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MB Sample ID: SA011815
Local Sample ID: | AB_M3c |
Subject ID: | SU000278 |
Subject Type: | Bacterial cells |
Subject Species: | Sinorhizobium meliloti |
Taxonomy ID: | 382 |
Genotype Strain: | Rm2011 (SU47 str-3)|SmA818|RmP3009|RmP2917 |
Human Ethnicity: | wild type|Rm2011 lack pSymA|Rm2011 lack pSymB|Rm2011 lack pSymA and pSymB | a tRNAarg and the smb20996-engA operon from pSymB were integrated to chromosome in strains RmP3009 and RmP2917 |
Species Group: | Microorganism |
Select appropriate tab below to view additional metadata details:
Subject:
Subject ID: | SU000278 |
Subject Type: | Bacterial cells |
Subject Species: | Sinorhizobium meliloti |
Taxonomy ID: | 382 |
Genotype Strain: | Rm2011 (SU47 str-3)|SmA818|RmP3009|RmP2917 |
Human Ethnicity: | wild type|Rm2011 lack pSymA|Rm2011 lack pSymB|Rm2011 lack pSymA and pSymB | a tRNAarg and the smb20996-engA operon from pSymB were integrated to chromosome in strains RmP3009 and RmP2917 |
Species Group: | Microorganism |
Factors:
Local Sample ID | MB Sample ID | Factor Level ID | Level Value | Factor Name |
---|---|---|---|---|
AB_M3c | SA011815 | FL002929 | ΔpSymAB | strains |
Collection:
Collection ID: | CO000271 |
Collection Summary: | - |
Sample Type: | cells |
Volumeoramount Collected: | 6 x 108 cells |
Storage Conditions: | -80ºC freezer |
Collection Vials: | eppendorf tube |
Tissue Cell Identification: | 6 x 108 cells |
Treatment:
Treatment ID: | TR000291 |
Animal Vet Treatments: | -80ºC freezer |
Animal Anesthesia: | test tube |
Animal Endp Tissue Proc Method: | M9 miminal medium plus 10 mM sucrose |
Animal Endp Clinical Signs: | n/a |
Human Fasting: | 30ºC incubator |
Human Endp Clinical Signs: | OD600 values of approximately 0.3, 0.5, 0.9, 1.6, and 3.5 (except for Rm2011 which reached ~4.8) |
Sample Preparation:
Sampleprep ID: | SP000285 |
Sampleprep Summary: | - |
Sampleprep Protocol Filename: | Fei,_F.,_Bowdish,_D._M._E.,_&_McCarry,_B._E._(2014)._Analytical_and_Bioanalytical_Chemistry,_406,_37233733. |
Extraction Method: | cell pellet extracted with 2:2:1 MeOH/EtOH/H2O with beadbeating |
Extract Storage: | -80ºC freezer |
Sample Resuspension: | cell extracts suspended 60%v/v acetonitrile/water |
Sample Spiking: | L-methionine-d3, L-tryptophan-d5 as standards for recovery determination ; L-phenylalanine-d8, diphenylalanine and glycine-phenylalanine as internal standards for peak area normalization |
Cell Type: | Gram negative bacterium |
Combined analysis:
Analysis ID | AN000409 | AN000410 |
---|---|---|
Analysis type | MS | MS |
Chromatography type | HILIC | HILIC |
Chromatography system | Agilent 1200 RR Series II | Agilent 1200 RR Series II |
Column | Phenomenex Kinetex HILIC 100A (50 x 2.1 mm,2.6um) | Phenomenex Kinetex HILIC 100A (50 x 2.1 mm,2.6um) |
MS Type | ESI | ESI |
MS instrument type | QTOF | QTOF |
MS instrument name | Bruker MicrOTOF II | Bruker MicrOTOF II |
Ion Mode | POSITIVE | NEGATIVE |
Units | normalized peak area | normalized peak area |
Chromatography:
Chromatography ID: | CH000290 |
Methods Filename: | Opt_silicaHILIC.m |
Instrument Name: | Agilent 1200 RR Series II |
Column Name: | Phenomenex Kinetex HILIC 100A (50 x 2.1 mm,2.6um) |
Column Temperature: | 40C |
Flow Gradient: | 0-0.5 min, 95%A; 0.5-12.5 min, 35%A; 12.5-13.0 min, 35%A; 13.0-14.0 min, 95%A; 14.0-24.0 min, 95%A |
Flow Rate: | 200 ?L/min |
Internal Standard: | L-phenylalanine-d8, diphenylalanine and glycine-phenylalanine |
Sample Injection: | 2 ?L |
Solvent A: | 100% acetonitrile |
Solvent B: | 100% water;10 mM ammonium acetate, adjust to pH 3 with formic acid |
Analytical Time: | 24 min |
Chromatography Type: | HILIC |
MS:
MS ID: | MS000351 |
Analysis ID: | AN000409 |
Instrument Name: | Bruker MicrOTOF II |
Instrument Type: | QTOF |
MS Type: | ESI |
Ion Mode: | POSITIVE |
Capillary Voltage: | -3800 V |
Dry Gas Flow: | 8.0 L/min |
Dry Gas Temp: | 250ºC |
Scan Range Moverz: | 50-1000 m/z |
MS ID: | MS000352 |
Analysis ID: | AN000410 |
Instrument Name: | Bruker MicrOTOF II |
Instrument Type: | QTOF |
MS Type: | ESI |
Ion Mode: | NEGATIVE |
Capillary Voltage: | 4500 V |
Dry Gas Flow: | 8.0 L/min |
Dry Gas Temp: | 250ºC |
Scan Range Moverz: | 50-1000 m/z |