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MB Sample ID: SA006215
Local Sample ID: | 041113_EcoliCells_WT_Pool_MSMS_0064 |
Subject ID: | SU000138 |
Subject Type: | Bacterial cells |
Subject Species: | Salmonella enterica;Escherichia coli |
Taxonomy ID: | 28901|562 |
Genotype Strain: | DM14100|Salmonella enterica subsp. enterica serovar Typhimurium str. LT2|K 12 MG1655|K 12 MG1655 ridA3::tn10 ΔyoaB624::cat STM1549-26::kan| | |yjeF::kan |
Species Group: | Microorganism |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU000138 |
Subject Type: | Bacterial cells |
Subject Species: | Salmonella enterica;Escherichia coli |
Taxonomy ID: | 28901|562 |
Genotype Strain: | DM14100|Salmonella enterica subsp. enterica serovar Typhimurium str. LT2|K 12 MG1655|K 12 MG1655 ridA3::tn10 ΔyoaB624::cat STM1549-26::kan| | |yjeF::kan |
Species Group: | Microorganism |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
041113_EcoliCells_WT_Pool_MSMS_0064 | SA006215 | FL001594 | E.coli | Strain |
041113_EcoliCells_WT_Pool_MSMS_0064 | SA006215 | FL001594 | Wild-type | genotype |
Collection:
Collection ID: | CO000122 |
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: | TR000140 |
Sample Preparation:
Sampleprep ID: | SP000135 |
Sampleprep Summary: | - |
Processing Storage Conditions: | on ice |
Extraction Method: | 1.1 mL of cold, degassed extraction solvent (3:1 Methanol:Water) was added to each sample. Samples were vortexed for 20 sec then placed in sonicator for 5 min, followed by another 20 sec vortex. Samples were placed in -20C for 30 minutes prior to spinning down in centrifuge at 14 rcf for 5 min. The supernatant was transferred to 1.5 mL eppendorf tubes and evaporated in the Labconco speed vac. |
Extract Storage: | -80C |
Sample Resuspension: | H20 + 5mM NH4OAc + 0.2% Acetic Acid |
Combined analysis:
Analysis ID | AN000200 | AN000201 |
---|---|---|
Analysis type | MS | MS |
Chromatography type | HILIC | HILIC |
Chromatography system | Agilent 1290 | Agilent 1290 |
Column | Waters Acquity BEH Amide (150 x 2.1mm,1.7um) | Waters Acquity BEH Amide (150 x 2.1mm,1.7um) |
MS Type | ESI | ESI |
MS instrument type | QTOF | QTOF |
MS instrument name | Agilent 6530 QTOF | Agilent 6530 QTOF |
Ion Mode | POSITIVE | NEGATIVE |
Units | Peak area | Peak area |
Chromatography:
Chromatography ID: | CH000133 |
Chromatography Summary: | Untargeted LC MS |
Instrument Name: | Agilent 1290 |
Column Name: | Waters Acquity BEH Amide (150 x 2.1mm,1.7um) |
Column Pressure: | 300 bar (max) |
Column Temperature: | 40 C |
Flow Gradient: | 0 - 4 min: 0% B; 4-12 min: linear gradient to 45% B; 12-20 min: 45% B |
Flow Rate: | 0.25 mL/min |
Injection Temperature: | 4C |
Sample Injection: | 5 uL |
Solvent A: | 100% water; 0.2% acetic acid; 5mM ammonium acetate |
Solvent B: | 90% acetonitrile/10% water; 0.2% acetic acid; 5 mM ammonium acetate |
Oven Temperature: | H20 + 5mM NH4OAc + 0.2% Acetic Acid |
Time Program: | 20 min |
Weak Wash Solvent Name: | 50:50 Methanol:Water |
Weak Wash Volume: | 15 seconds |
Target Sample Temperature: | Autosampler temperature 4C |
Randomization Order: | Excel generated |
Chromatography Type: | HILIC |
MS:
MS ID: | MS000163 |
Analysis ID: | AN000200 |
Instrument Name: | Agilent 6530 QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
Ion Mode: | POSITIVE |
Capillary Voltage: | 3000 |
Collision Energy: | Ramped 0.02eV/m/z + 10 eV |
Collision Gas: | Nitrogen |
Dry Gas Flow: | Nebulizer: 10 L/min Sheath: 9 L/min |
Dry Gas Temp: | Nebulizer and Sheath: 350 |
Fragment Voltage: | 125 |
Ionization: | Positive |
Precursor Type: | Intact Molecule |
Reagent Gas: | Nitrogen |
Dataformat: | .d |
Nebulizer: | 35 psig |
Octpole Voltage: | 750 |
Resolution Setting: | Extended Dynamic Range |
Scan Range Moverz: | 100 - 1700 m/z |
Scanning Cycle: | 2 |
MS ID: | MS000164 |
Analysis ID: | AN000201 |
Instrument Name: | Agilent 6530 QTOF |
Instrument Type: | QTOF |
MS Type: | ESI |
Ion Mode: | NEGATIVE |
Capillary Voltage: | 3000 |
Collision Energy: | Ramped 0.02eV/m/z + 10 eV |
Collision Gas: | Nitrogen |
Dry Gas Flow: | Nebulizer: 10 L/min Sheath: 9 L/min |
Dry Gas Temp: | Nebulizer and Sheath: 350 |
Fragment Voltage: | 125 |
Ionization: | Negative |
Precursor Type: | Intact Molecule |
Reagent Gas: | Nitrogen |
Dataformat: | .d |
Nebulizer: | 35 psig |
Octpole Voltage: | 750 |
Resolution Setting: | Extended Dynamic Range |
Scan Range Moverz: | 100 - 1700 m/z |
Scanning Cycle: | 2 |