Table S2 Arrangement of Eleven Candidate Reference Genes by M Vlues of Genorm and Stability

Table S2 Arrangement of eleven candidate reference genes by M vlues of geNorm and stability values of NormFinder for 19 specific groups

a / Order by geNorm / Leaf / Panicle / Spikelets / RSLP / Floret and grain
1 / ARF / 0.845 / TI / 0.768 / Profilin-2 / 0.595 / ARF / 1.022 / TI / 0.867
2 / EF-1α / 0.862 / UBC / 0.789 / UBC / 0.601 / UBQ5 / 1.030 / UBC / 0.908
3 / TI / 0.885 / Ppcti / 0.841 / TI / 0.640 / EF-1a / 1.052 / Profilin-2 / 0.942
4 / PtfS / 0.894 / Edf / 0.841 / UBQ5 / 0.655 / TI / 1.064 / Ppcti / 1.035
5 / Profilin-2 / 0.909 / ARF / 0.976 / ARF / 0.668 / UBC / 1.088 / PtfS / 1.058
6 / UBC / 0.943 / Profilin-2 / 1.004 / Actin1 / 0.683 / Profilin-2 / 1.278 / Edf / 1.078
7 / Actin1 / 1.013 / EF-1α / 1.030 / Ppcti / 0.946 / Edf / 1.424 / ARF / 1.165
8 / Edf / 1.027 / RTP / 1.048 / PtfS / 0.950 / Ppcti / 1.448 / EF-1α / 1.366
9 / UBQ5 / 1.116 / PtfS / 1.410 / Edf / 0.950 / RTP / 1.499 / RTP / 1.516
10 / Ppcti / 1.304 / UBQ5 / 1.487 / EF-1α / 1.013 / PtfS / 1.505 / UBQ5 / 1.715
11 / RTP / 1.480 / Actin1 / 1.523 / RTP / 1.021 / Actin1 / 2.283 / Actin1 / 2.082
average / 1.025 / 1.065 / 0.793 / 1.336 / 1.248
b / Order by NormFinder / Leaf / Panicle / Spikelets / RSLP / Floret and grain
1 / TI / 0.316 / TI / 0.087 / UBC / 0.097 / UBQ5 / 0.156 / TI / 0.074
2 / PtfS / 0.321 / UBC / 0.087 / Profilin-2 / 0.102 / ARF / 0.228 / UBC / 0.074
3 / ARF / 0.355 / Ppcti / 0.172 / TI / 0.208 / TI / 0.271 / Profilin-2 / 0.152
4 / EF-1a / 0.367 / Edf / 0.223 / UBQ5 / 0.230 / EF-1a / 0.293 / Ppcti / 0.293
5 / Profilin-2 / 0.414 / Profilin-2 / 0.438 / ARF / 0.233 / UBC / 0.355 / PtfS / 0.419
6 / UBC / 0.465 / ARF / 0.446 / Actin1 / 0.288 / Profilin-2 / 0.610 / Edf / 0.433
7 / Edf / 0.503 / EF-1a / 0.526 / Ppcti / 0.538 / Edf / 0.762 / ARF / 0.522
8 / Actin1 / 0.574 / RTP / 0.527 / Edf / 0.577 / Ppcti / 0.787 / EF-1a / 0.740
9 / UBQ5 / 0.586 / PtfS / 0.874 / PtfS / 0.578 / RTP / 0.863 / RTP / 0.869
10 / Ppcti / 0.773 / Actin1 / 0.963 / RTP / 0.605 / PtfS / 0.872 / UBQ5 / 1.097
11 / RTP / 0.931 / UBQ5 / 0.970 / EF-1a / 0.617 / Actin1 / 1.526 / Actin1 / 1.388
average / 0.510 / 0.483 / 0.370 / 0.611 / 0.551
c / Order by geNorm / 6BA / IAA / GA / SA / ABA
1 / Edf / 0.678 / TI / 0.527 / TI / 0.464 / Edf / 0.468 / ARF / 0.518
2 / PtfS / 0.710 / Profilin-2 / 0.554 / Edf / 0.468 / TI / 0.477 / TI / 0.529
3 / ARF / 0.747 / EF-1α / 0.565 / Profilin-2 / 0.505 / EF-1α / 0.502 / UBQ5 / 0.540
4 / TI / 0.773 / Edf / 0.566 / PtfS / 0.511 / UBC / 0.505 / Edf / 0.550
5 / EF-1α / 0.791 / UBC / 0.616 / ARF / 0.529 / ARF / 0.510 / UBC / 0.608
6 / UBQ5 / 0.973 / ARF / 0.640 / UBC / 0.549 / Profilin-2 / 0.585 / Profilin-2 / 0.618
7 / Profilin-2 / 1.009 / Ppcti / 0.656 / EF-1α / 0.560 / PtfS / 0.593 / PtfS / 0.624
