Summary of Study ST000074

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 PR000071. The data can be accessed directly via it's Project DOI: 10.21228/M8G01M This work is supported by NIH grant, U2C- DK119886.

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Study IDST000074
Study TitleGenetic effects of high fat diet on mouse fecal metabolomics
Study SummaryThis study includes 72 female mice with 4 mice from each of the 18 mice strains. Two mice from each strain were fed a high fat diet and two mice were fed a normal fat diet. The 36 mice fed a normal fat diet will serve as the controls. All mice are age 27.6 weeks or older at the time of sacrifice. UPLC-MS data was collected for all 72 samples.
Institute
University of North Carolina
DepartmentDiscovery and Analytical Sciences (DAS)
LaboratorySumner Lab
Last NameSumner
First NameSusan
AddressEastern Regional Comprehensive Metabolomics Resource Core, UNC Nutrition Research Institute, 500 Laureate Way, Kannapolis, NC, 28081
Emailsusan_sumner @unc.edu
Phone704-250-5066
Submit Date2014-06-14
Num Groups36
Total Subjects72
Raw Data AvailableNo
Raw Data File Type(s)raw(Waters)
Analysis Type DetailLC-MS
Release Date2015-06-01
Release Version1
Susan Sumner Susan Sumner
https://dx.doi.org/10.21228/M8G01M
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR000071
Project DOI:doi: 10.21228/M8G01M
Project Title:Genetic effects of high fat diet on mouse fecal metabolomics
Project Type:Analysis of fecal metabolite profiles of genetically diverse BXD mouse strains receiving diets high or low in fat to elucidate the metabolism of the GI tract and obesity
Project Summary:We will study expression of a large series of metabolites in fecal samples from a genetically diverse set of mouse strains (BXD type). Separate cohorts of animals are maintained either on a 6% low fat diet or on a 60% high fat diet and at several points during normal life span. We predict that these dietary differences will have profound effects on the gastrointestinal (GI) tract and fecal metabolites, and that the differences will be influenced strongly by genetic factors. We also expect that fecal metabolite data will be a useful predictor of major outcome measures, such as fat mass, longevity, and mitochondrial state. All metabolite data will be entered into the GeneNetwork web service for genetic analysis of the effects of metabolites and diet on GI tract metabolism.
Institute:University of Tennessee
Department:Department of Anatomy and Neurobiology, Health Science Center
Last Name:Williams
First Name:Rovert
Address:855 Monroe Avenue, #515 LINK bldg, Memphis TN 38163 USA
Email:rwilliams@uthsc.edu
Phone:901-448-7050

Subject:

Subject ID:SU000093
Subject Type:Animal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:BXD genotype panel
Age Or Age Range:201-740 days
Weight Or Weight Range:19.67-76.2g
Gender:Female
Animal Animal Supplier:The Jackson Laboratory
Animal Feed:Harlan Teklad 2018 (control) and 06414 (high fat)
Species Group:Mammal

Factors:

