Table II.

Proteins from mitochondrial samples found to vary in abundance following 16 h of rotenone treatment

The identity of proteins was determined by MS/MS. the predicted molecular weight (MW) and pI of the matched protein and the gel sample are shown along with the MOWSE score, number of peptides matched by tandem mass spectra, and the percentage coverage of the matched sequence. Protein spots with at least 1.5-fold change are presented as increased (+) or decreased (−) by rotenone treatment. Spot numbers shown correspond to protein spots in Figure 4. No. Exp, Number of experiments in which this protein was detected from total of three experiments performed. X, The protein has not been detected in this experiment.

CategorySpot No.Arabidopsis Genome Initiative No.IdentityScorePercentage CoverageNo. of PeptidesMatched MWExpected MWMatched pIExpected pINo. Exp (DIGE)Ratio Rotenone/ControlRatio Experiment 1Ratio Experiment 2Ratio Experiment 3
Decreased
    Known mitochondrial
1At3g02090.1Mitochondrial processing peptidase β-subunit (MPP)796, 81947, 5325, 2959,12367,0006.36.33−2.6−2.11−2.73−3.03
2At4g02930.1Elongation factor Tu645, 758, 83542, 51, 5024, 29, 2549,37950,0006.2563−2.1−1.6−2.84−1.79
3At1g08480.1Succinate dehydrogenase subunit 6 (SDH6)15126615,80315,0006.288.23−1.9−3.22−1.35−1.2
4At5g14590.1IDHP-3 isocitrate dehydrogenase1,151, 1,27559, 6440, 4554,16255,0008.056.43−1.5−1.67−1.46−1.47
5At2g05710.1Aconitate hydratase197, 386, 1186, 12,38, 15, 3108,13385,0006.726.82−2.2−2.59−1.84X
    Glycolysis and cytosolic carbon metabolism6At3g52930.1Fru-bisP aldolase894, 1,00164, 7033, 3538,51645,0006.056.63−3.6−3.55−4−3.17
7At3g04120.1Glyceraldehyde-3-P dehydrogenase (GAPC)674, 56165, 5531, 2536,89145,0006.627.23−2.7−3.35−2.76−1.91
8At2g36530.1Enolase642, 558, 47248, 43, 4022, 25, 1947,68965,0005.545.53−1.7−1.46−2.02−1.6
9At3g55440.1Triosephosphate isomerase510, 57442, 5316, 1927,15229,0005.395.33−2.3−2.94−2.65−1.2
10At1g04410.1MDH-1 malate dehydrogenase510, 41244, 3819, 1435,54845,0006.116.53−3.5−4.32−2.71−3.55
11At5g11670.1MOX-5 ME (AtNADP-ME2)26913864,37270,0006.016.32−3.4−4−2.85X
12At1g65930.1IDHP-2 isocitrate dehydrogenase640, 793, 1,12850, 48, 5923, 29, 3645,71760,0006.136.83−3.7−5.57−3.4−2.14
    Others13At5g09810.1Actin7/actin2 (ACT7/2)479, 65444, 5418, 2741,70955,0005.3153−2.0−2.56−2.05−1.4
14At1g62740.1Stress-inducible protein417, 81735, 4918, 3264,47980,0005.856.13−3.2−4.2−3.36−2.16
15At3g09440.1Heat shock 70-kD protein 3 (HSC70-3)214, 24616, 159, 1071,10380,0004.974.43−3.8−4.5−4.37−2.62
16At3g17820.1Gln synthetase (GS1)120, 28812, 186, 1238,57050,0005.725.53−2.9−2.29−3.91−2.55
17At1g62380.11-Aminocyclopropane-1-carboxylate oxidase252, 22729, 229, 836,16045,0004.984.42−2.9−3.03−2.85X
18At3g52880.1Monodehydroascorbate reductase234, 37927, 3211, 1646,45855,0006.416.83−4.6−4.17−5.57−4.08
Increased
    Known mitochondrial19At4g08900.1Arginase392, 44328, 3212, 1337,32150,0006.115.73+2.3+2.89+2.15+1.81
20At5g14780.1Formate dehydrogenase644, 604, 68248, 43, 4929, 25, 3042,38350,0007.126.63+1.8+1.76+1.86+1.67