Table 3.
Analysis of Defense-Related cis Elements in the IPT and DPT Promoters
| Name and Sequence of cis Element |
Corresponding Transcription Factor a |
Observed Number in IPT/DPT Promoters |
Statistically Expected Number in 35 Promoters |
P1b | Observed Number in Random Promoters |
Statistically Expected Number in 50 Promoters |
P2c |
|---|---|---|---|---|---|---|---|
| GCC box (GCCGCC) | ERF | 9 | 1.7 | 5.60 E-05 | 3 | 2.3 | 4.17 E-01 |
| G box (CACGTG) | GBF | 10 | 5.9 | 7.52 E-02 | 8 | 8.4 | 5.99 E-01 |
| DRE box (CCGAC) | CBF | 19 | 20.7 | 6.78 E-01 | 22 | 29.6 | 9.38 E-01 |
| Myb1 (GTTAGTT) | MYB1 | 15 | 7.1 | 6.57 E-03 | 4 | 10.2 | 9.91 E-01 |
| Myb2 ([C/A]TCC[T/A]ACC | MYB2 | 4 | 3.0 | 3.49 E-01 | 6 | 4.3 | 2.57 E-01 |
| Myb3 (TAAC[C/G]GTT) | MYB3 | 3 | 2.8 | 5.34 E-01 | 2 | 4.0 | 9.10 E-01 |
| W box (TTGACC) | WRKY | 11 | 13.3 | 7.74 E-01 | 25 | 19.0 | 1.08 E-01 |
| as-1 (TGACG) | TGA | 29 | 32.6 | 7.62 E-01 | 44 | 46.6 | 6.70 E-01 |
Thirty-five promoters were analyzed for the presence of cis elements commonly found in defense-related genes. A set of 50 random promoters retrieved from the Arabidopsis genome sequence was analyzed as a control.
Transcription factor that binds to the cis element. ERF, ethylene response factor; GBF, G box binding factor; CBF, DRE box binding factor; MYB, Myb box binding factor (the nomenclature Myb/MYB1, -2, and -3 is used to distinguish between the different cis element sequences and their corresponding transcription factors); WRKY, W box binding protein; TGA, as-1 binding protein (Menkens et al., 1995; Martin and Paz-Arez, 1997; Jaglo-Ottosen et al., 1998; Rushton and Somssich, 1998; Niggeweg et al., 2000a, 2000b).
The P value (P1) for the probability of finding at least n copies of a cis element in 35 promoters. Values shown in boldface are statistically significant at P ≤ 0.05 (for the GCC and Myb1 boxes) and P ≤ 0.08. The P value for the G box in the IPT/DPT promoters was 1 order of magnitude higher than its P value in the random promoters; therefore, we considered it to be statistically significant.
The P value (P2) for the probability of finding at least n copies of a cis element in 50 promoters.