Summary of Study ST002369

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 PR001523. The data can be accessed directly via it's Project DOI: 10.21228/M8TQ5G 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.

Study ID	ST002369
Study Title	The impact of acute Colony Stimulating Factor 1 treatment on serum and liver metabolites in fed and fasted mice LIVER
Study Type	Drug treatment
Study Summary	The aim of the study was to investigate the impact of expanding tissue macrophage populations on systemic metabolism. Groups of male mice were treated with 4 x daily injections of Colony Stimulating Factor (1), followed by normal feeding or a 24 h fast from day 6 to day 7. Serum and liver were collected for GC-MS metabolomic analysis on a Shimadzu TQ8050.
Institute	University of Queensland
Department	Mater Research-UQ
Laboratory	Irvine
Last Name	Irvine
First Name	Katharine
Address	Translational Research Institute, 37 Kent St
Email	katharine.irvine@uq.edu.au
Phone	+61734437655
Submit Date	2022-11-27
Num Groups	4
Total Subjects	20
Num Males	20
Raw Data Available	Yes
Raw Data File Type(s)	mzXML
Analysis Type Detail	GC-MS
Release Date	2023-08-01
Release Version	1

Select appropriate tab below to view additional metadata details:

Project:

Project ID:	PR001523
Project DOI:	doi: 10.21228/M8TQ5G
Project Title:	The impact of acute Colony Stimulating Factor 1 treatment on serum and liver metabolites in fed and fasted mice
Project Type:	Drug treatment
Project Summary:	Groups of male mice were treated with 4 x daily injections of Colony Stimulating Factor (1), followed by normal feeding or a 24 h fast from day 6 to day 7. Serum and liver were collected for GC-MS metabolomic analysis on a Shimadzu TQ8050NX.
Institute:	University of Queensland
Department:	Mater Research-UQ
Laboratory:	Irvine
Last Name:	Irvine
First Name:	Katharine
Address:	Translational Research Institute, 37 Kent St, Woolloongabba, 4102, QLD, Australia
Email:	katharine.irvine@uq.edu.au
Phone:	+61734437655

Subject:

Subject ID:	SU002458
Subject Type:	Mammal
Subject Species:	Mus musculus
Taxonomy ID:	10090
Genotype Strain:	wild type C57BL6/J
Age Or Age Range:	8 weeks
Weight Or Weight Range:	25-30g
Gender:	Male
Animal Animal Supplier:	Animal Resource Centre, Western Australai
Animal Housing:	standard
Animal Light Cycle:	12 h light dark cycle
Animal Feed:	normal chow
Animal Water:	autoclaved
Species Group:	Mammals

Factors:

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

mb_sample_id	local_sample_id	Treatment
SA237272	m319	Fasted/CSF1-FC
SA237273	m318	Fasted/CSF1-FC
SA237274	m314	Fasted/CSF1-FC
SA237275	m315	Fasted/CSF1-FC
SA237276	m322	Fasted/CSF1-FC
SA237277	m321	Fasted/CSF1-FC
SA237278	m311	Fasted/Saline
SA237279	m312	Fasted/Saline
SA237280	m320	Fasted/Saline
SA237281	m316	Fasted/Saline
SA237282	liverPBQC_3	Pooled Biological Quality Control
SA237283	liverPBQC_6	Pooled Biological Quality Control
SA237284	liverPBQC_5	Pooled Biological Quality Control
SA237285	liverPBQC_4	Pooled Biological Quality Control
SA237286	liverPBQC_2	Pooled Biological Quality Control
SA237287	liverPBQC_1	Pooled Biological Quality Control
SA237288	m334	Unfasted/CSF1-FC
SA237289	m335	Unfasted/CSF1-FC
SA237290	m330	Unfasted/CSF1-FC
SA237291	m326	Unfasted/CSF1-FC
SA237292	m323	Unfasted/CSF1-FC
SA237293	m327	Unfasted/CSF1-FC
SA237294	m324	Unfasted/Saline
SA237295	m328	Unfasted/Saline
SA237296	m333	Unfasted/Saline
SA237297	m332	Unfasted/Saline

Showing results 1 to 26 of 26

Showing results 1 to 26 of 26

Collection:

Collection ID:	CO002451
Collection Summary:	Liver samples were obtained from the same region of the left lateral lobe for each mouse.
Collection Protocol Filename:	Irvine_methods.docx
Sample Type:	Liver

Treatment:

Treatment ID:	TR002470
Treatment Summary:	Groups of male mice were treated with 4 x daily injections of Colony Stimulating Factor (1), followed by normal feeding or a 24 h fast from day 6 to day 7.