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

mb_sample_id local_sample_id Genotype Diet
SA003813F_CTRL_FAC1066B6D2F1 Control
SA003814F_CTRL_FAC1065B6D2F1 Control
SA003815F_HFAT_FAC1068B6D2F1 High-Fat
SA003816F_HFAT_FAC1067B6D2F1 High-Fat
SA003817F_CTRL_FAC688BXD29 Control
SA003818F_CTRL_FAC687BXD29 Control
SA003819F_HFAT_FAC617BXD29 High-Fat
SA003820F_HFAT_FAC618BXD29 High-Fat
SA003821F_CTRL_FAC256BXD34 Control
SA003822F_CTRL_FAC254BXD34 Control
SA003823F_HFAT_FAC253BXD34 High-Fat
SA003824F_HFAT_FAC255BXD34 High-Fat
SA003825F_CTRL_FAC117BXD48 Control
SA003826F_CTRL_FAC121BXD48 Control
SA003827F_HFAT_FAC539BXD48 High-Fat
SA003828F_HFAT_FAC538BXD48 High-Fat
SA003829F_CTRL_FAC650BXD51 Control
SA003830F_CTRL_FAC649BXD51 Control
SA003831F_HFAT_FAC550BXD51 High-Fat
SA003832F_HFAT_FAC548BXD51 High-Fat
SA003833F_CTRL_FAC700BXD67 Control
SA003834F_CTRL_FAC701BXD67 Control
SA003835F_HFAT_FAC365BXD67 High-Fat
SA003836F_HFAT_FAC366BXD67 High-Fat
SA003837F_CTRL_FAC911BXD68 Control
SA003838F_CTRL_FAC910BXD68 Control
SA003839F_HFAT_FAC912BXD68 High-Fat
SA003840F_HFAT_FAC913BXD68 High-Fat
SA003841F_CTRL_FAC542BXD69 Control
SA003842F_CTRL_FAC541BXD69 Control
SA003843F_HFAT_FAC525BXD69 High-Fat
SA003844F_HFAT_FAC524BXD69 High-Fat
SA003845F_CTRL_FAC246BXD73b Control
SA003846F_CTRL_FAC248BXD73b Control
SA003847F_HFAT_FAC722BXD73b High-Fat
SA003848F_HFAT_FAC724BXD73b High-Fat
SA003849F_CTRL_FAC131BXD77 Control
SA003850F_CTRL_FAC133BXD77 Control
SA003851F_HFAT_FAC130BXD77 High-Fat
SA003852F_HFAT_FAC132BXD77 High-Fat
SA003853F_CTRL_FAC768BXD79 Control
SA003854F_CTRL_FAC769BXD79 Control
SA003855F_HFAT_FAC533BXD79 High-Fat
SA003856F_HFAT_FAC532BXD79 High-Fat
SA003857F_CTRL_FAC587BXD84 Control
SA003858F_CTRL_FAC588BXD84 Control
SA003859F_HFAT_FAC509BXD84 High-Fat
SA003860F_HFAT_FAC510BXD84 High-Fat
SA003861F_CTRL_FAC276BXD87 Control
SA003862F_CTRL_FAC274BXD87 Control
SA003863F_HFAT_FAC498BXD87 High-Fat
SA003864F_HFAT_FAC497BXD87 High-Fat
SA003865F_CTRL_FAC697BXD90 Control
SA003866F_CTRL_FAC698BXD90 Control
SA003867F_HFAT_FAC682BXD90 High-Fat
SA003868F_HFAT_FAC681BXD90 High-Fat
SA003869F_CTRL_FAC820BXD91 Control
SA003870F_CTRL_FAC821BXD91 Control
SA003871F_HFAT_FAC818BXD91 High-Fat
SA003872F_HFAT_FAC819BXD91 High-Fat
SA003873F_CTRL_FAC344BXD9 Control
SA003874F_CTRL_FAC342BXD9 Control
SA003875F_HFAT_FAC347BXD9 High-Fat
SA003876F_HFAT_FAC345BXD9 High-Fat
SA003877F_CTRL_FAC483C57BL/6J Control
SA003878F_CTRL_FAC482C57BL/6J Control
SA003879F_HFAT_FAC477C57BL/6J High-Fat
SA003880F_HFAT_FAC478C57BL/6J High-Fat
SA003881F_CTRL_FAC988DBA/2J Control
SA003882F_CTRL_FAC989DBA/2J Control
SA003883F_HFAT_FAC987DBA/2J High-Fat
SA003884F_HFAT_FAC986DBA/2J High-Fat
SA003795FPALL_0002-- All Pool
SA003796FPALL_0001 -- All Pool
SA003797FPALL_0004-- All Pool
SA003798FPALL_0003-- All Pool
SA003799FPALL_0005-- All Pool
SA003800FPALL_0006-- All Pool
SA003801FPCTRL0004-- Control-Pool
SA003802FPCTRL0003-- Control-Pool
SA003803FPCTRL0001 -- Control-Pool
SA003804FPCTRL0005-- Control-Pool
SA003805FPCTRL0002-- Control-Pool
SA003806FPCTRL0006-- Control-Pool
SA003807FPHFAT0003-- High-Fat-Pool
SA003808FPHFAT0002-- High-Fat-Pool
SA003809FPHFAT0006-- High-Fat-Pool
SA003810FPHFAT0001 -- High-Fat-Pool
SA003811FPHFAT0004-- High-Fat-Pool
SA003812FPHFAT0005-- High-Fat-Pool
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Collection:

