Return to study ST002841 main page
MB Sample ID: SA307523
| Local Sample ID: | YSf_Mn_Lys2 |
| Subject ID: | SU002951 |
| Subject Type: | Bacteria |
| Subject Species: | Bacillus subtilis |
| Taxonomy ID: | 1423 |
| Genotype Strain: | 168 |
| Age Or Age Range: | NA |
| Weight Or Weight Range: | NA |
| Height Or Height Range: | NA |
| Gender: | Not applicable |
| Cell Biosource Or Supplier: | NA |
| Cell Strain Details: | NA |
| Subject Comments: | NA |
| Cell Primary Immortalized: | NA |
| Cell Passage Number: | NA |
| Cell Counts: | NA |
| Species Group: | NA |
Select appropriate tab below to view additional metadata details:
Subject:
| Subject ID: | SU002951 |
| Subject Type: | Bacteria |
| Subject Species: | Bacillus subtilis |
| Taxonomy ID: | 1423 |
| Genotype Strain: | 168 |
| Age Or Age Range: | NA |
| Weight Or Weight Range: | NA |
| Height Or Height Range: | NA |
| Gender: | Not applicable |
| Cell Biosource Or Supplier: | NA |
| Cell Strain Details: | NA |
| Subject Comments: | NA |
| Cell Primary Immortalized: | NA |
| Cell Passage Number: | NA |
| Cell Counts: | NA |
| Species Group: | NA |
Factors:
| Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
|---|---|---|---|---|
| YSf_Mn_Lys2 | SA307523 | FL037057 | yqgC-sodA_Mn_treated | Genotype |
Collection:
| Collection ID: | CO002944 |
| Collection Summary: | All strains were grown in LB at 37 ˚C until 0.4 OD600 followed by 60 min treatment with or without 0.15 mM MnCl2 37 ˚C. Cells were pelleted and quenched by resuspending in chilled 0.6 ml of mixtures of acetonitrile:methanol:water (40:40:20). |
| Collection Protocol ID: | NA |
| Collection Protocol Filename: | NA |
| Collection Protocol Comments: | NA |
| Sample Type: | Bacterial cells |
| Collection Method: | NA |
| Collection Location: | NA |
| Collection Frequency: | NA |
| Collection Duration: | NA |
| Volumeoramount Collected: | NA |
| Storage Conditions: | -80℃ |
| Collection Vials: | Bead beating tubes |
| Storage Vials: | NA |
| Additives: | NA |
| Tissue Cell Identification: | NA |
| Tissue Cell Quantity Taken: | NA |
Treatment:
| Treatment ID: | TR002960 |
| Treatment Summary: | All strains were treated without (control group) or with (treated group) 0.15 mM of MnCl2 for 60 min at 37 ˚C. |
| Treatment Protocol ID: | NA |
| Treatment Protocol Filename: | NA |
| Treatment Protocol Comments: | NA |
| Treatment: | NA |
| Treatment Compound: | MnCl2 salt |
| Treatment Route: | Direct in bacterial culture |
| Treatment Dose: | 0.15 mM |
| Treatment Dosevolume: | NA |
| Treatment Doseduration: | NA |
| Treatment Vehicle: | Water |
| Cell Storage: | -80 |
| Cell Growth Container: | Flask |
| Cell Growth Config: | 200 rpm |
| Cell Growth Rate: | 40-60 min |
| Cell Inoc Proc: | NA |
| Cell Media: | LB Media |
| Cell Envir Cond: | NA |
| Cell Harvesting: | acetonitrile:methanol:water (40:40:20) |
| Cell Pct Confluence: | 0.4 OD600 |
| Cell Media Lastchanged: | NA |
Sample Preparation:
| Sampleprep ID: | SP002957 |