Sample Preparation:

Sampleprep ID:	SP002464
Sampleprep Summary:	Metabolites were extracted from 50 µl serum using 150 µl methanol and 50 µl chloroform, including 13C-sorbitol and 13C,15N-valine internal standards, and 30 µl of clarified sera was prepared for GC-MS analysis. Liver metabolites were extracted from 20-40 mg liver tissue (sampled from the same region of the left lateral lobe) in 600 µl methanol:MilliQ water (3:1), including 13C-sorbitol and 13C,15N-valine internal standards. The tissue was cryomilled at 4°C. 110 µl chloroform was added to 440 µg homogenate which was transferred to a new tube and the sample thermomixed for 20 minutes then centrifuged at 13,000 rpm for 15 minutes. 30 µl supernatant was dried in inserts for GC-MS analysis. Dried samples for targeted analysis were derivatised online using the Shimadzu AOC6000 autosampler robot. Derivatisation was achieved by the addition of 25 µL methoxyamine hydrochloride (30 mg/mL in pyridine, Merck) followed by shaking at 37°C for 2h. Samples were then derivatised with 25 µL of N,O-bis (trimethylsilyl)trifluoroacetamide with trimethylchlorosilane (BSTFA with 1% TMCS, Thermo Scientific) for 1h at 37°C. The sample was allowed to equilibrate at room temperature for 1 h before 1 µL was injected onto the GC column using a hot needle technique. Split (1:10) injections were performed for each sample.

Sampleprep ID:

SP002464

Sampleprep Summary:

Metabolites were extracted from 50 µl serum using 150 µl methanol and 50 µl chloroform, including 13C-sorbitol and 13C,15N-valine internal standards, and 30 µl of clarified sera was prepared for GC-MS analysis. Liver metabolites were extracted from 20-40 mg liver tissue (sampled from the same region of the left lateral lobe) in 600 µl methanol:MilliQ water (3:1), including 13C-sorbitol and 13C,15N-valine internal standards. The tissue was cryomilled at 4°C. 110 µl chloroform was added to 440 µg homogenate which was transferred to a new tube and the sample thermomixed for 20 minutes then centrifuged at 13,000 rpm for 15 minutes. 30 µl supernatant was dried in inserts for GC-MS analysis. Dried samples for targeted analysis were derivatised online using the Shimadzu AOC6000 autosampler robot. Derivatisation was achieved by the addition of 25 µL methoxyamine hydrochloride (30 mg/mL in pyridine, Merck) followed by shaking at 37°C for 2h. Samples were then derivatised with 25 µL of N,O-bis (trimethylsilyl)trifluoroacetamide with trimethylchlorosilane (BSTFA with 1% TMCS, Thermo Scientific) for 1h at 37°C. The sample was allowed to equilibrate at room temperature for 1 h before 1 µL was injected onto the GC column using a hot needle technique. Split (1:10) injections were performed for each sample.

Combined analysis:

Analysis ID	AN003864
Analysis type	MS
Chromatography type	None (Direct infusion)
Chromatography system	Shimadzu TQ8050NX
Column	Agilent DB5-MS (30m)
MS Type	ESI
MS instrument type	Triple quadrupole
MS instrument name	Shimadzu TQ8050NX
Ion Mode	UNSPECIFIED
Units	area

Chromatography:

Chromatography ID:	CH002862
Instrument Name:	Shimadzu TQ8050NX
Column Name:	Agilent DB5-MS (30m)
Chromatography Type:	None (Direct infusion)

MS:

MS ID:	MS003605
Analysis ID:	AN003864
Instrument Name:	Shimadzu TQ8050NX
Instrument Type:	Triple quadrupole
MS Type:	ESI
MS Comments:	The GC-MS system used comprised of an AOC6000 autosampler, a 2030 Shimadzu gas chromatograph and a TQ8050NX triple quadrupole mass spectrometer (Shimadzu, Japan). The mass spectrometer was tuned according to the manufacturer’s recommendations using tris-(perfluorobutyl)-amine (CF43). GC-MS was performed on a 30m Agilent DB-5 column with 0.25mm internal diameter column and 1µm film thickness. The injection temperature (inlet) was set at 280°C, the MS transfer line at 280°C and the ion source adjusted to 200°C. Helium was used as the carrier gas at a flow rate of 1 mL/min and argon gas was used in the collision cell to generate the MRM product ion. The analysis of TMS samples was performed under the following oven temperature program; 100°C start temperature, hold for 4 minutes, followed by a 10°C min-1 oven temperature ramp to 320°C with a following final hold for 11 minutes. Approximately 520 targets were collected using the Shimadzu Smart Metabolite Database, where each target comprised a quantifier MRM along with a qualifier MRM, which covers approximately 350 endogenous metabolites and multiple stable isotopically labelled internal standards. Resultant data was processed using Shimadzu LabSolutions Insight software, where peak integrations were visually validated and manually corrected where required.
Ion Mode:	UNSPECIFIED