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.

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Study IDST001738
Study TitleAdipoAtlas: A Reference Lipidome for Human White Adipose Tissue
Study SummaryObesity, 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
DepartmentFaculty for Chemistry and Mineralogy, Biotechnological-Biomedical Center
LaboratoryFedorova Lab
Last NameFedorova
First NameMaria
AddressDeutscher Platz 5
Emailmaria.fedorova@bbz.uni-leipzig.de
Phone03419731336
Submit Date2021-01-11
Num Groups4
Study CommentsPools of subcutaneous and visceral white adipose tissue were generated from lean patients (BMI < 25; n=5) and obese (BMI > 40; n=81)
Publicationshttps://www.biorxiv.org/content/10.1101/2021.01.20.427444v1
Raw Data AvailableYes
Analysis Type DetailLC-MS
Release Date2021-04-23
Release Version1
Maria Fedorova Maria Fedorova
https://dx.doi.org/10.21228/M8ZM49
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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://www.biorxiv.org/content/10.1101/2021.01.20.427444v1

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
SA162926SAT (lean)3Subcutaneous lean
SA162927SAT (lean)2Subcutaneous lean
SA162928SAT (lean)1Subcutaneous lean
SA162929SAT (ob)1Subcutaneous obese
SA162930SAT (ob)2Subcutaneous obese
SA162931SAT (ob)5Subcutaneous obese
SA162932SAT (ob)3Subcutaneous obese
SA162933SAT (ob)4Subcutaneous obese
SA162934SAT (ob)6Subcutaneous obese
SA162935VAT (lean)1Visceral lean
SA162936VAT (lean)2Visceral lean
SA162937VAT (lean)3Visceral lean
SA162938VAT (ob)6Visceral obese
SA162939VAT (ob)1Visceral obese
SA162940VAT (ob)2Visceral obese
SA162941VAT (ob)3Visceral obese
SA162942VAT (ob)4Visceral obese
SA162943VAT (ob)5Visceral 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 C30 Reversed Phase C18 Reversed Phase HILIC
Chromatography system Vanquish Horizon Vanquish Horizon Vanquish Horizon
Column Accucore C30 column (150 x 2.1 mm; 2.6 µm, 150 Å, Thermo Fisher Scientific) Accucore C18 column (150 x 2.1 mm; 2.6 µm, 150 Å, Thermo Fisher Scientific) Acquity UPLC BEH HILIC Si column (100 x 1.0 mm; 1.7 µm, 130 Å, Waters Corp.)
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:Accucore C30 column (150 x 2.1 mm; 2.6 µm, 150 Å, Thermo Fisher Scientific)
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:MeCN/H2O (1:1, v/v) + 5 mM ammonium formate + 0.1% (v/v) formic acid
Solvent B:i-PrOH/MeCN/H2O (85:10:5, v/v) + 5 mM ammonium formate + 0.1% (v/v) formic acid
Chromatography Type:C30 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:Accucore C18 column (150 x 2.1 mm; 2.6 µm, 150 Å, Thermo Fisher Scientific)
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:MeCN/H2O (1:1, v/v) + 5 mM ammonium formate + 0.1% (v/v) formic acid
Solvent B:i-PrOH/MeCN/H2O (85:10:5, v/v) + 5 mM ammonium formate + 0.1% (v/v) formic acid
Chromatography Type:C18 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:Acquity UPLC BEH HILIC Si column (100 x 1.0 mm; 1.7 µm, 130 Å, Waters Corp.)
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:MeCN/H2O (96:4, v/v) + 5 mM ammonium acetate
Solvent B:H2O + 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
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