Summary of Study ST001609

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 PR001034. The data can be accessed directly via it's Project DOI: 10.21228/M81X28 This work is supported by NIH grant, U2C- DK119886.

See: https://www.metabolomicsworkbench.org/about/howtocite.php

Study ID	ST001609
Study Title	Comparative metabolomics analysis of two Saccharomyces cerevisiae strains: the wild type and mtl1Δ, which carries a deletion of the mechanosensor Mtl1p (part-I)
Study Summary	To gather more in-depth knowledge of the Mtl1p mechanosensor's role in Saccharomyces cerevisiae metabolism, we conducted a comparative metabolomic analysis of two Saccharomyces cerevisiae strains: the wild type and mtl1Δ, which carries a deletion of the mechanosensor Mtl1p. Both strains were grown under normal conditions at 27°C. The most significant metabolic changes between these strains were related to amino acid metabolism, purine metabolism, and carboxylic acid metabolism.
Institute	University of Puerto Rico, Medical Sciences Campus
Last Name	Chorna
First Name	Nataliya
Address	University of Puerto Rico, Medical Sciences Campus, Department of Biochemistry, Main Building, 6th Floor, Room A-632, San Juan, PR 00935
Email	nataliya.chorna@upr.edu
Phone	787-758-2525 ext 1640
Submit Date	2020-11-27
Num Groups	2
Total Subjects	26
Raw Data Available	Yes
Raw Data File Type(s)	qgd
Analysis Type Detail	GC-MS
Release Date	2020-12-10
Release Version	1

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Project:

Project ID:	PR001034
Project DOI:	doi: 10.21228/M81X28
Project Title:	Comparative metabolomics analysis of two Saccharomyces cerevisiae strains: the wild type and mtl1?, which carries a deletion of the mechanosensor Mtl1p
Project Summary:	To gather more in-depth knowledge of the Mtl1p mechanosensor's role in Saccharomyces cerevisiae metabolism, we conducted a comparative metabolomic analysis of two Saccharomyces cerevisiae strains: the wild type and mtl1?, which carries a deletion of the mechanosensor Mtl1p. Both strains were grown under normal conditions at 27°C. The most significant metabolic changes between these strains were related to amino acid metabolism, purine metabolism, and carboxylic acid metabolism.
Institute:	University of Puerto Rico, Medical Sciences Campus
Department:	Biochemistry
Last Name:	Chorna
First Name:	Nataliya
Address:	University of Puerto Rico, Medical Sciences Campus, Department of Biochemistry, Main Building, 6th Floor, Room A-632, San Juan, PR 00935
Email:	nataliya.chorna@upr.edu
Phone:	787-758-2525 x 1640
Funding Source:	NIGMS-NIH-PRINBRE-P20GM103475
Contributors:	Nelson Martínez–Matías, Sahily González–Crespo

Subject:

Subject ID:	SU001686
Subject Type:	Yeast
Subject Species:	Saccharomyces cerevisiae
Taxonomy ID:	4932
Genotype Strain:	BY4742, YGR023w
Cell Biosource Or Supplier:	Open Biosystems

Factors:

Subject type: Yeast; Subject species: Saccharomyces cerevisiae (Factor headings shown in green)

mb_sample_id	local_sample_id	Strain
SA136735	YGR023w-10	mtl1Δ
SA136736	YGR023w-9	mtl1Δ
SA136737	YGR023w-11	mtl1Δ
SA136738	YGR023w-13	mtl1Δ
SA136739	YGR023w-8	mtl1Δ
SA136740	YGR023w-12	mtl1Δ
SA136741	YGR023w-1	mtl1Δ
SA136742	YGR023w-3	mtl1Δ
SA136743	YGR023w-2	mtl1Δ
SA136744	YGR023w-4	mtl1Δ
SA136745	YGR023w-5	mtl1Δ
SA136746	YGR023w-6	mtl1Δ
SA136747	YGR023w-7	mtl1Δ
SA136722	BY4742-11	Wild-type
SA136723	BY4742-9	Wild-type
SA136724	BY4742-12	Wild-type
SA136725	BY4742-13	Wild-type
SA136726	BY4742-1	Wild-type
SA136727	BY4742-8	Wild-type
SA136728	BY4742-10	Wild-type
SA136729	BY4742-7	Wild-type
SA136730	BY4742-2	Wild-type
SA136731	BY4742-4	Wild-type
SA136732	BY4742-3	Wild-type
SA136733	BY4742-5	Wild-type
SA136734	BY4742-6	Wild-type

