAtlas reference lipidome will serve as a data-rich resource for development of WAT-specific high-throughput methods and as a scaffold for systems medicine data integration. |
| Institute | University of Leipzig |
| Department | Faculty for Chemistry and Mineralogy, Biotechnological-Biomedical Center |
| Laboratory | Fedorova Lab |
| Last Name | Fedorova |
| First Name | Maria |
| Address | Deutscher Platz 5 |
| maria.fedorova@bbz.uni-leipzig.de | |
| Phone | 03419731336 |
| Submit Date | 2021-01-11 |
| Num Groups | 4 |
| Study Comments | Pools of subcutaneous and visceral white adipose tissue were generated from lean patients (BMI < 25; n=5) and obese (BMI > 40; n=81) |
| Publications | https://doi.org/10.1016/j.xcrm.2021.100407 |
| Raw Data Available | Yes |
| Raw Data File Type(s) | mzML |
| Analysis Type Detail | LC-MS |
| Release Date | 2021-04-23 |
| Release Version | 1 |
Select appropriate tab below to view additional metadata details:
Project:
| Project ID: | PR001112 |
| Project DOI: | doi: 10.21228/M8ZM49 |
| Project Title: | AdipoAtlas: A reference lipidome for human white adipose tissue |
| Project Summary: | Global lipidome profiling of the human white adipose tissue lipidome was performed using an optimized lipid extraction and fractionation protocol. Several chromatographic separation modes (HILIC, C18 RPC, C30 RPC) were used to enable high resolution of polar, amphiphilic and unpolar lipids. Two MS platforms (QExactive; Orbitrap Fusion Lumos) were used in various acquisition modes (DDA, Acquire X, PRM) to allow for the high lipid identification rates. Subsequently the global lipidome of visceral and subcutaneous adipose tissue of lean and obese individuals was quantified by MS (full MS on QExactive in positive and negative polarity and PRM in positive polarity). |
| Institute: | University of Leipzig |
| Department: | Faculty for Chemistry and Mineralogy, Biotechnological-Biomedical Center |
| Laboratory: | Fedorova Lab |
| Last Name: | Fedorova |
| First Name: | Maria |
| Address: | Deutscher Platz 5 |
| Email: | maria.fedorova@bbz.uni-leipzig.de |
| Phone: | 03419731336 |
| Publications: | https://doi.org/10.1016/j.xcrm.2021.100407 |
Subject:
| Subject ID: | SU001815 |
| Subject Type: | Human |
| Subject Species: | Homo sapiens |
| Taxonomy ID: | 9606 |
Factors:
Subject type: Human; Subject species: Homo sapiens (Factor headings shown in green)
| mb_sample_id | local_sample_id | Depot location | Phenotype |
|---|---|---|---|
| SA162926 | SAT (lean)3 | Subcutaneous | lean |
| SA162927 | SAT (lean)2 | Subcutaneous | lean |
| SA162928 | SAT (lean)1 | Subcutaneous | lean |
| SA162929 | SAT (ob)1 | Subcutaneous | obese |
| SA162930 | SAT (ob)2 | Subcutaneous | obese |
| SA162931 | SAT (ob)5 | Subcutaneous | obese |
| SA162932 | SAT (ob)3 | Subcutaneous | obese |
| SA162933 | SAT (ob)4 | Subcutaneous | obese |
| SA162934 | SAT (ob)6 | Subcutaneous | obese |
| SA162935 | VAT (lean)1 | Visceral | lean |
| SA162936 | VAT (lean)2 | Visceral | lean |
| SA162937 | VAT (lean)3 | Visceral | lean |
| SA162938 | VAT (ob)6 | Visceral | obese |
| SA162939 | VAT (ob)1 | Visceral | obese |
| SA162940 | VAT (ob)2 | Visceral | obese |
| SA162941 | VAT (ob)3 | Visceral | obese |
| SA162942 | VAT (ob)4 | Visceral | obese |
| SA162943 | VAT (ob)5 | Visceral | obese |
| Showing results 1 to 18 of 18 |
Collection:
| Collection ID: | CO001808 |
| Collection Summary: | Samples of human white adipose tissue from a total of 86 donors were kindly provided by Matthias Blüher as a part of Leipzig Obesity BioBank. Tissue collection was approved by the Ethics committee of the University of Leipzig (approval number: 159-12-21052012) and all subjects gave written informed consent before taking part in the study. Removed tissue samples were flash frozen in liquid nitrogen and stored at -80°C until further analysis. For the purpose of this study, we included adipose tissue samples from abdominal visceral (VAT) and subcutaneous (SAT) fat depots of lean (BMI < 25kg/m²; n = 5) and obese (BMI > 40kg/m²; n = 81) individuals. Representative tissue pools were generated according to depot and phenotype specificity. |
| Sample Type: | Adipose tissue |
| Collection Location: | Leipzig, Germany |
| Storage Conditions: | -80℃ |
| Storage Vials: | Plastic tubes |
| Additives: | none |
Treatment:
| Treatment ID: | TR001828 |
| Treatment Summary: | Adipose tissue biopsy pools were not treated prior to sample preparation. |
Sample Preparation:
| Sampleprep ID: | SP001821 |
| Sampleprep Summary: | Adipose tissue was spiked with internal standards, homogenized by high-speed homogenization and lipids were extracted using the Folch method. Triacylglycerols were depleted by EtOH/Hexane based liquid/liquid extraction. |
