Trends in Plant Science

Supplementary material: Reactive oxygen gene network of plants

Ron Mittler, Sandy Vanderauwera, Martin Gollery and Frank Van Breusegem
Table 1. Gene annotation and expression of the ROS-scavenging network of Ara

Enzyme and Reaction a Gene Name

Superoxide Dismutase (SOD) FeSOD (FSD1)

O2- + O2- + 2H+ → H2O2 + O2 FeSOD (FSD2)
FeSOD (FSD3)
Cu/ZnSOD (CSD1)
Cu/ZnSOD (CSD2)
Cu/ZnSOD (CSD3)
MnSOD (MSD1)
MnSOD-like
Ascorbate Peroxidase (APX) APX1
2 Asc + H2O2 → 2 MDA + 2H2O APX2
APX3
APX4
APX5
APX6
APX7
stromal-APX
thylakoid-APX
Monodehydroascorbate Reductase (MDAR) MDAR1
MDA + NAD(P)H + H → Asc + NAD(P)
+ -
MDAR2
MDAR3
MDAR4
MDAR5
Dehydroascorbate Reductase (DHAR) DHAR1
DHA + 2 GSH → Asc + GSSG DHAR2
DHAR3
DHAR4
DHAR5
Glutathione Reductase (GR) GR1
GSSG + NAD(P)H → 2 GSH + NAD(P) -
GR2
Catalase (Cat) Cat1
2H2O2 → 2H2O + O2 Cat2
Cat3
Glutathione Peroxidase (GPX) GPX1
H2O2 + 2 GSH → 2H2O + GSSG GPX2
GPX3
GPX4
 GPX5
GPX7
GPX8
Phospholipid GPX6
Ferritin Ferritin 1
Fe + P → P-Fe Ferritin 2
Ferritin 3 
Ferritin 4
Blue copper protein Blue copper binding protein
Cu + P → P-Cu Blue copper protein, putative
Blue copper protein, putative
Blue
Blue copper-binding
copper-binding protein
protein,III
15K
(lamin)
Copper binding - like protein
Copper-binding protein CUTA
Copper-binding protein-like
putative blue copper-binding
protein
NADPH oxidase NADPH oxidase (RbohA)
NADPH + e- + O2 → NADP- + O2- + H+ NADPH oxidase (RbohB)
NADPH oxidase (RbohC)
NADPH oxidase (RbohD)
NADPH oxidase (RbohE)
NADPH oxidase (RbohF) 
NADPH oxidase (RbohG)
NADPH oxidase (RbohH)
NADPH oxidase (RbohI)
NADPH oxidase (RbohJ)
NADPH oxidase-like Acyltransferase
Ferric reductase-like (NADPH
NADPH + e- + O2 → NADP- + O2- + H+ (?) oxidase like)
Ferric reductase-like (NADPH
oxidase like)
Ferric-chelate reductase
Ferric-chelate reductase
Ferric-chelate reductase
Ferric-chelate reductase
NADH-ubiquinone oxidoreductase
putative NADPH oxidase
flavocytochrome
Alternative Oxidase (AOX) AOX putative
2e- + 2H+ + O2 → H2O AOX1A
AOX1B
AOX1C
AOX2
Immutans
Peroxiredoxin (PrxR) 1-Cys PrxR
2P-SH + H2O2 → P-S-S-P + 2H2O 2-cys PrxR A
 2-cys PrxR B
2-cys PrxR F
PrxR Q
Type 2 PrxR A
Type 2 PrxR B
Type 2 PrxR C
Type 2 PrxR D
Type 2 PrxR E
Type 2 PrxR -related
Thioredoxins (Trx) Ferredoxin-thioredoxin reductase
P-S-S-P + 2H → 2P-SH
+
Phosphoadenylyl-sulfate reductase
similar to thioredoxin
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin family
Thioredoxin H -related
Thioredoxin H-type 1 (TRX-H-1)
Thioredoxin H-type 2
Thioredoxin H-type 3
Thioredoxin H-type 4 (TRX-H-4)
Thioredoxin H-type 5 (TRX-H-5)
Thioredoxin M-type 1 (TRX-M1)
Thioredoxin M-type 2
Thioredoxin M-type 3
Thioredoxin M-type 4
Thioredoxin reductase 1
Thioredoxin reductase 2
Thioredoxin reductase, putative
Thioredoxin x
Glutaredoxin (GLR) Glutaredoxin family
DHA + 2 GSH → Asc + GSSG Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin family
Glutaredoxin putative
Glutaredoxin putative
Glutaredoxin putative
Glutaredoxin putative
Glutaredoxin-related
work of plants
and Frank Van Breusegem
S-scavenging network of Arabidopsis

