Summary of Study ST003252

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 PR002019. The data can be accessed directly via it's Project DOI: 10.21228/M8N23M 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 IDST003252
Study TitleMetabolomics studies on mouse cardiac samples on a Western diet
Study SummaryTargeted metabolomics was performed using liquid chromatography-tandem mass spectrometry (LC-MS/MS) to measure polar metabolites in both positive and negative ionization mode on cardiac mice tissue acquired after a 30 week dietary intervention.
Institute
University of Sydney
DepartmentSchool of Medical Sciences
LaboratoryCardiometabolic Disease
Last NameLiu
First NameRenping
AddressCharles Perkins Centre
Emailrenping.liu@sydney.edu.au
Phone+61432953638
Submit Date2024-03-23
Num Groups4
Total Subjects35
Num Males35
Raw Data AvailableYes
Raw Data File Type(s)mzML
Analysis Type DetailAPI
Release Date2024-08-26
Release Version1
Renping Liu Renping Liu
https://dx.doi.org/10.21228/M8N23M
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

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Project:

Project ID:PR002019
Project DOI:doi: 10.21228/M8N23M
Project Title:4-diet multi-organ and multi-omic crosstalk
Project Type:Targeted MS quantitative analysis
Project Summary:Presently, dietary patterns have undergone significant shifts, and understanding the intricate interplay between diet, particularly high fat and high sucrose diets, the gut microbiome, and cardiometabolic health has become paramount. These dietary patterns have been consistently associated with heightened cardiometabolic risk factors including obesity, insulin resistance, dyslipidemia, and hypertension. High-fat diets, in particular, contribute to increased adiposity and ectopic fat deposition, exacerbating systemic inflammation and oxidative stress, thereby promoting the development of metabolic dysfunction. Similarly, high sucrose diets have been implicated in the dysregulation of glucose homeostasis, leading to insulin resistance and hyperglycemia, key hallmarks of cardiometabolic diseases such as type 2 diabetes mellitus. Amidst this, the exploration of multi-omic profiles alongside the gut microbial landscape has emerged as a pivotal avenue for unraveling the complexities of cardiometabolic health dynamics affected by the effects of high-fat and high-sucrose diets. The approach of using a multi-omic comparison between organs offers a comprehensive lens through which the intricate molecular signatures underlying the impact of dietary compositions, particularly high fat and high sucrose, on metabolic health, can be examined.
Institute:University of Sydney
Department:School of Medical Sciences
Laboratory:Cardiometabolic Disease
Last Name:Liu
First Name:Renping
Address:The Hub, Charles Perkins Centre, D17, The University of Sydney, NSW, 2006
Email:renping.liu@sydney.edu.au
Phone:+61432953638

Subject:

Subject ID:SU003371
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6J
Age Or Age Range:6 weeks old
Gender:Male
Animal Animal Supplier:Australian Resource Centre
Animal Housing:3 per cage
Animal Light Cycle:12-hour light-dark cycle

Factors:

Subject type: Mammal; Subject species: Mus musculus (Factor headings shown in green)

mb_sample_id local_sample_id Sample source Diet
SA353547C62.1heart tissue chow
SA353548C59.2heart tissue chow
SA353549C62.3heart tissue chow
SA353550C62.2heart tissue chow
SA353551C59.1heart tissue chow
SA353552C61.3heart tissue chow
SA353553C61.1heart tissue chow
SA353554C59.3heart tissue chow
SA353555C61.2heart tissue chow
SA353556HF58.1heart tissue hfd
SA353557HF58.2heart tissue hfd
SA353558HF58.3heart tissue hfd
SA353559HF65.1heart tissue hfd
SA353560HF65.2heart tissue hfd
SA353561HF65.3heart tissue hfd
SA353562HF67.1heart tissue hfd
SA353563HF67.2heart tissue hfd
SA353564HF67.3heart tissue hfd
SA353565HFHS66.1heart tissue hfhsd
SA353566HFHS66.3heart tissue hfhsd
SA353567HFHS66.2heart tissue hfhsd
SA353568HFHS57.1heart tissue hfhsd
SA353569HFHS57.3heart tissue hfhsd
SA353570HFHS56.3heart tissue hfhsd
SA353571HFHS56.2heart tissue hfhsd
SA353572HFHS56.1heart tissue hfhsd
SA353573HS60.1heart tissue hsd
SA353574HS60.2heart tissue hsd
SA353575HS60.3heart tissue hsd
SA353576HS63.1heart tissue hsd
SA353577HS63.2heart tissue hsd
SA353578HS63.3heart tissue hsd
SA353579HS64.1heart tissue hsd
SA353580HS64.2heart tissue hsd
SA353581HS64.3heart tissue hsd
Showing results 1 to 35 of 35