8 / Ppcti / 1.032 / UBQ5 / 0.659 / UBQ5 / 0.657 / Ppcti / 0.713 / Ppcti / 0.634
9 / RTP / 1.263 / PtfS / 0.683 / Ppcti / 0.788 / UBQ5 / 0.720 / EF-1α / 0.687
10 / Actin1 / 1.297 / Actin1 / 0.690 / Actin1 / 0.807 / Actin1 / 0.817 / Actin1 / 0.756
11 / UBC / 1.347 / RTP / 1.187 / RTP / 1.343 / RTP / 1.585 / RTP / 1.644
average / 0.965 / 0.667 / 0.653 / 0.680 / 0.701
d / Order by NormFinder / 6BA / IAA / GA / SA / ABA
1 / Edf / 0.062 / TI / 0.142 / TI / 0.052 / TI / 0.048 / UBQ5 / 0.086
2 / PtfS / 0.062 / EF-1α / 0.163 / Edf / 0.055 / Edf / 0.048 / Edf / 0.106
3 / ARF / 0.220 / Edf / 0.220 / PtfS / 0.146 / EF-1α / 0.067 / ARF / 0.133
4 / TI / 0.281 / Profilin-2 / 0.230 / EF-1α / 0.194 / UBC / 0.156 / TI / 0.171
5 / EF-1α / 0.294 / UBC / 0.295 / Profilin-2 / 0.194 / PtfS / 0.167 / PtfS / 0.184
6 / UBQ5 / 0.482 / UBQ5 / 0.303 / ARF / 0.206 / ARF / 0.168 / EF-1α / 0.271
7 / Profilin-2 / 0.575 / Ppcti / 0.319 / UBC / 0.250 / Profilin-2 / 0.298 / UBC / 0.310
8 / Ppcti / 0.576 / ARF / 0.324 / UBQ5 / 0.290 / UBQ5 / 0.327 / Ppcti / 0.311
9 / RTP / 0.754 / PtfS / 0.351 / Ppcti / 0.434 / Ppcti / 0.372 / Profilin-2 / 0.318
10 / Actin1 / 0.805 / Actin1 / 0.387 / Actin1 / 0.501 / Actin1 / 0.523 / Actin1 / 0.460
11 / UBC / 0.850 / RTP / 0.782 / RTP / 0.903 / RTP / 1.083 / RTP / 1.127
average / 0.451 / 0.320 / 0.293 / 0.296 / 0.316
e / Order by geNorm / Cold4 / H40 / Sub / Dr / NaCl / PEG
1 / Edf / 0.290 / ARF / 0.764 / Edf / 0.397 / Ppcti / 0.541 / Ppcti / 0.462 / PtfS / 0.427
2 / Profilin-2 / 0.304 / Edf / 0.822 / Profilin-2 / 0.405 / TI / 0.555 / TI / 0.478 / EF-1α / 0.467
3 / ARF / 0.312 / PtfS / 0.855 / TI / 0.443 / UBC / 0.594 / UBQ5 / 0.487 / Edf / 0.476
4 / Actin1 / 0.330 / Profilin-2 / 0.864 / UBQ5 / 0.463 / ARF / 0.612 / Profilin-2 / 0.507 / UBC / 0.477
5 / PtfS / 0.337 / TI / 0.903 / Actin1 / 0.511 / PtfS / 0.657 / ARF / 0.544 / Profilin-2 / 0.482
6 / UBC / 0.345 / UBQ5 / 0.943 / UBC / 0.521 / UBQ5 / 0.679 / PtfS / 0.556 / Ppcti / 0.489
7 / TI / 0.346 / UBC / 1.042 / EF-1α / 0.567 / Profilin-2 / 0.694 / Edf / 0.587 / TI / 0.509
8 / RTP / 0.367 / Ppcti / 1.053 / PtfS / 0.593 / EF-1α / 0.696 / UBC / 0.627 / ARF / 0.562
9 / Ppcti / 0.471 / EF-1α / 1.113 / ARF / 0.596 / Actin1 / 0.735 / EF-1α / 0.633 / UBQ5 / 0.575
10 / UBQ5 / 0.509 / Actin1 / 1.470 / Ppcti / 0.690 / Edf / 0.744 / Actin1 / 1.058 / Actin1 / 0.622
11 / EF-1α / 0.640 / RTP / 2.135 / RTP / 0.841 / RTP / 1.162 / RTP / 1.498 / RTP / 1.266
average / 0.386 / 1.088 / 0.548 / 0.697 / 0.676 / 0.577
f / Order by NormFinder / Cold4 / H40 / Sub / Dr / NaCl / PEG
1 / Profilin-2 / 0.026 / ARF / 0.118 / Edf / 0.046 / Ppcti / 0.074 / Ppcti / 0.029 / PtfS / 0.057
2 / Edf / 0.028 / PtfS / 0.141 / Profilin-2 / 0.087 / TI / 0.213 / UBQ5 / 0.029 / EF-1α / 0.071
