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Identification of diffraction-limited fluorescence spots was done using SpotFinder, an accessory in MicrobeTracker, unless mentioned otherwise.
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Detection, warping, and matching of the protein spots were done using the "combined warp and match" algorithm, which uses a nonparametric pattern recognition clustering technique to align different gel images.
TLC was carrying out on silica gel-G, and spotting was done using UV light.
TLC analyses were done on glass plates coated with silica gel GF-254 and spotting was done using iodine/UV lamp.
The co-detection of the three CyDye-labeled forms for each spot was done using the Differential In-gel Analysis (DIA) module.
Spot detection was done using ImageJ.
Spot recognition was done using Genepix Pro 7.0 (Molecular Devices).
Microarrays were scanned with confocal microarray scanner (ScanArray Express, Perkin Elmer), extraction of spot intensities was done using QuantArray software (Packard Biochip).
Spot detection and spot intensity quantification was done using GenePix Pro version 6.0 software from Molecular Devices.
Statistical analysis of the relative abundance of each matched protein spot across the data set was done using a two-tailed Student t-test as previously described [ 37].
All light photography was done using a Spot II camera attached to a Leica dissecting microscope; images were processed with Adobe Photoshop.
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