Affymetrix Gene Probe b AGI code c Localization d Relative expre

AsCAT KoAPX KoSOD
254098_at At4g25100.3 chl -1.053 1.198 2.834
248493_at At5g51100.1 chl 1.264 1.335 1.504
249826_at At5g23310.1 chl -1.076 -1.565 2.011
264809_at At1g08830.1 cyt 1.168 -1.642 -3.747
266165_at At2g28190.1 chl -1.149 -1.770 -3.918
250016_at At5g18100.1 per -1.280 -1.577 -1.247
256439_at At3g10920.1 mit -1.092 -1.232 -1.151
251731_at At3g56350.1 sec A A A
261412_at At1g07890.1 cyt 1.129 A/P 1.038
258695_at At3g09640.1 cyt A A A
253223_at At4g35000.1 per/chl -1.041 1.065 -1.308
255078_at At4g09010.1 chl 1.133 -1.005 -1.990
253112_at At4g35970.1 per -1.101 1.235 A
253477_at At4g32320.1 cyt/chl/mit -1.095 -1.086 -1.404
261990_at At1g33660.1 mit A A A
255142_at At4g08390.2 chl/mit 1.056 1.061 1.383
259707_at At1g77490.1 chl -1.031 1.144 -2.350
260325_at At1g63940.4 chl/mit 1.022 -1.188 -1.019
258941_at At3g09940.1 cyt A A A
257227_at At3g27820.1 cyt/mit -1.225 1.733 -1.342
252024_at At3g52880.1 cyt 1.072 1.090 -1.328
250916_at At5g03630.1 cyt -1.041 1.486 -1.342
246454_at At5g16710.1 chl/mit 1.028 -1.214 -1.348
246617_at At5g36270.1 cyt A A A
256453_at At1g75270.1 cyt/chl 1.169 -1.302 -1.335
/ At1g19550.1 cyt/chl / / /
261149_s_at At1g19570.1 cyt/chl -1.151 1.236 -1.315
257252_at At3g24170.1 cyt -1.119 1.385 -1.833
251860_at At3g54660.1 chl/mit -1.124 1.042 -2.099
259517_at At1g20630.1 per -1.410 1.632 2.088
253174_at At4g35090.1 per -1.308 1.513 -2.732
259544_at At1g20620.1 per -1.392 1.136 2.291
264383_at At2g25080.1 chl -1.137 1.263 -2.270
263426_at At2g31570.1 cyt/chl 1.047 -1.279 -1.373
260545_at At2g43350.1 mit -1.095 -1.242 1.091
262350_at At2g48150.1 cyt A A A
251205_at At3g63080.1 er 1.043 -1.318 -1.247
253496_at At4g31870.1 chl 1.269 -1.159 -1.706
261530_at At1g63460.1 cyt/chl 1.085 -1.408 -1.177
254890_at At4g11600.1 chl/mit 1.073 -1.730 1.020
251109_at At5g01600.1 chl -1.175 4.295 3.772
251735_at At3g56090.1 chl/mit 1.062 1.034 1.372
263831_at At2g40300.1 chl/mit 1.199 1.902 2.238
256416_at At3g11050.1 chl A A A
246099_at At5g20230.1 sec 2.045 1.335 2.390
259801_at At1g72230.1 sec A/P A/P A/P
257151_at At3g27200.1 sec 1.073 A/P A/P
251410_at At3g60280.1 sec A A A
254789_at At4g12880.1 sec -1.130 -1.942 -1.815
246827_at At5g26330.1 sec/mit A P/A A/P
267405_at At2g33740.1 chl/mit -1.190 -2.004 -1.487
/ At4g28365.1 sec/mit / / /
267204_at At2g31050.1 sec/mit A A A
250629_at At5g07390.1 mem A A A
264647_at At1g09090.2 mem A A A
248486_at At5g51060.1 mem A A A
248719_at At5g47910.1 mem 1.005 1.374 -1.614
256011_at At1g19230.1 mem A A A
262344_at At1g64060.1 mem 1.092 P/A A/P
254092_at At4g25090.1 mem A A A
247647_at At5g60010.1 mem A A/P A
254912_at At4g11230.1 mem A A A
252544_at At3g45810.1 mem A A A
/ At5g23980.1 / / /
248566_s_at At5g49730.1 mem -1.115 -1.028 -2.137
248540_at At5g50160.1 mem -1.171 -2.703 -1.176
/ At1g01580.1 / / /
/ At5g49740.1 / / /
/ At5g23990.1 / / /
/ At1g01590.1 / / /
/ At5g67590.1 / / /
264751_at At1g23020.1 mem/mit -1.443 A -2.710
260706_at At1g32350.1 mit A A A
258452_at At3g22370.1 mit 1.237 1.236 1.146
258451_at At3g22360.1 mit A A A
258235_at At3g27620.1 mit A A A
247269_at At5g64210.1 mit A A A
254335_at At4g22260.1 chl -1.091 -2.564 -1.405
260716_at At1g48130.1 nuc A A A
259237_at At3g11630.1 chl 1.058 -1.063 -1.399
250733_at At5g06290.1 chl 1.089 1.072 -2.073
