Skip to main content
. 2019 Nov 29;7:e7791. doi: 10.7717/peerj.7791

Table 2. Summary of fold changes in gene expression in response to cold and water deficiency for rice and bread wheat revealed by meta-transcriptome and experimental analysis.

For rice, data are provided by clusters of experiments; for bread wheat, data from individual experiments are shown. The color of the cell indicates the degree of down- (green) and up- (red) regulation for the corresponding genes; white cells show values close to one, indicating minimal fold change; yellow cells mean no data; gray cells mean no genes.

Enzyme Clade Oryza sativa Triticum aestivum
CR clusters WDR clusters CR experiments WDR experiments Gene
S29 YP 23889 30436 31762 42214 45563 47090 79522
1 2 3 4 5 1 2 3 4 5 6 6 h 24 h 6 h 24 h
SOD A OS06G02500 0.45 1.52 0.64 2.62 1.25 TRIAE_CS42_4AL_TGACv1_289135_AA0965570
0.68 0.17 0.20 0.20 0.76 0.12 0.20 0.51 0.24 1.10 1.29 1.28 TRIAE_CS42_7AS_TGACv1_571265_AA1846380
1.28 TRIAE_CS42_7DS_TGACv1_625535_AA2065460
B OS06G05110 0.61 1.16 0.79 1.04 0.85 TRIAE_CS42_7AS_TGACv1_570531_AA1837180
0.80 0.60 0.98 0.77 0.90 0.81 0.39 0.96 0.37 1.09 1.29 0.87 TRIAE_CS42_4AL_TGACv1_291448_AA0994630
1.03 TRIAE_CS42_7DS_TGACv1_622963_AA2047880
C OS05G25850 0.99 1.04 0.67 1.06 1.15 1.60 1.02 TRIAE_CS42_2DL_TGACv1_158719_AA0524930
0.66 0.41 0.45 0.45 0.74 2.85 1.68 0.83 0.58 1.52 1.58 1.06 TRIAE_CS42_2BL_TGACv1_131439_AA0427700
0.99 TRIAE_CS42_2AL_TGACv1_94166_AA0293620
D OS03G11960 1.15 TRIAE_CS42_4BL_TGACv1_321588_AA1062590
0.86 0.92 0.89 0.81 0.88 0.60 0.25 1.09 0.48 1.05 0.82 1.10 TRIAE_CS42_4AS_TGACv1_306564_AA1010270
1.03 TRIAE_CS42_4DL_TGACv1_342699_AA1119920
E OS03G22810 1.30 2.02 1.34 1.56 1.03 TRIAE_CS42_2AS_TGACv1_114204_AA0365000
0.71 0.45 0.46 0.46 0.74 0.96 0.54 0.40 0.58 0.91 0.89 1.03 TRIAE_CS42_2BS_TGACv1_148548_AA0493640
1.15 TRIAE_CS42_2DS_TGACv1_179233_AA0605480
OS07G46990
0.84 0.72 0.66 0.67 0.87 2.37 1.75 0.77 0.78 2.30 2.69
F OS08G44770 0.70 0.92 0.18 1.02 1.05 0.45 1.07 TRIAE_CS42_7AL_TGACv1_557214_AA1778230
0.56 0.28 0.48 0.42 0.75 0.61 0.26 0.75 0.54 1.14 2.02 1.11 TRIAE_CS42_7DL_TGACv1_602770_AA1968180
1.07 TRIAE_CS42_7BL_TGACv1_578150_AA1890160
G OS04G48410
0.63 0.38 0.47 0.44 0.70 1.51 0.65 1.01 0.58 1.28 1.47
CAT A OS06G51150 0.82 0.86 0.96 0.80 0.74 2.42 4.57 1.05 1.18 1.32 1.07 TRIAE_CS42_7AL_TGACv1_556567_AA1765730
