Table 1.
Organ-specific changes of transcript abundance in response to cytokinin treatment
|
Category |
CATMA ID |
AbB |
Ratio |
FVR p-value cytokinin effect |
AGI |
Description |
|||||
|---|---|---|---|---|---|---|---|---|---|---|---|
| |
|
|
Root |
Shoot |
|
|
|
||||
| BA15 vs. BA0 | BA120 vs. BA0 | BA1080 vs. BA0 | BA15 vs. BA0 | BA120 vs. BA0 | BA1080 vs. BA0 | ||||||
| root-specific |
CATMA1a44090 |
9 |
5.71 |
75.18 |
156.88 |
0.74 |
0.47 |
0.52 |
1.81E-02 |
AT1G53060 |
legume lectin family protein |
| |
CATMA1a56420 |
8 |
4.19 |
60.47 |
29.56 |
0.90 |
0.62 |
1.50 |
4.72E-03 |
AT1G67110 |
cytochrome P450, putative |
| |
CATMA2a32630 |
11 |
1.68 |
0.26 |
66.01 |
1.61 |
0.55 |
0.83 |
3.02E-07 |
AT2G34490 |
cytochrome P450 family protein |
| |
CATMA4a38980 |
13 |
6.85 |
21.89 |
16.03 |
1.50 |
1.03 |
0.99 |
4.49E-03 |
AT4G37410 |
cytochrome P450, putative |
| |
CATMA3a15410 |
8 |
0.89 |
19.41 |
3.14 |
1.55 |
1.47 |
0.71 |
2.38E-03 |
AT3G15990 |
sulfate transporter, putative |
| |
CATMA1a29550 |
13 |
0.97 |
6.93 |
9.80 |
0.82 |
0.89 |
1.93 |
1.25E-04 |
AT1G31320 |
LOB domain protein 4 (LBD4) |
| |
CATMA5a61330 |
18 |
2.56 |
8.17 |
5.68 |
1.21 |
0.84 |
1.02 |
5.89E-04 |
AT5G65990 |
amino acid transporter family protein |
| |
CATMA4a30310 |
28 |
0.99 |
0.86 |
5.08 |
0.65 |
0.54 |
0.81 |
1.31E-06 |
AT4G28660 |
photosystem II reaction centre W (PsbW) family protein |
| |
CATMA5a50360 |
21 |
0.49 |
0.64 |
5.65 |
1.00 |
0.56 |
1.16 |
6.90E-06 |
AT5G54510 |
IAA-amido synthase |
| |
CATMA3a26362 |
30 |
0.93 |
0.51 |
4.73 |
0.98 |
0.69 |
1.53 |
1.35E-05 |
AT3G26570 |
phosphate transporter family protein |
| |
CATMA2a00475 |
24 |
1.15 |
1.12 |
3.41 |
0.62 |
0.61 |
0.55 |
1.67E-02 |
AT2G01420 |
auxin transport protein, putative |
| |
CATMA4a22880 |
19 |
0.86 |
0.45 |
2.71 |
0.66 |
0.46 |
0.54 |
2.32E-04 |
AT4G21280 |
PsbQ subunit of photosystem II. |
| |
CATMA4a33000 |
9 |
1.04 |
0.64 |
0.07 |
1.12 |
1.79 |
1.43 |
7.04E-04 |
AT4G31320 |
auxin-responsive protein, putative (SAUR_C) |
| |
CATMA4a20925 |
12 |
0.95 |
0.35 |
0.04 |
1.39 |
0.74 |
0.71 |
3.39E-04 |
AT4G19690 |
iron-responsive transporter (IRT1) |
| |
CATMA4a11410 |
6 |
0.82 |
0.24 |
0.08 |
0.93 |
1.14 |
0.97 |
1.09E-02 |
AT4G11280 |
1-aminocyclopropane-1-carboxylate (ACC) synthase |
| shoot-specific |
CATMA5a49210 |
6 |
2.28 |
1.71 |
0.79 |
5.42 |
7.91 |
6.22 |
2.53E-05 |
AT5G53290 |
ERF subfamily B-5 of ERF/AP2 transcription factor |
| |
CATMA2a30720 |
12 |
0.82 |
2.11 |
0.71 |
5.49 |
6.48 |
7.33 |
7.58E-03 |
AT2G32430 |
galactosyltransferase family protein |
| |
CATMA5a51700 |
7 |
1.48 |
1.64 |
0.43 |
3.18 |
9.71 |
5.61 |
5.80E-03 |
AT5G55920 |
nucleolar protein, putative |
| |
CATMA3a41735 |
22 |
1.00 |
1.37 |
0.64 |
8.68 |
7.88 |
1.83 |
1.21E-01 |
AT3G48750 |
A-type cyclin-dependent kinase |