| Sampleprep Protocol Filename: | Sample Preparation Workflow |
| Processing Storage Conditions: | 4℃ |
| Extraction Method: | Folch lipid extraction |
| Extract Enrichment: | EtOH/Hexane liquid/liquid extraction |
| Extract Storage: | -80℃ |
| Sample Derivatization: | none |
| Sample Spiking: | adipose tissue specific internal standard mix |
Combined analysis:
| Analysis ID | AN002829 | AN002830 | AN002831 |
|---|---|---|---|
| Analysis type | MS | MS | MS |
| Chromatography type | Reversed phase | Reversed phase | HILIC |
| Chromatography system | Vanquish Horizon | Vanquish Horizon | Vanquish Horizon |
| Column | Thermo Accucore C30 (150 x 2.1mm,2.6um) | Thermo Accucore C18 (150 x 2.1mm,2.6um) | Waters ACQUITY UPLC BEH HILIC (100 x 1.0mm,1.7um,130 Å) |
| MS Type | ESI | ESI | ESI |
| MS instrument type | Orbitrap | Orbitrap | Orbitrap |
| MS instrument name | Thermo Q Exactive Plus Orbitrap; Thermo Fusion Orbitrap | Thermo Q Exactive Plus Orbitrap | Thermo Q Exactive Plus Orbitrap |
| Ion Mode | UNSPECIFIED | UNSPECIFIED | POSITIVE |
| Units | fmol/μg protein | fmol/μg protein | fmol/μg protein |
Chromatography:
| Chromatography ID: | CH002092 |
| Chromatography Summary: | Three chromatography types were employed to allow for optimal lipidome separation (i.e. C18 RPC for amphiphilic lipids, C30 RPC for triacylglycerols, HILIC for acylcarnitines). All details on the respective methods are provided in the attached methods document |
| Instrument Name: | Vanquish Horizon |
| Column Name: | Thermo Accucore C30 (150 x 2.1mm,2.6um) |
| Column Temperature: | 50 |
| Flow Gradient: | 0-5 min - 50 to 80 % B (curve 5), 5-22 min - 80 to 95 % B (curve 4), 22-26 min - 95 % isocratic, 26-27 min - 95 to 100 % B (curve 5), 27-47 min - 100 % B isocratic, 47-47.1 min - 100 to 50 % B followed by 8 min re-equilibration at 50% B |
| Flow Rate: | 0.3 ml/min |
| Solvent A: | 50% acetonitrile/50% water; 0.1% formic acid; 5 mM ammonium formate |
| Solvent B: | 85% isopropanol/10% acetonitrile/5% water; 0.1% formic acid; 5 mM ammonium formate |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH002093 |
| Chromatography Summary: | Three chromatography types were employed to allow for optimal lipidome separation (i.e. C18 RPC for amphiphilic lipids, C30 RPC for triacylglycerols, HILIC for acylcarnitines). All details on the respective methods are provided in the attached methods document |
| Instrument Name: | Vanquish Horizon |
| Column Name: | Thermo Accucore C18 (150 x 2.1mm,2.6um) |
| Column Temperature: | 50 |
| Flow Gradient: | 0-5 min - 50 to 80 % B (curve 5), 5-22 min - 80 to 95 % B (curve 4), 22-26 min - 95 % isocratic, 26-27 min - 95 to 100 % B (curve 5), 27-47 min - 100 % B isocratic, 47-47.1 min - 100 to 50 % B followed by 8 min re-equilibration at 50% B |
| Flow Rate: | 0.3 ml/min |
| Solvent A: | 50% acetonitrile/50% water; 0.1% formic acid; 5 mM ammonium formate |
| Solvent B: | 85% isopropanol/10% acetonitrile/5% water; 0.1% formic acid; 5 mM ammonium formate |
| Chromatography Type: | Reversed phase |
| Chromatography ID: | CH002094 |
| Chromatography Summary: | Three chromatography types were employed to allow for optimal lipidome separation (i.e. C18 RPC for amphiphilic lipids, C30 RPC for triacylglycerols, HILIC for acylcarnitines). All details on the respective methods are provided in the attached methods document |
| Instrument Name: | Vanquish Horizon |
| Column Name: | Waters ACQUITY UPLC BEH HILIC (100 x 1.0mm,1.7um,130 Å) |
| Column Temperature: | 40 |
| Flow Gradient: | 0-10 min - 0 to 10 % B (curve 5), 10-10.1 min - 10 to 0 % B (curve 5) followed by 5 min re-equilibration at 0% B |
| Flow Rate: | 0.15 ml/min |
| Solvent A: | 96% acetonitrile/4% water; 5 mM ammonium acetate |
| Solvent B: | 100% water; 5 mM ammonium acetate |
| Chromatography Type: | HILIC |
MS:
| MS ID: | MS002622 |
| Analysis ID: | AN002829 |
| Instrument Name: | Thermo Q Exactive Plus Orbitrap; Thermo Fusion Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | DDA and AcquireX methods for TAG identification and Parallel reaction monitoring for CE identification in nonpolar extracts in positive ion mode |
| Ion Mode: | UNSPECIFIED |
| MS ID: | MS002623 |
| Analysis ID: | AN002830 |
| Instrument Name: | Thermo Q Exactive Plus Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | DDA method on polar extracts in positive and negative ion mode |
| Ion Mode: | UNSPECIFIED |
| MS ID: | MS002624 |
| Analysis ID: | AN002831 |
| Instrument Name: | Thermo Q Exactive Plus Orbitrap |
| Instrument Type: | Orbitrap |
| MS Type: | ESI |
| MS Comments: | DDA and DDA with with inclusion list for acylcarnitines on polar extracts in positive ion mode |
| Ion Mode: | POSITIVE |
