Table I Peptides and proteins identified in the four samples (WT, WT-F, mca1Δ/Δ and mca1Δ/Δ-F) in all data sets found with Proteome Discoverer 1.4 and the Mascot search engine 2.4.1 with a 5% FDR threshold
ConditionsWTWT-Farnesolmca1Δ/Δmca1Δ/Δ-FarnesolTotal
Trypsin digest (trypsin)2435 (10407)2634 (12469)2558 (12008)2525 (11790)3190 (17192)
TMT labeling (trypsin)1601 (7832)
GluC digest (semi-GluC)882 (5018)779 (3910)797 (4274)838 (3659)1261 (8549)
Native peptidomics (no enzyme)85 (220)66 (146)64 (143)52 (113)137 (416)