| |
CATMA4a19065 |
19 |
2.17 |
1.45 |
0.48 |
3.05 |
6.26 |
4.66 |
1.09E-02 |
AT4G18040 |
eukaryotic translation initiation factor 4E 1 (EIF4E1) |
| |
CATMA3a10615 |
6 |
0.72 |
1.35 |
0.61 |
2.91 |
5.89 |
3.86 |
2.37E-03 |
AT3G11670 |
digalactosyldiacylglycerol synthase 1 (DGD1) |
| |
CATMA1a28980 |
22 |
0.57 |
0.50 |
1.51 |
3.39 |
1.78 |
2.26 |
1.19E-02 |
AT1G30840 |
purine permease-related |
| |
CATMA2a32773 |
9 |
1.19 |
1.14 |
1.69 |
0.83 |
0.34 |
0.34 |
2.80E-02 |
AT2G34650 |
protein kinase PINOID (PID) |
| |
CATMA5a53690 |
31 |
0.85 |
0.63 |
1.80 |
0.53 |
0.45 |
0.39 |
8.23E-03 |
AT5G57930 |
ACCUMULATION OF PHOTOSYSTEM ONE 2 (APO2) |
| |
CATMA1a65110 |
29 |
1.04 |
0.79 |
0.54 |
0.34 |
0.32 |
0.09 |
3.96E-07 |
AT1G75820 |
CLAVATA1 receptor kinase (CLV1) |
| |
CATMA5a43215 |
30 |
0.50 |
0.80 |
0.87 |
0.44 |
0.18 |
0.08 |
3.27E-03 |
AT5G47230 |
ERF subfamily B-3 of ERF/AP2 transcription factor (ATERF-5) |
| |
CATMA4a28860 |
31 |
0.53 |
0.50 |
0.85 |
0.26 |
0.17 |
0.07 |
8.86E-05 |
AT4G27280 |
calcium-binding EF hand family protein |
| differential |
CATMA4a13955 |
22 |
1.87 |
1.07 |
0.22 |
10.41 |
4.16 |
2.68 |
2.25E-04 |
AT4G13770 |
cytochrome P450 family protein |
| |
CATMA5a03540 |
10 |
0.71 |
2.78 |
5.07 |
0.44 |
0.18 |
0.50 |
1.01E-02 |
AT5G04330 |
cytochrome P450, putative |
| similar |
CATMA5a07985 |
17 |
2.96 |
2.22 |
1.85 |
14.50 |
30.04 |
4.43 |
2.03E-02 |
AT5G08640 |
flavonol synthase 1 (FLS1) |
| |
CATMA3a18390 |
5 |
2.90 |
12.10 |
4.22 |
9.20 |
4.14 |
2.85 |
1.05E-03 |
AT3G18773 |
zinc finger (C3HC4-type RING finger) family protein |
| |
CATMA2b16180 |
13 |
2.72 |
12.21 |
8.03 |
2.92 |
2.72 |
2.64 |
7.70E-03 |
AT2G17500 |
auxin efflucarrier family protein |
| |
CATMA4a41340 |
17 |
2.58 |
2.26 |
3.97 |
5.32 |
4.92 |
10.72 |
1.08E-04 |
AT4G39950 |
cytochrome P450 79B2, putative (CYP79B2) |
| |
CATMA1a18090 |
15 |
3.90 |
12.44 |
0.83 |
1.90 |
6.88 |
1.54 |
4.74E-06 |
AT1G19050 |
response regulator 7 (ARR7) |
| |
CATMA2a16180 |
11 |
1.01 |
7.02 |
5.94 |
3.08 |
1.61 |
1.85 |
1.01E-02 |
AT2G17500 |
auxin efflucarrier family protein |
| |
CATMA4a25920 |
22 |
3.39 |
2.18 |
0.72 |
3.05 |
7.24 |
2.36 |
1.25E-04 |
AT4G24190 |
shepherd protein (SHD) |
| |
CATMA4a20920 |
12 |
1.07 |
1.57 |
3.05 |
1.03 |
4.11 |
7.38 |
1.47E-02 |
AT4G19680 |
iron-responsive transporter (IRT2) |
| |
CATMA5a46780 |
4 |
0.81 |
4.71 |
2.55 |
2.12 |
2.52 |
4.32 |
1.40E-02 |
AT5G50820 |
no apical meristem (NAM) family protein |
| |
CATMA5a19900 |
9 |
4.76 |
2.40 |
1.61 |
2.80 |
3.08 |
2.25 |
2.14E-02 |
AT5G22440 |
60S ribosomal protein L10A (RPL10aC) |
| |
CATMA2a29850 |
28 |
2.70 |
2.11 |
3.60 |
2.93 |
2.57 |
2.62 |
8.25E-03 |
AT2G31610 |
40S ribosomal protein S3 (RPS3A) |
| |
CATMA1a69100 |
20 |
3.03 |
2.52 |
2.38 |
2.11 |
4.75 |
1.72 |
1.99E-02 |
AT1G79920 |
