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MB Sample ID: SA006161
| Local Sample ID: | 140826bmssa02_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: | Bacteria |
Select appropriate tab below to view additional metadata details:
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: | Bacteria |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| 140826bmssa02_1 | SA006161 | FL001584 | Wild Type | genotype |
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 |
