Table I.

Comparison of protein identification using the targeted approach and conventional shotgun proteomics

Potential virulence factors were targeted using TIQAM. The table lists proteins with MRM transitions successfully validated by MS/MS spectra. For all of these, quantitative values were successfully retrieved by MRM in all 10 samples analyzed. To compare this with a shotgun proteomics approach, five samples, one of each experimental condition, were analyzed by LC-MS/MS on a linear ion trap mass spectrometer (LTQ). ProteinProphet scores above 0.9 corresponding to a false discovery error rate of below 1% are reported. Dashes, not identified.