heat shock protein 70, putative (HSP70) |
| |
CATMA5a43680 |
27 |
2.66 |
1.68 |
3.14 |
3.01 |
3.43 |
2.48 |
1.43E-02 |
AT5G47700 |
60S acidic ribosomal protein P1 (RPP1C) |
| |
CATMA4a31370 |
15 |
0.43 |
4.28 |
3.45 |
1.19 |
1.89 |
4.42 |
4.75E-05 |
AT4G29740 |
FAD-binding domain-containing protein |
| |
CATMA1a48985 |
6 |
0.84 |
3.57 |
4.63 |
2.27 |
1.03 |
3.28 |
2.86E-03 |
AT1G59940 |
response regulator (ARR) |
| |
CATMA3a45520 |
17 |
2.65 |
1.44 |
2.74 |
1.34 |
2.27 |
2.94 |
1.95E-02 |
AT3G52580 |
40S ribosomal protein S14 (RPS14C) |
| |
CATMA1a09860 |
13 |
2.25 |
1.17 |
3.18 |
3.46 |
1.96 |
0.54 |
7.61E-03 |
AT1G10970 |
metal transporter, putative (ZIP4) |
| |
CATMA3a48290 |
12 |
2.71 |
1.42 |
0.86 |
4.96 |
2.26 |
0.96 |
1.77E-02 |
AT3G55280 |
60S ribosomal protein L23A (RPL23aB) |
| |
CATMA2a26520 |
26 |
0.78 |
0.27 |
1.61 |
1.14 |
0.40 |
0.74 |
8.72E-05 |
AT2G28120 |
nodulin family protein |
| |
CATMA4a08040 |
24 |
0.80 |
0.58 |
0.31 |
1.74 |
1.08 |
0.23 |
1.41E-05 |
AT4G08290 |
nodulin MtN21 family protein |
| |
CATMA4a01650 |
8 |
1.07 |
1.03 |
0.17 |
1.13 |
0.81 |
0.39 |
9.55E-03 |
AT4G01450 |
nodulin MtN21 family protein |
| |
CATMA2a31475 |
31 |
0.29 |
0.82 |
1.51 |
0.39 |
0.46 |
0.59 |
3.36E-03 |
AT2G33310 |
indoleacetic acid-induced protein 13 (IAA13) |
| |
CATMA1a01400 |
10 |
0.62 |
0.84 |
0.26 |
1.12 |
0.36 |
0.27 |
2.11E-02 |
AT1G02400 |
gibberellin 2-oxidase |
| |
CATMA4a08050 |
23 |
0.52 |
0.30 |
0.27 |
1.10 |
0.83 |
0.16 |
9.93E-06 |
AT4G08300 |
nodulin MtN21 family protein |
| |
CATMA2a25030 |
24 |
0.56 |
0.39 |
0.56 |
0.64 |
0.64 |
0.34 |
4.80E-03 |
AT2G26710 |
cytochrome p450 family |
| |
CATMA1a18780 |
31 |
0.77 |
0.27 |
0.80 |
0.73 |
0.31 |
0.22 |
6.34E-05 |
AT1G19770 |
purine permease-related |
| |
CATMA3a22995 |
31 |
0.63 |
0.37 |
0.57 |
0.35 |
0.48 |
0.69 |
1.67E-02 |
AT3G23050 |
indoleacetic acid-induced protein 7 (IAA7) |
| |
CATMA5a59720 |
22 |
0.57 |
0.27 |
0.78 |
0.51 |
0.29 |
0.19 |
1.55E-04 |
AT5G64260 |
phosphate-responsive protein, putative |
| |
CATMA1a66768 |
9 |
1.01 |
0.46 |
0.24 |
0.62 |
0.20 |
0.06 |
8.11E-05 |
AT1G77640 |
DREB subfamily A-5 of ERF/AP2 transcription factor |
| |
CATMA1a33270 |
21 |
0.78 |
0.11 |
0.16 |
0.55 |
0.27 |
0.60 |
6.69E-05 |
AT1G35140 |
phosphate-responsive protein |
| |
CATMA3a25040 |
24 |
0.82 |
0.52 |
0.13 |
0.45 |
0.38 |
0.06 |
7.64E-07 |
AT3G25190 |
nodulin, putative |
| |
CATMA3a14910 |
27 |
0.51 |
0.30 |
0.60 |
0.49 |
0.22 |
0.14 |
2.37E-04 |
AT3G15500 |
no apical meristem (NAM) family protein (NAC3) |
| similar |
CATMA5a57200 |
28 |
0.65 |
0.33 |
0.60 |
0.32 |
0.12 |
0.09 |
9.30E-05 |
AT5G61600 |
ERF subfamily B-3 of ERF/AP2 transcription factor |
| |
CATMA1a26550 |
17 |
0.71 |
0.19 |
0.09 |
0.69 |
0.22 |
0.12 |
1.61E-05 |
AT1G28370 |
ERF subfamily B-1 of ERF/AP2 transcription factor |
