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MB Sample ID: SA006169

Local Sample ID:140826bmssa03_1
Subject ID:SU000136
Subject Type:Bacterial cells
Subject Species:Salmonella enterica;Escherichia coli
Taxonomy ID:28901|562
Genotype Strain:DM3480|DM14100|Salmonella enterica subsp.enterica serovar Typhimurium str.LT2|K12MG1655| ridA3::MudJ|ridA3::tn10ΔyoaB624::catSTM1549-26::kan| | |yjeF::kan
Species Group:Microorganism

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Subject:

Subject ID:SU000136
Subject Type:Bacterial cells
Subject Species:Salmonella enterica;Escherichia coli
Taxonomy ID:28901|562
Genotype Strain:DM3480|DM14100|Salmonella enterica subsp.enterica serovar Typhimurium str.LT2|K12MG1655| ridA3::MudJ|ridA3::tn10ΔyoaB624::catSTM1549-26::kan| | |yjeF::kan
Species Group:Microorganism

Factors:

Local Sample IDMB Sample IDFactor Level IDLevel ValueFactor Name
140826bmssa03_1SA006169FL001585single RidA knockoutgenotype

Collection:

Collection ID:CO000120
Collection Summary:-
Sample Type:Bacterial Cells
Collection Method:6 independent colonies of each cell line were grown in M9 minimal medium at 37C until OD600 reached 1.5-2.0. An equivalent of 1 mL at OD 2.0 was placed into a 1.5 mL Eppi tube and spun for 15 sec. After removal of a 0.5 mL medium aliquot, remaining medium was removed and cell pellet was frozen in liquid nitrogen.
Collection Location:University of Florida, Gainesville
Collection Vials:1.5 mL eppendorf tube
Storage Vials:1.5 mL eppendorf tube

Treatment:

Treatment ID:TR000138

Sample Preparation:

Sampleprep ID:SP000133
Sampleprep Summary:-
Extraction Method:1 mL of cold, degassed extraction solvent (3:3:2 acetonitrile:isopropanol:water v/v/v) was added to each sample, vortexed for 10 seconds, then shaken at 4C for 4 min. Samples were spun down using a centrifuge at 14 rcf for 2 min. Aliquots (450 uL) were transferred to 1.5 mL eppendorf tubes and dried down using a Labconco centrivap evaporator.
Extract Storage:-80C
Sample Derivatization:10 uL of 40 mg/mL methoxyamine hydrochloride in pyridine was added to room temperature samples and shaken for 90 min at 30C. 91 uL of silyating agent (MSTFA) containing a set of 13 C8 - C30 fatty acid methyl ester internal standards was added and samples were shaken for 30 min at 37C. Derivatized samples were transferred to glass vials with inserts for analysis.
Sample Spiking:Set of 13 C8 - C30 fatty acid methyl esters (FAMES)

Combined analysis:

Analysis ID AN000198
Analysis type MS
Chromatography type GC
Chromatography system Agilent 6890N
Column Restek corporation Rtx-5Sil MS
MS Type EI
MS instrument type GC-TOF
MS instrument name Leco Pegasus III GC TOF
Ion Mode POSITIVE
Units Peak area

Chromatography:

Chromatography ID:CH000131
Chromatography Summary:Untargeted GC MS
Methods Filename:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_09-27-2013_general.pdf
Instrument Name:Agilent 6890N
Column Name:Restek corporation Rtx-5Sil MS
Column Temperature:50-330oC
Flow Rate:1ml/min
Internal Standard:fatty acid methyl esters
Sample Injection:0.5uL
Oven Temperature:50C for 1 min, then ramped at 20C min-1 to 330C, held constant for 5 min
Transferline Temperature:280C
Washing Buffer:Ethyl Acetate
Sample Loop Size:30 m length x 0.25 mm internal diameter
Randomization Order:Excel generated
Chromatography Type:GC

MS:

MS ID:MS000161
Analysis ID:AN000198
Instrument Name:Leco Pegasus III GC TOF
Instrument Type:GC-TOF
MS Type:EI
Ion Mode:POSITIVE
Ion Source Temperature:250°C
Ionization:Electron Ionization (EI)
Ionization Energy:-70eV
Mass Accuracy:Nominal
Scanning Range:85-500 Da
Acquisition Parameters File:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_09-27-2013_general.pdf
Processing Parameters File:Data_Dictionary_Fiehn_laboratory_GCTOF_MS_primary_metabolism_09-27-2013_general.pdf
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