Table 2 |
|||||||||||
|
Regulated transcription factors during CIM and SIM |
|||||||||||
|
NO. |
NO. |
B vs. A |
C vs. A |
D vs. A |
E vs. A |
||||||
|
Gene family |
Percentage |
(regulated) |
(total) |
Up |
Down |
Up |
Down |
Up |
Down |
Up |
Down |
|
|
|||||||||||
|
SRS |
80.0% |
8 |
10 |
3 |
5 |
2 |
4 |
||||
|
TLP |
72.7% |
8 |
11 |
6 |
4 |
4 |
2 |
6 |
2 |
4 |
|
|
AUX-IAA |
69.7% |
23 |
33 |
9 |
11 |
2 |
16 |
27 |
15 |
||
|
CCAAT-HAP2 |
45.5% |
5 |
11 |
5 |
2 |
4 |
4 |
||||
|
GRF |
44.4% |
4 |
9 |
4 |
|||||||
|
C2C2-Dof |
42.9% |
18 |
42 |
5 |
11 |
13 |
3 |
13 |
14 |
||
|
WRKY |
38.5% |
40 |
104 |
22 |
12 |
27 |
14 |
29 |
14 |
25 |
10 |
|
ARF |
37.8% |
14 |
37 |
13 |
10 |
13 |
10 |
||||
|
HB |
37.7% |
40 |
106 |
15 |
23 |
7 |
22 |
7 |
24 |
6 |
24 |
|
AS2 |
36.8% |
21 |
57 |
8 |
4 |
15 |
2 |
8 |
4 |
6 |
3 |
|
FHA |
36.8% |
7 |
19 |
7 |
8 |
4 |
4 |
||||
|
ZIM |
36.4% |
8 |
22 |
8 |
3 |
7 |
2 |
5 |
3 |
4 |
2 |
|
GARP-G2-like |
35.8% |
24 |
67 |
2 |
19 |
4 |
14 |
6 |
19 |
3 |
15 |
|
TCP |
35.3% |
12 |
34 |
11 |
2 |
9 |
9 |
3 |
8 |
||
|
HMG |
33.3% |
4 |
12 |
2 |
2 |
2 |
2 |
2 |
3 |
2 |
3 |
|
LIM |
33.3% |
7 |
21 |
7 |
7 |
7 |
7 |
||||
|
ULT |
33.3% |
1 |
3 |
1 |
1 |
1 |
|||||
|
ZF-HD |
32.0% |
8 |
25 |
6 |
4 |
3 |
2 |
||||
|
E2F-DP |
30.0% |
3 |
10 |
2 |
2 |
||||||
|
SBP |
27.6% |
8 |
29 |
8 |
4 |
5 |
7 |
6 |
|||
|
CCAAT-HAP3 |
26.3% |
5 |
19 |
5 |
3 |
3 |
3 |
||||
|
Trihelix |
25.5% |
12 |
47 |
4 |
6 |
4 |
4 |
5 |
4 |
4 |
3 |
|
bHLH |
25.0% |
37 |
148 |
9 |
25 |
5 |
27 |
5 |
24 |
4 |
19 |
|
PLATZ |
25.0% |
5 |
20 |
5 |
4 |
4 |
2 |
3 |
2 |
3 |
2 |
|
bZIP |
22.4% |
19 |
85 |
4 |
22 |
2 |
18 |
4 |
17 |
3 |
17 |
|
Alfin |
22.2% |
2 |
9 |
2 |
|||||||
|
GRAS |
20.8% |
20 |
96 |
7 |
12 |
5 |
7 |
8 |
12 |
5 |
7 |
|
MYB-related |
20.2% |
17 |
84 |
5 |
14 |
3 |
6 |
2 |
7 |
2 |
6 |
|
HSF |
19.4% |
6 |
31 |
7 |
11 |
7 |
5 |
||||
|
MYB |
19.0% |
41 |
216 |
13 |
27 |
11 |
27 |
12 |
29 |
11 |
27 |
|
AP2-EREBP |
18.9% |
40 |
212 |
28 |
10 |
23 |
8 |
25 |
8 |
25 |
|
|
NAC |
18.6% |
32 |
172 |
16 |
15 |
10 |
13 |
6 |
15 |
7 |
13 |
|
C2C2-CO-like |
17.9% |
7 |
39 |
10 |
6 |
7 |
5 |
||||
|
C3H |
17.9% |
14 |
78 |
10 |
3 |
9 |
2 |
7 |
5 |
6 |
2 |
|
PcG |
17.8% |
8 |
45 |
2 |
6 |
2 |
3 |
3 |
2 |
||
|
C2H2 |
16.0% |
13 |
81 |
5 |
11 |
3 |
9 |
3 |
9 |
2 |
9 |
|
C2C2-GATA |
15.6% |
5 |
32 |
2 |
2 |
3 |
3 |
||||
|
C2C2-YABBY |
15.4% |
2 |
13 |
3 |
|||||||
|
JUMONJI |
15.0% |
3 |
20 |
2 |
|||||||
|
TAZ |
14.3% |
1 |
7 |
1 |
1 |
||||||
|
GARP-ARR-B |
13.3% |
2 |
15 |
4 |
2 |
3 |
3 |
||||
|
ABI3-VP1 |
11.1% |
12 |
108 |
9 |
4 |
9 |
2 |
10 |
2 |
9 |
6 |
|
MADS |
10.8% |
12 |
111 |
8 |
2 |
7 |
6 |
5 |
2 |
6 |
|
|
CCAAT-HAP5 |
10.5% |
2 |
19 |
2 |
2 |
||||||
|
PHD |
9.3% |
8 |
86 |
7 |
3 |
5 |
3 |
2 |
4 |
2 |
|
|
|
|||||||||||
|
Total |
22.8% |
588 |
2576 |
||||||||
|
|
|||||||||||
|
The JGI gene model IDs were downloaded from the Database of Poplar Transcription Factors (DPTF) and were searched against the list of the differentially expressed genes identified by LIMMA. The list is ranked by the percentage of the total number of each transcription factor class in poplar. The total number of regulated transcription factors were corrected for redundancy among the array probes; the number of up-or down-regulated transcription factors at each stage were not corrected for redundancy (i.e., multiple probe sets targeting the same transcript may be present). |
|||||||||||
|
Bao et al. BMC Plant Biology 2009 9:132 doi:10.1186/1471-2229-9-132 |
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