3 / UBC / 0.121 / Edf / 0.144 / TI / 0.103 / UBC / 0.244 / TI / 0.058 / Edf / 0.139
4 / ARF / 0.145 / Profilin-2 / 0.256 / UBQ5 / 0.183 / PtfS / 0.291 / Profilin-2 / 0.074 / Profilin-2 / 0.174
5 / Actin1 / 0.153 / TI / 0.328 / Actin1 / 0.233 / ARF / 0.307 / PtfS / 0.141 / Ppcti / 0.199
6 / PtfS / 0.179 / UBQ5 / 0.358 / UBC / 0.256 / UBQ5 / 0.314 / Edf / 0.197 / UBC / 0.216
7 / TI / 0.180 / Ppcti / 0.476 / EF-1α / 0.288 / Profilin-2 / 0.333 / ARF / 0.198 / TI / 0.232
8 / RTP / 0.217 / EF-1α / 0.515 / PtfS / 0.310 / EF-1α / 0.343 / EF-1α / 0.266 / UBQ5 / 0.246
9 / Ppcti / 0.257 / UBC / 0.545 / ARF / 0.313 / Edf / 0.396 / UBC / 0.319 / ARF / 0.325
10 / UBQ5 / 0.305 / Actin1 / 0.955 / Ppcti / 0.425 / Actin1 / 0.426 / Actin1 / 0.712 / Actin1 / 0.376
11 / EF-1α / 0.421 / RTP / 1.440 / RTP / 0.544 / RTP / 0.758 / RTP / 1.027 / RTP / 0.865
average / 0.185 / 0.480 / 0.253 / 0.336 / 0.277 / 0.264
g / Order by geNorm / Wound / Rice blast / UV-B
1 / Edf / 0.256 / Edf / 0.408 / Profilin-2 / 0.199
2 / PtfS / 0.264 / TI / 0.431 / TI / 0.201
3 / ARF / 0.27 / Profilin-2 / 0.454 / Edf / 0.222
4 / Profilin-2 / 0.27 / UBC / 0.463 / UBC / 0.241
5 / TI / 0.282 / UBQ5 / 0.486 / UBQ5 / 0.248
6 / Ppcti / 0.293 / EF-1α / 0.487 / ARF / 0.259
7 / UBQ5 / 0.321 / Ppcti / 0.493 / PtfS / 0.265
8 / Actin1 / 0.323 / ARF / 0.581 / Ppcti / 0.289
9 / UBC / 0.332 / PtfS / 0.662 / EF-1α / 0.319
10 / RTP / 0.394 / Actin1 / 0.71 / Actin1 / 0.32
11 / EF-1α / 0.574 / RTP / 0.741 / RTP / 0.332
average / 0.325 / 0.538 / 0.263
h / Order by NormFinder / Wound / Rice blast / UV-B
1 / Edf / 0.042 / Edf / 0.062 / Profilin-2 / 0.014
2 / PtfS / 0.069 / TI / 0.111 / TI / 0.017
3 / Profilin-2 / 0.085 / Profilin-2 / 0.175 / Edf / 0.073
4 / ARF / 0.1 / UBC / 0.191 / UBC / 0.109
5 / Ppcti / 0.125 / Ppcti / 0.198 / UBQ5 / 0.113
6 / TI / 0.129 / EF-1α / 0.206 / ARF / 0.123
7 / UBQ5 / 0.146 / UBQ5 / 0.223 / PtfS / 0.136
8 / UBC / 0.167 / ARF / 0.324 / Ppcti / 0.166
9 / Actin1 / 0.176 / PtfS / 0.404 / Actin1 / 0.19
10 / RTP / 0.252 / Actin1 / 0.435 / EF-1α / 0.195
11 / EF-1α / 0.387 / RTP / 0.451 / RTP / 0.204
average / 0.153 / 0.253 / 0.122

Note: Expression stability and ranking of eleven candidate reference genes by M values of geNorm and stability values of NormFinder in five tissue groups (a and b), five hormone groups (c and d), six environmental factor groups (e and f), and three other groups (g and h). Reference genes might be more stable with lower M values of geNorm and stability values of NormFinder. Reference gene (showed in gray color) with M values above the threshold of 1.5 would show great variation and not be considered for normalization. Average M values (geNorm) and average stability values (NormFinder) of 11 candidate reference genes were calculated for each group.