Additional file 2.

Overview of the shotgun proteomic analysis. Using 3 different culture conditions (static; without shaking, CO2; under 5% CO2 condition without shaking, and shake; with shaking), GAS SF370 tryptic-digested peptide was analyzed with LC-MS/MS. Approximately 7,000 spectra were queried with MASCOT server with a real and randomized decoy database for each six-frame and refined amino acid database (read DB) consisting of 1,707 CDSs. The identification certainty was evaluated by the false discovery rate (FDR).

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Okamoto and Yamada BMC Microbiology 2011 11:249   doi:10.1186/1471-2180-11-249