0.74 0.90 0.73 0.80 0.65 1.99 1.72 0.93 0.89 1.21 0.71 0.84 TRIAE_CS42_7DL_TGACv1_602975_AA1973160
0.88 TRIAE_CS42_7BL_TGACv1_576925_AA1860110
B OS03G03910 0.38 1.06 1.01 5.06 0.86 0.74 0.61 0.94 1.01 1.12 0.78 TRIAE_CS42_5AL_TGACv1_376544_AA1238210
0.84 0.90 0.78 0.74 0.83 0.72 0.15 0.92 0.43 0.72 0.96 0.78 TRIAE_CS42_4BL_TGACv1_320451_AA1039710
1.57 TRIAE_CS42_4DL_TGACv1_343177_AA1131150
C OS02G02400 1.86 0.56 2.17 0.01 1.02 TRIAE_CS42_U_TGACv1_640838_AA2076560
0.25 0.23 0.73 0.54 0.51 0.21 0.26 0.27 0.35 0.62 0.80 1.17 TRIAE_CS42_6DS_TGACv1_545065_AA1749890
1.04 TRIAE_CS42_6BS_TGACv1_513206_AA1634480
APX A OS08G41090
0.44 0.92 1.24 0.94 0.40 0.13 0.53 0.66 0.21 0.85 0.79
B OS02G34810 0.85 0.55 0.23 1.00 0.96 1.61 0.86 TRIAE_CS42_6AL_TGACv1_470886_AA1497540
0.75 0.56 0.77 0.65 0.80 0.75 0.15 0.92 0.47 0.63 2.36 0.88 TRIAE_CS42_6BL_TGACv1_499717_AA1589930
1.06 TRIAE_CS42_6DL_TGACv1_526775_AA1691860
C OS04G35520 0.88 TRIAE_CS42_2AL_TGACv1_95116_AA0307060
0.53 0.84 0.54 0.69 0.65 0.52 0.35 0.37 0.58 1.10 0.48 0.60 TRIAE_CS42_2DL_TGACv1_158409_AA0517920
1.01 TRIAE_CS42_2BL_TGACv1_130399_AA0410390
D OS12G07820 0.50 0.98 0.76 0.11 1.05 TRIAE_CS42_5DL_TGACv1_433012_AA1398100
0.53 0.46 0.41 0.43 0.64 0.93 0.37 0.39 0.40 1.02 1.04 1.04 TRIAE_CS42_U_TGACv1_642188_AA2112960
1.23 TRIAE_CS42_5AS_TGACv1_392962_AA1266880
OS12G07830
0.57 0.31 0.70 0.51 0.63 0.26 0.46 0.46 0.29 1.01 0.77
E OS03G17690 1.55 3.00 2.05 1.37 1.21 TRIAE_CS42_4DL_TGACv1_342793_AA1122380
1.15 1.08 0.92 0.90 0.92 0.88 0.90 0.87 0.69 1.29 0.95 1.07 TRIAE_CS42_4AS_TGACv1_307333_AA1019630
0.60 TRIAE_CS42_4BL_TGACv1_320270_AA1033310
F OS07G49400 0.89 1.26 1.68 2.16 0.98 TRIAE_CS42_U_TGACv1_641465_AA2095890
0.44 0.51 0.31 0.32 0.52 0.82 0.32 0.49 0.57 0.78 0.70 0.98 TRIAE_CS42_2BS_TGACv1_146384_AA0464000
0.76 TRIAE_CS42_2DS_TGACv1_179678_AA0608540
G OS08G43560 1.01 1.16 1.20 1.05 1.13 1.15 0.70 TRIAE_CS42_7AS_TGACv1_569494_AA1817480
0.76 0.88 0.69 0.69 0.83 0.55 0.14 0.50 0.53 0.65 0.70 0.66 TRIAE_CS42_7BS_TGACv1_593978_AA1955430
0.70 TRIAE_CS42_7DS_TGACv1_624295_AA2060370
H OS04G14680 1.23 TRIAE_CS42_2AS_TGACv1_112531_AA0340050
3.41 1.06 1.25 1.16 1.72 5.16 1.55 0.67 5.00 1.19 3.81 1.22 TRIAE_CS42_2BS_TGACv1_146663_AA0470350
1.20 TRIAE_CS42_2DS_TGACv1_180302_AA0610730
GPX A OS06G08670
0.75 0.82 0.74 0.71 0.83 0.26 0.16 0.61 0.47 0.61 0.89
B OS11G18170
0.35 0.38 0.45 0.40 0.64 0.28 0.19 0.40 0.34 0.71 0.75
C 0.45 TRIAE_CS42_U_TGACv1_641028_AA2082690