258469_at At3g06050.1 mit -1.083 -1.621 -1.405
258087_at At3g26060.1 chl -1.086 -2.033 -1.350
261971_at At1g65990.1 mem/chl A A A
261919_at At1g65980.1 cyt 1.010 -1.751 1.049
/ At1g65970.1 cyt / / /
264923_s_at At1g60740.1 cyt A A A
251993_at At3g52960.1 chl/mit -1.004 3.528 1.064
/ At3g03405.1 cyt / / /
263624_at At2g04700.1 chl -1.130 -1.063 -1.468
264745_at At1g62180.1 chl 1.055 -3.040 -2.053
262721_at At1g43560.1 sec/chl 1.088 -2.058 -1.257
265104_at At1g31020.1 mit -1.122 -2.037 -1.146
261374_at At1g52990.1 sec/mit P/A A/P A
260645_at At1g53300.1 mit -1.070 A -1.133
259868_at At1g76760.1 chl 1.007 P/A -1.284
255847_at At2g33270.1 chl A A A
263499_at At2g42580.1 mit/chl -1.063 1.056 1.163
258534_at At3g06730.1 chl/mit -1.095 1.308 1.480
258665_at At3g08710.1 cyt -1.064 -1.218 -1.200
257095_at At3g20560.1 er/mit 1.063 -1.453 -1.092
/ At3g56420.1 cyt/mit / / /
255279_at At4g04950.1 cyt 1.027 P/A 1.102
/ At3g56420.1 cyt / / /
253693_at At4g29670.2 chl/mit 1.055 -1.767 -1.471
/ At4g32580.1 cyt / / /
246226_at At4g37200.1 chl/mit -1.071 -1.325 -1.715
266048_at At2g40790.1 cyt/mit A A A
252119_at At3g51030.1 cyt A A A
249385_at At5g39950.1 cyt -1.005 1.252 -1.151
249176_at At5g42980.1 cyt -1.017 -1.010 -1.626
261145_at At1g19730.1 cyt 1.024 -1.239 -1.176
260943_at At1g45145.1 cyt -1.042 -2.703 1.463
264845_at At1g03680.1 chl/mit -1.004 -1.534 -1.733
255379_at At4g03520.1 chl 1.083 -1.156 -1.186
265476_at At2g15570.1 chl -1.047 1.304 -1.049
258398_at At3g15360.1 chl -1.067 -1.458 -1.332
/ At4g35460.1 cyt / / /
264904_s_at At2g17420.1 cyt/mit -1.232 -1.060 1.040
245118_at At2g41680.1 chl 1.011 1.131 -1.761
262418_at At1g50320.1 chl/mit -1.153 1.130 -2.079
263168_at At1g03020.1 cyt 1.168 P/A A
265067_at At1g03850.2 chl/mit A -1.481 A
260831_at At1g06830.1 sec/mit 1.148 1.211 -1.262
261443_at At1g28480.1 cyt/mit A 1.653 2.247
265288_at At2g20270.1 chl -1.223 -1.242 1.069
267497_at At2g30540.1 sec/mit 1.054 -1.730 A
/ At2g47870.1 sec / / /
266516_at At2g47880.1 sec/mit -1.142 -1.370 -1.026
259002_at At3g02000.1 cyt A A A
251195_at At3g62930.1 cyt -1.043 A/P -1.318
251196_at At3g62950.1 sec/mit -1.277 1.080 A
251197_at At3g62960.1 sec/mit A A A
245504_at At4g15660.1 er/sec/mit -1.160 -1.623 1.918
/ At4g15660.1 cyt/mit / / /
245392_at At4g15680.1 er/sec/mit 1.426 1.221 A
245505_at At4g15690.1 er/sec/mit A A A
245506_at At4g15700.1 er/sec/mit P/A -1.284 A/P
/ At4g28730.1 chl/mit / / /
253382_at At4g33040.1 cyt -1.259 A 1.131
250344_at At5g11930.1 chl/mit A A A
250223_at At5g14070.1 cyt A 1.479 A
249996_at At5g18600.1 cyt/mit -1.188 1.021 -1.473
246384_at At1g77370.1 sec 1.109 -1.631 -1.177
246092_at At5g20500.1 sec 1.015 -1.730 1.103
249380_at At5g40370.1 er/sec/chl -1.147 1.176 -1.058
247418_at At5g63030.1 cyt 1.142 P/A -1.109
258754_at At3g11920.1 cyt A A A
Relative expression data e
Heat Drought Salt Cold HL
1.772 -1.165 1.057 A/P -2.551
1.737 -1.089 1.366 2.113 3.563
1.135 1.261 1.036 1.616 2.249
1.145 -10.989 -1.285 -1.053 -1.181
1.328 -14.641 -1.284 1.152 -1.751
1.966 -1.266 -1.087 -2.144 -1.045
-1.155 -1.142 -1.323 -1.432 -1.271
A A A A A
1.381 1.160 1.179 1.310 -1.595
P/A A A A A
1.110 1.367 1.055 1.064 -1.025
-2.356 -1.621 -1.283 -1.590 -4.255
A/P -1.284 A A A/P
1.207 -1.637 -1.042 -1.110 1.224
A A A A P/A
-1.159 -1.142 1.529 3.382 1.670
1.266 -2.699 -1.913 -1.246 -3.413
-1.747 1.322 -1.172 1.830 1.380