| Sampleprep Summary: | Samples were lysed using 0.1 mm Zirconia beads in a Precellys homogenizer. Lysed suspensions were centrifuged at 12,000 rpm for 8 min at 37 ˚C. Supernatants were passed through 0.22 um SpinX tube filter and flowthrough was collected for the LC-MS run. |
| Sampleprep Protocol ID: | NA |
| Sampleprep Protocol Filename: | NA |
| Sampleprep Protocol Comments: | NA |
| Processing Method: | NA |
| Processing Storage Conditions: | On ice |
| Extraction Method: | Beat beating |
| Extract Enrichment: | NA |
| Extract Cleanup: | NA |
| Extract Storage: | 4℃ |
| Sample Resuspension: | NA |
| Sample Derivatization: | NA |
| Sample Spiking: | NA |
| Subcellular Location: | NA |
Combined analysis:
| Analysis ID | AN004649 | AN004650 |
|---|---|---|
| Analysis type | MS | MS |
| Chromatography type | Normal phase | Normal phase |
| Chromatography system | Agilent 1290 Infinity II | Agilent 1290 Infinity II |
| Column | Microsolv Diamond hydride (150 x 2.1mm,4um) | Microsolv Diamond hydride (150 x 2.1mm,4um) |
| MS Type | ESI | ESI |
| MS instrument type | QTOF | QTOF |
| MS instrument name | Agilent 6220 TOF | Agilent 6220 TOF |
| Ion Mode | NEGATIVE | POSITIVE |
| Units | Area under the curve | Area under the curve |
Chromatography:
| Chromatography ID: | CH003499 |
| Chromatography Summary: | Liquid chromatography (Agilent 1290 Infinity II) was used for the formic acid method. |
| Methods ID: | NA |
| Methods Filename: | NA |
| Instrument Name: | Agilent 1290 Infinity II |
| Column Name: | Microsolv Diamond hydride (150 x 2.1mm,4um) |
| Column Pressure: | NA |
| Column Temperature: | 25 |
| Flow Gradient: | 0–2 min, 85% B; 3–5 min, 80% B; 6–7 min, 75%; 8–9 min, 70% B; 10–11 min, 50% B; 11–14 min 20% B; 14–24 min 5% B followed by a 10 min re-equilibration period at 85% B |
| Flow Rate: | 0.4 |
| Injection Temperature: | 25 |
| Solvent A: | Milli Q H2O + 0.2% Formic Acid |
| Solvent B: | Acetonitrile + 0.2% Formic Acid |
| Chromatography Type: | Normal phase |
| Solvent C: | NA |
| Chromatography ID: | CH003500 |
| Chromatography Summary: | Liquid chromatography (Agilent 1290 Infinity II) was used for the formic acid method. |
| Instrument Name: | Agilent 1290 Infinity II |
| Column Name: | Microsolv Diamond hydride (150 x 2.1mm,4um) |
| Column Temperature: | 25 |
| Flow Gradient: | 0–2 min, 85% B; 3–5 min, 80% B; 6–7 min, 75%; 8–9 min, 70% B; 10–11 min, 50% B; 11–14 min 20% B; 14–24 min 5% B followed by a 10 min re-equilibration period at 85% B |
| Flow Rate: | 0.4 |
| Solvent A: | Milli Q H2O + 0.2% Formic Acid |
| Solvent B: | Acetonitrile + 0.2% Formic Acid |
| Chromatography Type: | Normal phase |
| Solvent C: | NA |
MS:
| MS ID: | MS004396 |
| Analysis ID: | AN004649 |
| Instrument Name: | Agilent 6220 TOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | Profinder B.08.00 Was used for the data analysis |
| Ion Mode: | NEGATIVE |
| MS ID: | MS004397 |
| Analysis ID: | AN004650 |
| Instrument Name: | Agilent 6220 TOF |
| Instrument Type: | QTOF |
| MS Type: | ESI |
| MS Comments: | Profinder B.08.00 Was used for the data analysis |
| Ion Mode: | POSITIVE |
