Table I.

Overview of the nine ROS-generating systems included in the comprehensive analysis

For each experimental system, the identities of the major generated ROS and the intracellular sites of production are indicated. Sample and treatment descriptions together with other relevant experimental parameters are listed. Expression analysis of all experiments was performed using the Affymetrix ATH1 (ATH1) or Agilent Arabidopsis2 (Arab2) arrays. CAT2HP1, CAT-deficient plants; WT, wild type; KD, knockdown; AS, antisense; Chl, chloroplasts; Mit, mitochondria; Pl, plastids; Cyt, cytosol; Per, peroxisomes; Apo, apoplast. 1, op den Camp et al. (2003); 2, Rizhsky et al. (2003); 3, Umbach et al. (2005); 4, Davletova et al. (2003); 5, Vanderauwera et al. (2005); 6, Gechev et al. (2004); 7, Gechev et al. (2005); 8, D. Bartels (Bonn), AtGenExpress repository; 9, A. Shirras (Lancaster, UK), NASCArray repository.

Experiment	Major ROS	Localization	Plant Age	Sample Description	Treatment/Growth Conditions	Time Points	Replicates	Microarray Platform	Source
			weeks			h after Treatment
flu mutant	1O2	Pl	3	flu mutant	Dark-to-light shift (80–100 μmol m−2 s−1)	0.5, 1, 2	1	ATH1	1
KD-SOD	O2·−	Chl	3	Cu/Zn-SOD-KD plants	Standard	–	3	ATH1	2
AOX1a-AS	O2·−, H2O2	Mit	3	AOX1a-AS plants	Standard	–	2	ATH1	3
KO-Apx1 + HL	H2O2	Cyt	3	KO-Apx1 plants	HL shift: 25 to 250 μmol m−2 s−1	0, 0.25, 0.5, 1.5, 3, 6, 24	2	ATH1	4
CAT2HP1 + HL	H2O2	Per	6	CAT2HP1 plants	HL shift: 140 to 1,800 μmol m−2 s−1	0, 3, 8	2	ATH1	5
LOH2 + AAL toxin	H2O2	–	4	LOH2 plants	Water/AAL toxin injection, 200 nm	7, 24, 48, 72	1	Arab2	6
AT spray	H2O2	Per	4	WT plants	AT spray, 20 mm	7	1	Arab2	7
MV	O2·−	Mit/Chl	2.5	WT plants	MV, 10 μmol	0.5, 1, 3, 6, 12, 24	2	ATH1	8
O3 fumigation	O3, O2·−, H2O2	Apo	2	WT plants	O3, 500 μg L−1	6	3	ATH1	9