Collection ID:CO000076
Collection Summary:-
Sample Type:Feces

Treatment:

Treatment ID:TR000094

Sample Preparation:

Sampleprep ID:SP000089
Sampleprep Summary:Samples were extracted using 95:5 water:methanol.
Sampleprep Protocol Filename:RTI_WILLIAMS_Metabolomics_Procedure.docx
Extraction Method:95:5 water:methanol
Extract Storage:-80 C
Sample Spiking:L-Tryptophan-d5
Organ:Feces

Combined analysis:

Analysis ID AN000117 AN000118
Analysis type MS MS
Chromatography type Reversed phase Reversed phase
Chromatography system Waters Acquity Waters Acquity
Column Waters Acquity HSS T3 (100 x 2.1mm,1.8um) Waters Acquity HSS T3 (100 x 2.1mm,1.8um)
MS Type ESI ESI
MS instrument type QTOF QTOF
MS instrument name Waters Synapt G2 Waters Synapt G2
Ion Mode POSITIVE NEGATIVE
Units Normalized abundance Normalized abundance

Chromatography:

Chromatography ID:CH000080
Instrument Name:Waters Acquity
Column Name:Waters Acquity HSS T3 (100 x 2.1mm,1.8um)
Column Pressure:6000-10000
Column Temperature:50 C
Flow Gradient:Time(min) Flow Rate %A %B Curve ; 1. Initial 0.400 100.0 0.0 ; 2. 1.00 0.400 100.0 0.0 6 ; 3. 16.00 0.400 0.0 100.0 6 ; 4. 20.00 0.400 0.0 100.0 6 ; 5. 22.00 0.400 100.0 0.0 6
Flow Rate:0.4 mL/min
Injection Temperature:8 C
Internal Standard:L-Tryptophan-d5
Solvent A:100% water; 0.1% formic acid
Solvent B:100% methanol; 0.1% formic acid
Analytical Time:22 min
Weak Wash Solvent Name:5%MeOH
Weak Wash Volume:1000 uL
Strong Wash Solvent Name:80%MeOH
Strong Wash Volume:1000 uL
Target Sample Temperature:8 C
Sample Loop Size:10 uL
Sample Syringe Size:100 uL
Randomization Order:Yes
Chromatography Type:Reversed phase

MS:

MS ID:MS000093
Analysis ID:AN000117
Instrument Name:Waters Synapt G2
Instrument Type:QTOF
MS Type:ESI
Ion Mode:POSITIVE
Capillary Temperature:110 C
Capillary Voltage:3.2 kV
Collision Energy:4
Helium Flow:180
Ionization:ES+
Mass Accuracy:10 ppm
Source Temperature:110 C
Dataformat:Continuum
Desolvation Gas Flow:400 L/Hr
Desolvation Temperature:400 C
Resolution Setting:18000
Scan Range Moverz:50-1000 m/s
Scanning Cycle:1 s
Tube Lens Voltage:75
  
MS ID:MS000094
Analysis ID:AN000118
Instrument Name:Waters Synapt G2
Instrument Type:QTOF
MS Type:ESI
Ion Mode:NEGATIVE
Capillary Temperature:110 C
Capillary Voltage:2.8 kV
Collision Energy:4
Helium Flow:180
Ionization:ES-
Source Temperature:110 C
Dataformat:Continuum
Desolvation Gas Flow:400 L/Hr
Desolvation Temperature:400 C
Resolution Setting:18000
Scan Range Moverz:50-1000 m/z
Scanning Cycle:1 s
Tube Lens Voltage:74
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