A/P A/P -1.818 -2.612 -4.032
-1.241 2.162 -1.251 -1.442 2.075
-1.142 1.280 -0.862 1.150 1.157
-1.431 1.683 -1.005 -1.110 1.128
1.097 -1.552 -1.264 1.006 -1.585
A A A A A/P
-1.076 -1.131 -1.152 1.307 1.744
/ / -1.464 -2.325 /
-1.471 1.509 -1.115 -1.957 -1.647
A/P 2.443 -1.137 1.816 1.364
-1.519 1.277 -1.369 1.376 -1.876
1.548 1.317 1.728 -1.090 2.134
-1.241 1.027 -1.009 1.222 -1.585
1.185 -1.383 -1.198 -2.300 -1.337
1.045 -1.647 1.017 -1.972 -7.407
-1.229 -2.954 1.311 -1.042 -1.189
-1.843 -1.412 -1.009 1.002 1.020
A A A A A
-1.885 -1.764 1.199 -1.067 -1.757
-1.866 -1.016 -1.360 2.064 1.672
-1.035 -2.604 1.387 1.256 -1.103
-2.148 1.297 1.003 1.656 1.327
1.591 3.277 -1.023 1.089 -1.089
1.051 -2.375 1.616 2.018 -2.151
1.466 -2.345 1.245 1.418 -2.024
A A A P/A P/A
3.755 -6.536 1.385 -1.402 -9.615
1.294 A/P A A A
2.314 A/P -1.377 1.445 2.226
A A A A A
1.172 -1.832 -1.241 -1.755 1.260
A A -1.218 -1.272 A
2.009 -1.730 -1.238 -1.640 -1.019
/ / / / /
A A A/P -1.766 A/P
A A A A A
A A A A A
A A A A A
1.013 -1.972 -1.108 -1.805 -1.026
A A A A A
A P/A A A -1.161
A A A A A
A A A A A
A A A A A
A A A A A
/ / A A /
-4.141 -2.006 -1.761 -3.084 -10.695
-3.984 1.129 -1.548 -1.133 1.840
/ / A/P -1.077 /
/ / -1.619 -2.147 /
/ / A A /
/ / A/P -1.224 /
/ / 1.029 -1.021 /
-1.961 -1.764 -1.458 -2.020 P/A
A P/A 17.983 -1.205 A
1.679 2.288 4.466 2.015 -1.209
A A A A A
A A A P/A A
A A A A A
-1.972 -1.149 1.082 1.093 1.227
A A A A A
1.203 -2.911 -1.189 -1.002 -2.506
1.169 -3.788 -1.270 -1.135 -2.160
-1.027 -1.591 1.194 1.016 -1.143
1.665 -2.591 1.099 1.631 -2.703
A A A A A
2.278 1.358 1.133 -1.023 1.254
/ / 2.156 -1.381 /
A A 2.557 -2.093 A
1.076 -2.137 1.135 1.269 -1.214
/ / / / /
-1.830 -1.732 -1.150 1.049 -1.656
A/P 1.921 -1.110 1.223 -2.033
-1.566 -2.591 -1.031 1.103 -2.268
-2.092 -1.765 1.094 1.557 -1.466
1.166 -1.910 A A 1.445
-1.605 -1.274 P/A P/A -2.618
1.407 -1.645 -1.537 1.073 1.257
A A -1.177 1.252 A
-1.642 -2.094 -1.222 -1.234 -2.475
1.628 -1.869 -1.402 1.144 1.167
-1.443 -1.617 1.054 -1.189 -1.397
1.015 1.288 -1.087 1.105 1.579
/ / A A /
-1.163 1.818 -1.110 1.240 2.071
/ / A A /
-1.429 -1.447 1.113 1.126 -1.980
/ / A A /
-1.555 -1.613 -1.328 -1.274 -1.122
A A A A A
P/A P/A A/P 1.218 A
-1.127 -1.225 1.122 -1.238 -1.026
-1.141 -1.075 -1.024 -1.111 -1.972
-1.843 -1.867 1.223 1.069 -1.282
-1.236 -1.261 / / -2.545
-1.019 -2.421 -1.312 -1.064 -1.866
1.640 -1.986 -1.260 -1.576 -2.053
-1.117 -2.525 -1.325 1.009 -1.776
-1.262 -1.540 -1.112 -1.179 -1.887
/ / 1.099 1.732 /
-1.528 -1.847 -1.007 -1.006 1.118
-1.688 -1.043 -1.310 1.779 -1.786
-1.193 -1.515 -1.012 1.292 -1.524
-1.597 -2.463 P/A A A/P
-1.555 A/P -1.290 -2.727 -35.211
-7.905 -18.815 A P/A -6.452
-1.271 -2.237 9.643 1.254 1.324
-1.572 -1.392 1.142 1.408 -1.047
A/P 1.606 A A -2.941
/ / -1.142 -1.142 /
-3.670 -2.047 A A 2.400
A A -1.689 -1.406 A
-1.267 -2.522 A A A/P
A/P A/P 1.085 A/P A
A A -1.449 -1.056 A
-1.866 -4.773 -1.915 -1.987 -20.576
/ / -1.777 -1.790 /
-1.120 -7.358 -1.833 -1.565 A/P
1.360 -4.411 A/P A/P A/P
1.140 -9.751 -1.300 -1.416 A/P
/ / 1.260 1.061 /
-1.153 1.531 A A 4.046
-1.020 -1.606 A A 1.812
A A -1.041 1.046 A
-1.857 -4.695 -1.773 -2.999 -22.124
2.790 -1.463 1.129 -1.683 -1.001
-1.530 -2.037 1.065 1.332 -1.531
-1.367 -1.349 1.016 1.029 -1.381
-1.004 1.323 1.031 -1.428 -1.600
A A A A A
 Name Acession Tamanho de (nuc) Conserved Domain Length

