LC-MS: Sticking together: Inter-species aggregation of bacteria isolated from iron snow is controlled by chemical signaling

Experiment Design: growthconditiondesign, co-expressiondesign Experimental Factor: Compound, Organism, Strain Experimental Factor Type: compound, organism, strainorline Quality Control Type: technicalreplicate, biological_replicate

Specimen Material Type Organism Strain or Line Organism Part Organism Status Sex Age Age Time Unit Sampling Time Point Sampling Time Point Unit Temperature Temperature Unit pH Atmosphere Compound Media Nutrients Fold Change Assignment Name Fold Change Assignment Feature acidiphiliumacidithrixsup2 wholeorganism Acidiphilium C61 whole culture fresh n/a n/a n/a Acidithrix supernatant
acidiphiliumacidithrixsup1 wholeorganism Acidiphilium C61 whole culture fresh n/a n/a n/a Acidithrix supernatant
acidithrixacidiphiliumsup1 wholeorganism Acidithrix C25 whole culture fresh n/a n/a n/a Acidiphilium supernatant
acidithrixacidithrixsup1 wholeorganism Acidithrix C25 whole culture fresh n/a n/a n/a Acidithrix supernatant
acidiphiliumacidiphiliumsup2 wholeorganism Acidiphilium C61 whole culture fresh n/a n/a n/a Acidiphilium supernatant
acidithrixacidiphiliumsup2 wholeorganism Acidithrix C25 whole culture fresh n/a n/a n/a Acidiphilium supernatant
acidithrixacidithrixsup2 wholeorganism Acidithrix C25 whole culture fresh n/a n/a n/a Acidithrix supernatant
acidiphiliumacidiphiliumsup1 wholeorganism Acidiphilium C61 whole culture fresh n/a n/a n/a Acidiphilium supernatant

Specimen Extract Name Sequence of working steps Protein Amount Amount Unit Volume Volume Unit Label acidiphiliumacidithrixsup1 acidiphiliumacidithrixsup1e n/a n/a acidiphiliumacidithrixsup2 acidiphiliumacidithrixsup2e n/a n/a acidiphiliumacidiphiliumsup1 acidiphiliumacidiphiliumsup1e n/a n/a acidiphiliumacidiphiliumsup2 acidiphiliumacidiphiliumsup2e n/a n/a acidithrixacidithrixsup1 acidithrixacidithrixsup1e n/a n/a acidithrixacidithrixsup2 acidithrixacidithrixsup2e n/a n/a acidithrixacidiphiliumsup1 acidithrixacidiphiliumsup1e n/a n/a acidithrixacidiphiliumsup2 acidithrixacidiphiliumsup2e n/a n/a

LC-MS/MS Specimen Assay Name LC Instruments LC Peptide Separation Setup LC Stationary Phase Column LC Stationary Phase Temperature LC Temperature Unit LC Mobile Phase Elution ESI Instrument ESI Emitter Type ESI Spray Voltage ESI Voltage Unit ESI Capillary Temperature ESI Temperature Unit ESI S-Lens RF Level MS Mass Detector Type MS Mass Analyser Type MS External Calibration MS Internal Calibration MS Operation Mode MS Mass Range MS Resolution MS Maximum Injection Time MS Time Unit MS Autogain Control Target MS Further Fragmentation Isolisation Width MS Further Fragmentation Collision Energy MS Energy Unit MS Furhter Fragmentation Gas MS2 Mass Range MS2 Resolution MS2 Maximum Injection Time MS2 Time Unit MS2 Autogain Control Target acidithrixacidiphiliumsup2 acidithrixacidiphiliumsup2lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidithrixacidiphiliumsup1 acidithrixacidiphiliumsup1lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidithrixacidithrixsup2 acidithrixacidithrixsup2lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidithrixacidithrixsup1 acidithrixacidithrixsup1lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidiphiliumacidiphiliumsup2 acidiphiliumacidiphiliumsup2lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidiphiliumacidiphiliumsup1 acidiphiliumacidiphiliumsup1lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidiphiliumacidithrixsup2 acidiphiliumacidithrixsup2lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a acidiphiliumacidithrixsup1 acidiphiliumacidithrixsup1lc UltiMate HPG-3400 S (Thermo Fisher Scientific); WPS-3000 Autosampler (Thermo Fisher Scientific) Kinetex C18 RP 50mm × 2.1 mm x 1.7µm 25 degreesC 3.3 kV 360 degreesC 50 hybrid quadrupole-orbitrap n/a 50000 n/a n/a

Protocol Name Software Name TANDEM MASS SPECTROMETRY (LC) TraceFinder EFS

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Created: 27th Nov 2018 at 12:55

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