Collection:

Collection ID:CO003364
Collection Summary:Mouse cardiac samples were collected at the end of the experimental design (after 30-weeks on the diet) during the cull. These hearts were immediately clamped with metal clamps and snap-frozen in liquid nitrogen and stored in -80C until further analysis. This process was approved by the University of Sydney’s Ethics Committee (USYD # 2017/1294).
Sample Type:Heart
Storage Conditions:-80℃

Treatment:

Treatment ID:TR003380
Treatment Summary:36 male C57BL/6J mice were allocated to four different diets (n = 9) consisting of a control diet (Chow), a high-sucrose diet (HSD), a high-fat diet (HFD), and a high-fat high-sucrose (western) diet (HFHSD) at 8 weeks of age. Mice had ad libitum access to their food and autoclaved water. One mouse was euthanised prior to the expected experimental endpoint due to the loss of body condition and was excluded from this study.
Treatment:Chow, HFD, HSD, HFHSD

Sample Preparation:

Sampleprep ID:SP003378
Sampleprep Summary:Approximately 50 mg of ground heart tissue was weighed into 2 mL Eppendorf tube and subjected to a two-phase extraction protocol involving tissue, ice-cold extraction medium (methanol:water, and chloroform). Samples were then centrifuged at 14 000 x g at 4 °C for 25 min. The aqueous layer was transferred into a new microfuge tube and reconstituted in the acetonitrile/methanol/formic acid (75:25:0.2; v/v/v, HPLC grade; Thermo Fisher Scientific) for the HILIC analysis, and acetonitrile/methanol (25:25; v/v/v, HPLC grade) for the AMIDE analysis.

Combined analysis:

Analysis ID AN005327 AN005328 AN005329
Analysis type MS MS MS
Chromatography type Reversed phase HILIC HILIC
Chromatography system Agilent 1260 Agilent 1260 Agilent 1260
Column Waters Atlantis T3 (150 x 4.6mm,5um) Waters XBridge BEH Amide (100 x 2.1mm,2.5um) Waters XBridge BEH Amide (100 x 2.1mm,2.5um)
MS Type API API API
MS instrument type Triple quadrupole Triple quadrupole Triple quadrupole
MS instrument name ABI Sciex 6500 QTrap ABI Sciex 6500 QTrap ABI Sciex 6500 QTrap
Ion Mode POSITIVE NEGATIVE NEGATIVE
Units abundance abundance abundance

Chromatography:

Chromatography ID:CH004029
Chromatography Summary:Chromatographic method to detect analytes such as amino acids, endocannabinoids, fatty acid β-oxidation intermediates, gut-derived metabolites, nucleotides, neurotransmitters, cofactors and vitamins.
Instrument Name:Agilent 1260
Column Name:Waters Atlantis T3 (150 x 4.6mm,5um)
Column Temperature:40
Flow Gradient:The LC gradient program begins with an initial condition of 5% solvent A and 95% solvent B, with a flow rate of 0.25 mL/min, which is held for 0.5 minutes to establish system equilibration. The gradient then proceeds as follows: at 6 minutes, the mobile phase composition shifts to 60% solvent A and 40% solvent B for 3minutes; at 10 minutes, it changes back to 5% solvent A and 95% solvent B; at 11 minutes, the flow rate increases to 0.4 mL/min while maintaining a composition of 5% solvent A and 95% solvent B for a duration of 12.5 minutes; and at 24.5 minutes, the flow rate decreases back to 0.25 mL/min. The final condition is maintained for 1 minutes to ensure stability before subsequent analyses.
Flow Rate:0.250 – 0.400 mL/min
Solvent A:100% water; 0.1% formic acid; 10 mM ammonium formate (pH ~2.5)
Solvent B:100% acetonitrile; 0.1% formic acid
Chromatography Type:Reversed phase
  