| |
CATMA3a14565 |
31 |
0.41 |
0.17 |
0.70 |
0.40 |
0.14 |
0.17 |
3.42E-04 |
AT3G15210 |
ERF subfamily B-1 of ERF/AP2 transcription factor (ATERF-4) |
| |
CATMA5a47120 |
23 |
0.65 |
0.30 |
0.33 |
0.43 |
0.11 |
0.08 |
2.60E-04 |
AT5G51190 |
ERF subfamily B-3 of ERF/AP2 transcription factor |
| |
CATMA5a43205 |
26 |
0.60 |
0.43 |
0.11 |
0.47 |
0.18 |
0.07 |
2.68E-06 |
AT5G47220 |
ERF subfamily B-3 of ERF/AP2 transcription factor |
| |
CATMA2a43300 |
20 |
0.42 |
0.64 |
0.21 |
0.36 |
0.15 |
0.05 |
5.73E-04 |
AT2G44840 |
ERF subfamily B-3 of ERF/AP2 transcription factor |
| |
CATMA3a54340 |
27 |
0.41 |
0.16 |
0.26 |
0.23 |
0.24 |
0.14 |
2.27E-03 |
AT3G61190 |
BON1-associated protein 1 (BAP1) |
| |
CATMA5a06800 |
26 |
0.85 |
0.44 |
0.40 |
0.90 |
0.68 |
0.34 |
1.93E-06 |
AT5G07580 |
ERF subfamily B-3 of ERF/AP2 transcription factor |
| uncategorized |
CATMA2a39655 |
8 |
0.93 |
2.15 |
0.27 |
2.78 |
13.61 |
2.65 |
2.87E-02 |
AT2G41310 |
response regulator 3 (ARR3) |
| |
CATMA1a08395 |
15 |
0.58 |
0.52 |
1.31 |
0.32 |
0.37 |
0.39 |
1.12E-02 |
AT1G09530 |
phytochrome interacting factor 3 (PIF3) |
| |
CATMA2a37175 |
9 |
2.69 |
4.10 |
0.81 |
2.50 |
1.54 |
0.56 |
1.77E-02 |
AT2G38940 |
phosphate transporter (PT2) |
| |
CATMA1a68670 |
23 |
1.63 |
1.43 |
1.36 |
2.45 |
3.23 |
3.06 |
2.54E-02 |
AT1G79560 |
FtsH protease |
| |
CATMA5a43410 |
15 |
0.48 |
0.18 |
0.00 |
3.30 |
0.70 |
0.10 |
1.31E-06 |
AT5G47450 |
major intrinsic family protein |
| |
CATMA2a31585 |
30 |
1.06 |
0.59 |
3.55 |
0.60 |
0.50 |
1.29 |
3.99E-05 |
AT2G33430 |
plastid developmental protein DAG |
| |
CATMA2a34435 |
28 |
0.96 |
1.00 |
2.51 |
0.86 |
1.27 |
1.22 |
9.89E-05 |
AT2G36250 |
chloroplast division protein FtsZ (FtsZ2-1) |
| CATMA5a43410 | 15 | 0.48 | 0.18 | 0.00 | 3.30 | 0.70 | 0.10 | 1.31E-06 | AT5G47450 | major intrinsic family protein | |
The table contains an arbitrary selection of genes showing an organ-specific change of transcript abundance in response to cytokinin treatment. A number of these genes are discussed in the text. The categorization of genes was performed as described in Methods and in Additional file 1: Figure S1. Expression ratios in roots and shoots at different time points in relation to the control are given and coded by different font variants: bold, upregulation; italics, downregulation; regular, no regulation. CATMA ID, unique identifier for the gene specific tag (probe) on the microarray (data can be queried under http://www.catma.org); AbB, number of spots above background (a rough measure for expression strength); AGI, unique gene identifier assigned by TAIR; Description, edited TAIR database annotation. FDR corrected p-values ≤ 0.03, indicating whether a gene was significantly regulated by cytokinin, are marked with bold numbers.