Summary of Study ST002343

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 IDST002343
Study TitleThe impact of myriocin and dietary serine restriction on paw skin sphingolipid diversity
Study SummaryWe analyzed paw skin 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 Date2022-11-11
Num GroupsLFD, -SG LFD, HFD, -SG HFD, LFD+Veh, HFD+Veh, -SG HFD+Veh, -SG HFD+Myr
Total Subjects47
Num Males47
Raw Data AvailableYes
Raw Data File Type(s)d
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:SU002432
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
SA235234317High fat diet + vehicle
SA235235316High fat diet + vehicle
SA235236314High fat diet + vehicle
SA235237318High fat diet + vehicle
SA235238315High fat diet + vehicle
SA235239320High fat diet + vehicle
SA235240323High fat diet + vehicle
SA235241322High fat diet + vehicle
SA235242321High fat diet + vehicle
SA235243313High fat diet + vehicle
SA235244319High fat diet + vehicle
SA235245324High fat diet + vehicle
SA235246304Low fat diet + vehicle
SA235247305Low fat diet + vehicle
SA235248303Low fat diet + vehicle
SA235249301Low fat diet + vehicle
SA235250312Low fat diet + vehicle
SA235251306Low fat diet + vehicle
SA235252302Low fat diet + vehicle
SA235253311Low fat diet + vehicle
SA235254307Low fat diet + vehicle
SA235255310Low fat diet + vehicle
SA235256309Low fat diet + vehicle
SA235257308Low fat diet + vehicle
SA235258342Serine/glycine-free high fat diet + myriocin
SA235259343Serine/glycine-free high fat diet + myriocin
SA235260338Serine/glycine-free high fat diet + myriocin
SA235261340Serine/glycine-free high fat diet + myriocin
SA235262341Serine/glycine-free high fat diet + myriocin
SA235263346Serine/glycine-free high fat diet + myriocin
SA235264337Serine/glycine-free high fat diet + myriocin
SA235265348Serine/glycine-free high fat diet + myriocin
SA235266347Serine/glycine-free high fat diet + myriocin
SA235267345Serine/glycine-free high fat diet + myriocin
SA235268344Serine/glycine-free high fat diet + myriocin
SA235269331Serine/glycine-free high fat diet + vehicle
SA235270328Serine/glycine-free high fat diet + vehicle
SA235271327Serine/glycine-free high fat diet + vehicle
SA235272326Serine/glycine-free high fat diet + vehicle
SA235273325Serine/glycine-free high fat diet + vehicle
SA235274329Serine/glycine-free high fat diet + vehicle
SA235275330Serine/glycine-free high fat diet + vehicle
SA235276335Serine/glycine-free high fat diet + vehicle
SA235277334Serine/glycine-free high fat diet + vehicle
SA235278333Serine/glycine-free high fat diet + vehicle
SA235279332Serine/glycine-free high fat diet + vehicle
SA235280336Serine/glycine-free high fat diet + vehicle
Showing results 1 to 47 of 47

Collection:

Collection ID:CO002425
Collection Summary:Paw skin samples were collected using Wollenberger clamps pre-cooled to the temperature of liquid nitrogen and stored at -80 C until analysis.
Sample Type:Paw skin
Storage Conditions:-80℃

Treatment:

Treatment ID:TR002444
Treatment Summary:Animals were subjected to 4 different conditions for a period of 24 weeks: 1) low fat diet, 2) high fat diet, 3) serine/glycine-free high fat diet, and 4) serine/glycine-free high fat diet with myriocin.

Sample Preparation:

Sampleprep ID:SP002438
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 AN003827
Analysis type MS
Chromatography type Reversed phase
Chromatography system Agilent 6460C
Column Spectra 3 μm C8SR 150 × 3 mm inner diameter, Peeke Scientific
MS Type ESI
MS instrument type Triple quadrupole
MS instrument name Agilent 6460 QQQ
Ion Mode POSITIVE
Units normalized ion count/mg protein

Chromatography:

Chromatography ID:CH002832
Chromatography Summary:The gradient elution program consisted of the following profile: 0 min, 82% B; 3 min, 82% B; 4 min, 90% B, 18 min, 99% B; 25 min, 99%, 27 min, 82% B, 30 min, 82% B.
Instrument Name:Agilent 6460C
Column Name:Spectra 3 μm C8SR 150 × 3 mm inner diameter, Peeke Scientific
Column Temperature:40
Flow Rate:0.5 ml/min
Solvent A:100% water; 0.2% formic acid; 2 mM ammonium formate
Solvent B:100% methanol; 0.2% formic acid; 1 mM ammonium formate
Chromatography Type:Reversed phase

MS:

MS ID:MS003569
Analysis ID:AN003827
Instrument Name:Agilent 6460 QQQ
Instrument Type:Triple quadrupole
MS Type:ESI
MS Comments:Mass Hunter
Ion Mode:POSITIVE
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