Summary of Study ST002339

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 PR001502. The data can be accessed directly via it's Project DOI: 10.21228/M8JD81 This work is supported by NIH grant, U2C- DK119886.

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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 IDST002339
Study TitleMyriocin rescue of serine-associated hepatic lipid diversity
Study SummaryWe analyzed hepatic polar and lipid metabolites in mice (C57BL/6J) in response to two dietary interventions. The first was: 1) low fat (LFD), 2) serine/glycine-free LFD (-SG LFD), high fat (HFD), and serine/glycine-free HFD (-SG HFD). And the second was: 1) low fat (LFD), high fat (HFD), serine/glycine-free HFD (-SG HFD), and serine/glycine-free HFD (-SG HFD) with myriocin (0.3 mg/kg every other day) treatment. The goal of the study was to determine the impact of dietary serine/glycine restriction and myriocin treatment on the hepatic lipidome.
Institute
Salk Institute for Biological Studies
DepartmentMolecular and Cell Biology Laboratory
LaboratoryMetallo Lab
Last NameHandzlik
First NameMichal
Address10010 N Torrey Pines Rd, La Jolla, California, 92037, USA
Emailmhandzlik@salk.edu
Phone2069601945
Submit Date2022-11-10
Num GroupsLFD, -SG LFD, HFD, -SG HFD, LFD+Veh, HFD+Veh, -SG HFD+Veh, -SG HFD+Myr
Total Subjects88
Num Males88
Raw Data AvailableYes
Raw Data File Type(s)mzXML
Analysis Type DetailLC-MS
Release Date2024-01-01
Release Version1
Michal Handzlik Michal Handzlik
https://dx.doi.org/10.21228/M8JD81
ftp://www.metabolomicsworkbench.org/Studies/ application/zip

Select appropriate tab below to view additional metadata details:

Project:

Project ID:PR001502
Project DOI:doi: 10.21228/M8JD81
Project Title:Serine and lipid metabolism
Project Summary:We analyzed hepatic polar and lipid metabolites in mice (C57BL/6J) in response to two dietary interventions. The first was: 1) low fat (LFD), 2) serine/glycine-free LFD (-SG LFD), high fat (HFD), and serine/glycine-free HFD (-SG HFD). And the second was: 1) low fat (LFD), high fat (HFD), serine/glycine-free HFD (-SG HFD), and serine/glycine-free HFD (-SG HFD) with myriocin (0.3 mg/kg every other day) treatment. The goal of the study was to determine the impact of dietary serine/glycine restriction and myriocin treatment on the hepatic lipidome.
Institute:Salk Institute for Biological Studies
Department:Molecular and Cell Biology Laboratory
Laboratory:Metallo Lab
Last Name:Handzlik
First Name:Michal
Address:10010 N Torrey Pines Rd, La Jolla, California, 92037, USA
Email:mhandzlik@salk.edu
Phone:2069601945
Funding Source:R01CA234245

Subject:

Subject ID:SU002428
Subject Type:Mammal
Subject Species:Mus musculus
Taxonomy ID:10090
Genotype Strain:C57BL/6J
Age Or Age Range:8-32-week-old
Weight Or Weight Range:25-50
Gender:Male
Animal Animal Supplier:JAX
Animal Housing:5/cage
Animal Light Cycle:12h dark/12 h light
Animal Feed:Special diets; see group labeling
Animal Water:Ad libitum
Species Group:Mammals

Factors:

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

mb_sample_id local_sample_id Group
SA235018317High fat diet + vehicle
SA235019316High fat diet + vehicle
SA235020314High fat diet + vehicle
SA235021318High fat diet + vehicle
SA235022315High fat diet + vehicle
SA235023320High fat diet + vehicle
SA235024323High fat diet + vehicle
SA235025322High fat diet + vehicle
SA235026321High fat diet + vehicle
SA235027313High fat diet + vehicle
SA235028319High fat diet + vehicle
SA235029324High fat diet + vehicle
SA235030304Low fat diet + vehicle
SA235031305Low fat diet + vehicle
SA235032303Low fat diet + vehicle
SA235033301Low fat diet + vehicle
SA235034312Low fat diet + vehicle
SA235035306Low fat diet + vehicle
SA235036302Low fat diet + vehicle
SA235037311Low fat diet + vehicle
SA235038307Low fat diet + vehicle
SA235039310Low fat diet + vehicle
SA235040309Low fat diet + vehicle
SA235041308Low fat diet + vehicle
SA235042342Serine/glycine-free high fat diet + myriocin
SA235043343Serine/glycine-free high fat diet + myriocin
SA235044338Serine/glycine-free high fat diet + myriocin
SA235045340Serine/glycine-free high fat diet + myriocin
SA235046341Serine/glycine-free high fat diet + myriocin
SA235047346Serine/glycine-free high fat diet + myriocin
SA235048337Serine/glycine-free high fat diet + myriocin
SA235049348Serine/glycine-free high fat diet + myriocin
SA235050347Serine/glycine-free high fat diet + myriocin
SA235051345Serine/glycine-free high fat diet + myriocin
SA235052344Serine/glycine-free high fat diet + myriocin
SA235053331Serine/glycine-free high fat diet + vehicle
SA235054328Serine/glycine-free high fat diet + vehicle
SA235055327Serine/glycine-free high fat diet + vehicle
SA235056326Serine/glycine-free high fat diet + vehicle
SA235057325Serine/glycine-free high fat diet + vehicle
SA235058329Serine/glycine-free high fat diet + vehicle
SA235059330Serine/glycine-free high fat diet + vehicle
SA235060335Serine/glycine-free high fat diet + vehicle
SA235061334Serine/glycine-free high fat diet + vehicle
SA235062333Serine/glycine-free high fat diet + vehicle
SA235063332Serine/glycine-free high fat diet + vehicle
SA235064336Serine/glycine-free high fat diet + vehicle
Showing results 1 to 47 of 47

Collection:

Collection ID:CO002421
Collection Summary:Liver samples were collected using Wollenberger clamps pre-cooled to the temperature of liquid nitrogen and stored at -80 C until analysis.
Sample Type:Liver
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002440
Treatment Summary:Animals were subjected to 4 different conditions for a period of 24 weeks: 1) low fat diet + vehicle, 2) high fat diet + vehicle, 3) serine/glycine-free high fat diet + vehicle, and 4) serine/glycine-free high fat diet + myriocin.

Sample Preparation:

Sampleprep ID:SP002434
Sampleprep Summary:Samples were extracted with 400 ul of methanol (-20 C), 100 ul of water (ice-cold), 400 saline (ice-cold), and 1000 ul of chloroform (-20 C).
Processing Storage Conditions:Room temperature
Extract Storage:4℃

Combined analysis:

Analysis ID AN003822
Analysis type MS
Chromatography type Reversed phase
Chromatography system Thermo Vanquish
Column Thermo Accucore C30 (150 x 2.1mm,2.6um)
MS Type ESI
MS instrument type Ion trap
MS instrument name Thermo Q Exactive Orbitrap
Ion Mode POSITIVE
Units normalized ion count/mg protein

Chromatography:

Chromatography ID:CH002828
Chromatography Summary:30% to 43% B from 3-8 min, then from 43% to 50% B from 8-9 min, then 50-90% B from 9-18 min, then 90-99% B from 18-26 min, then held at 99% B from 26-30 min, before returning to 30% B in 6 min and held for a further 4 min
Instrument Name:Thermo Vanquish
Column Name:Thermo Accucore C30 (150 x 2.1mm,2.6um)
Column Temperature:40
Flow Rate:0.2 ml/min
Solvent A:40% water/60% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Solvent B:90% isopropanol/10% acetonitrile; 0.1% formic acid; 10 mM ammonium formate
Chromatography Type:Reversed phase

MS:

MS ID:MS003564
Analysis ID:AN003822
Instrument Name:Thermo Q Exactive Orbitrap
Instrument Type:Ion trap
MS Type:ESI
MS Comments:El-MAVEN
Ion Mode:POSITIVE
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