1.06 TRIAE_CS42_6DL_TGACv1_526629_AA1688510
D OS02G44500 0.87 0.92 2.22 0.90 0.89 1.23 1.15 TRIAE_CS42_2AL_TGACv1_94743_AA0302410
1.45 0.88 0.57 0.80 0.72 1.79 0.56 0.61 1.41 0.85 0.99 1.14 TRIAE_CS42_2BL_TGACv1_130949_AA0420440
1.14 TRIAE_CS42_2DL_TGACv1_157956_AA0503330
E OS04G46960 0.92 TRIAE_CS42_4BS_TGACv1_328368_AA1086960
1.58 1.70 1.03 1.25 1.08 1.02 0.85 0.73 0.91 0.86 0.65 0.92 TRIAE_CS42_U_TGACv1_641855_AA2105830
0.92 TRIAE_CS42_4AS_TGACv1_306489_AA1008990
F OS03G24380
0.54 0.65 0.63 0.60 0.79 2.17 1.07 0.63 0.88 1.28 0.90
GR A OS10G28000 0.82 0.59 0.76 0.96 0.72 1.06 0.96 TRIAE_CS42_4DL_TGACv1_344390_AA1146810
2.38 5.22 1.07 2.31 1.25 4.64 1.72 1.28 1.06 1.65 1.52 1.07 TRIAE_CS42_4AS_TGACv1_307100_AA1016930
2.44 TRIAE_CS42_4BL_TGACv1_321849_AA1066190
A OS03G06740
0.69 0.30 0.44 0.38 0.81 0.56 0.17 0.59 0.32 0.99 1.20
B OS02G56850 0.90 1.13 2.24 1.04 1.07 1.02 1.59 TRIAE_CS42_6DL_TGACv1_526737_AA1691050
0.40 0.59 0.38 0.41 0.71 1.95 1.38 0.68 0.91 1.10 0.89 2.48 TRIAE_CS42_6BL_TGACv1_500983_AA1612210
0.82 TRIAE_CS42_6AL_TGACv1_471081_AA1502320
MDHAR A OS08G44340 0.92 TRIAE_CS42_4BS_TGACv1_329408_AA1100960
0.39 0.34 0.28 0.25 0.59 0.88 0.36 0.35 0.47 0.82 1.18 0.89 TRIAE_CS42_4AL_TGACv1_289606_AA0973980
0.99 TRIAE_CS42_4DS_TGACv1_360999_AA1158060
A OS09G39380
2.92 3.15 0.90 1.72 1.22 3.89 1.18 1.01 1.66 1.49 0.64
B OS08G05570 0.96 TRIAE_CS42_U_TGACv1_642723_AA2122250
0.59 0.43 0.41 0.41 0.67 0.80 0.34 0.45 0.50 1.09 0.80 0.61 TRIAE_CS42_7AL_TGACv1_556324_AA1760960
C OS02G47800 1.10 TRIAE_CS42_6BL_TGACv1_499432_AA1582460
0.53 0.62 0.81 0.62 0.73 0.44 0.22 0.71 0.38 0.63 0.75 1.21 TRIAE_CS42_6AL_TGACv1_471762_AA1513920
D OS02G47790 1.13 TRIAE_CS42_6BL_TGACv1_499432_AA1582470
0.75 0.74 0.95 0.74 0.95 0.20 0.27 0.52 0.93 0.74 0.80 0.83 TRIAE_CS42_6AL_TGACv1_471762_AA1513930
DHAR A OS06G12630 0.96 TRIAE_CS42_7AS_TGACv1_569590_AA1819870
0.47 0.26 0.24 0.22 0.61 0.30 0.08 0.53 0.34 0.65 1.25 0.92 TRIAE_CS42_7DS_TGACv1_621452_AA2016070
0.98 TRIAE_CS42_7BS_TGACv1_591997_AA1927740
B OS05G02530 1.01 TRIAE_CS42_1BS_TGACv1_51062_AA0177560
0.45 0.22 0.32 0.23 0.64 0.85 0.60 0.75 0.70 1.14 1.41 0.84 0.68 0.73 1.10 1.10 1.10 0.56 TRIAE_CS42_1AS_TGACv1_19083_AA0060250
0.36 TRIAE_CS42_1DS_TGACv1_80640_AA0251420

Note:

Bold entries mean significant changes (p-value < 0.05) in the expression (for the method of comparison with control, see the Methods section).