Chromatography ID:CH004030
Chromatography Summary:Chromatographic method to detect analytes such as amino acids, endocannabinoids, fatty acid β-oxidation intermediates, gut-derived metabolites, nucleotides, neurotransmitters, cofactors and vitamins.
Instrument Name:Agilent 1260
Column Name:Waters XBridge BEH Amide (100 x 2.1mm,2.5um)
Column Temperature:40
Flow Gradient:The LC gradient program is initialized with an initial mobile phase composition of 15% solvent A and 85% solvent B at a flow rate of 0.25 mL/min. Over the course of 8 minutes, the mobile phase composition undergoes a transition to 65% solvent A and 35% solvent B. Subsequently, at 8 minutes, the composition shifts to 98% solvent A and 2% solvent B, maintained for 1 minute. The mobile phase reverts back to the initial composition of 15% solvent A and 85% solvent B at 10 minutes. At 12.5 minutes, the flow rate is increased to 0.4 mL/min, while maintaining a constant mobile phase composition of 15% solvent A and 85% solvent B for a period of 2.5 minutes. Finally, at 15 minutes, the flow rate is reduced back to 0.25 mL/min. To ensure system stability, the final condition is maintained for 1 minute prior to subsequent analyses.
Flow Rate:0.250 – 0.400 mL/min
Solvent A:95% acetonitrile/5% water; 20mM ammonium acetate; 20mM ammonium hydroxide (pH 9.0)
Solvent B:100% acetonitrile
Chromatography Type:HILIC
  
Chromatography ID:CH004031
Chromatography Summary:Chromatographic method to detect analytes such as amino acids, endocannabinoids, fatty acid β-oxidation intermediates, gut-derived metabolites, nucleotides, neurotransmitters, cofactors and vitamins.
Instrument Name:Agilent 1260
Column Name:Waters XBridge BEH Amide (100 x 2.1mm,2.5um)
Column Temperature:40
Flow Gradient:The LC gradient program is initialized with an initial mobile phase composition of 15% solvent A and 85% solvent B at a flow rate of 0.25 mL/min. Over the course of 8 minutes, the mobile phase composition undergoes a transition to 65% solvent A and 35% solvent B. Subsequently, at 8 minutes, the composition shifts to 98% solvent A and 2% solvent B, maintained for 1 minute. The mobile phase reverts back to the initial composition of 15% solvent A and 85% solvent B at 10 minutes. At 12.5 minutes, the flow rate is increased to 0.4 mL/min, while maintaining a constant mobile phase composition of 15% solvent A and 85% solvent B for a period of 2.5 minutes. Finally, at 15 minutes, the flow rate is reduced back to 0.25 mL/min. To ensure system stability, the final condition is maintained for 1 minute prior to subsequent analyses.
Flow Rate:0.250 – 0.400 mL/min
Solvent A:95% acetonitrile/5% water; 20mM ammonium acetate; 20mM ammonium hydroxide (pH 9.0)
Solvent B:100% acetonitrile
Chromatography Type:HILIC

MS:

MS ID:MS005057
Analysis ID:AN005327
Instrument Name:ABI Sciex 6500 QTrap
Instrument Type:Triple quadrupole
MS Type:API
MS Comments:Targeted metabolite profiling was performed using MS multiple reaction-monitoring transitions. Multiple Reaction Monitoring (MRM) Q1/Q3 peak integration of the raw data files (Analyst software, v.1.6.2; ABSciex) was performed using software MultiQuant 3.0 (ABSciex).
Ion Mode:POSITIVE
  
MS ID:MS005058
Analysis ID:AN005328
Instrument Name:ABI Sciex 6500 QTrap
Instrument Type:Triple quadrupole
MS Type:API
MS Comments:Targeted metabolite profiling was performed using MS multiple reaction-monitoring transitions. Multiple Reaction Monitoring (MRM) Q1/Q3 peak integration of the raw data files (Analyst software, v.1.6.2; ABSciex) was performed using software MultiQuant 3.0 (ABSciex).
Ion Mode:NEGATIVE
  
MS ID:MS005059
Analysis ID:AN005329
Instrument Name:ABI Sciex 6500 QTrap
Instrument Type:Triple quadrupole
MS Type:API
MS Comments:Targeted metabolite profiling was performed using MS multiple reaction-monitoring transitions. Multiple Reaction Monitoring (MRM) Q1/Q3 peak integration of the raw data files (Analyst software, v.1.6.2; ABSciex) was performed using software MultiQuant 3.0 (ABSciex).
Ion Mode:NEGATIVE
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