FeSOD (FSD1) NP_849441 974 Sod_Fe_n Sod_Fe_c 212

FeSOD
689
(FSD2) AF324711 Sod_Fe_n Sod_Fe_c 212
FeSOD
NP_197722 1184
(FSD3) Sod_Fe_n Sod_Fe_c 263 
Cu/ZnSOD
NP_001077494
(CSD1) Cu-Zn_ 152
FN674086
 Description

tinct families of SODs are known, of which the Mn/Fe-binding family is one. In humans, there is a cytoplasmic Cu/Zn SOD, and a mitoch

tinct families of SODs are known, of which the Mn/Fe-binding family is one. In humans, there is a cytoplasmic Cu/Zn SOD, and a mitoch

SOD1 gene causes familial amyotrophic lateral sclerosis (Lou Gehrig's disease). Cytoplasmic and periplasmic SODs exist as dimers, w
asmic Cu/Zn SOD, and a mitochondrial Mn/Fe SOD. N-terminal domain is a long alpha antiparallel hairpin. A small fragment of YTRE_L

asmic Cu/Zn SOD, and a mitochondrial Mn/Fe SOD. N-terminal domain is a long alpha antiparallel hairpin. A small fragment of YTRE_L

asmic SODs exist as dimers, whereas chloroplastic and extracellular enzymes exist as tetramers. Structure supports independent funct
rpin. A small fragment of YTRE_LEPBI matches well - sequencing error?

rpin. A small fragment of YTRE_LEPBI matches well - sequencing error?

cture supports independent functional evolution in prokaryotes (P-class) and eukaryotes (E-class) [PMID:.8176730].
ID:.8176730].