Showing results 1 to 26 of 26

Showing results 1 to 26 of 26

Collection:

Collection ID:	CO001679
Collection Summary:	Cells were grown at 27°C, 210 rpm in 5 mL of complete synthetic medium (CSM, 0.67% Nitrogen base without amino acids and ammonium sulfate, 2% glucose). The next day, cells were replaced with fresh CSM and grow at 27°C to reach an OD of 0.6 - 0.7. 25 ml of each sample were harvested by centrifugation at 3,838 x g for 5 min at 4°C, washed with 1 ml ice cold sterile water, quenched using ice cold methanol, and stored at -80°C.
Sample Type:	Yeast cells

Treatment:

Treatment ID:	TR001699
Treatment Summary:	No treatment

Sample Preparation:

Sampleprep ID:	SP001692
Sampleprep Summary:	Extraction of metabolites was performed by homogenization in 1 mL of cold methanol/H2O (1:1) extraction solution and centrifugated at 167 x g at 4°C for 5 min. Supernatants were collected and evaporated to dryness in a nitrogen stream stream at 50 ºC (RapidVap, Labconco). Nitrilation was performed by adding 150 μL of 0.2 mM hydroxylammonium chloride in pyridine to the dried sample, and then heating at 90ºC for 40 minutes. After that, acetylation was performed by adding 250 μL of acetic anhydride, and then heating at 90 ºC for 60 minutes. After that, the sample was dried again in a nitrogen gas stream, and then redissolved in 400 μL of ethyl acetate. Derivatized samples were collected and stored at -20ºC.

Sampleprep ID:

SP001692

Sampleprep Summary:

Extraction of metabolites was performed by homogenization in 1 mL of cold methanol/H2O (1:1) extraction solution and centrifugated at 167 x g at 4°C for 5 min. Supernatants were collected and evaporated to dryness in a nitrogen stream stream at 50 ºC (RapidVap, Labconco). Nitrilation was performed by adding 150 μL of 0.2 mM hydroxylammonium chloride in pyridine to the dried sample, and then heating at 90ºC for 40 minutes. After that, acetylation was performed by adding 250 μL of acetic anhydride, and then heating at 90 ºC for 60 minutes. After that, the sample was dried again in a nitrogen gas stream, and then redissolved in 400 μL of ethyl acetate. Derivatized samples were collected and stored at -20ºC.

Combined analysis:

Analysis ID	AN002643
Analysis type	MS
Chromatography type	GC
Chromatography system	Shimadzu GCMS-QP2010 ultra
Column	Shimadzu SH-RXI (30m x 0.25mm,0.25um)
MS Type	EI
MS instrument type	Single quadrupole
MS instrument name	Shimadzu QP2010 Ultra
Ion Mode	POSITIVE
Units	mM

Chromatography:

Chromatography ID:	CH001952
Instrument Name:	Shimadzu GCMS-QP2010 ultra
Column Name:	Shimadzu SH-RXI (30m x 0.25mm,0.25um)
Chromatography Type:	GC

MS:

MS ID:	MS002455
Analysis ID:	AN002643
Instrument Name:	Shimadzu QP2010 Ultra
Instrument Type:	Single quadrupole
MS Type:	EI
MS Comments:	Inlet temperature was 280°C; ion source temperature was 200 °C. MS conditions were set as follows: SIM acquisition mode, electron energy of 70 eV, quadrupole scan range of m/z 115; 187; 212;314. Data were processed using the GCMS Solution Postrun Analysis software (Shimadzu Inc) for metabolites identification from their electron impact mass spectra by comparison to the NIST 2014 spectral mass library.
Ion Mode:	POSITIVE