Table 4.
Differentially expressed cDNAs detected in dual labeling microarray experiments comparing isogenic lines of the T locus in soybean.
| Clone ID | Genbank | Intensitiesa | Expression Ratios | Functional Annotationd | |||||
| 3' Accession | Replicate 1 | Replicate 2 | |||||||
| XB22A (T/T) | 37609 (t*/t*) | XB22A (T/T) | 37609 (t*/t*) | XB22A/37609 (T/T) / (t*/t*) | |||||
| Cy 5 | Cy3 | Cy3 | Cy5 | Rep 1b | Rep 2b | Aveb,c | |||
| Overexpressed in XB22A | |||||||||
| Gm-b10BB-23 | AF499730 | 28686 | 10847 | 38350 | 8194 | 2.645 | 4.680 | 3.520 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 26794 | 9746 | 34956 | 7839 | 2.749 | 4.459 | 3.512 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 23979 | 9018 | 33272 | 7626 | 2.659 | 4.363 | 3.440 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 26094 | 9231 | 23580 | 5264 | 2.827 | 4.479 | 3.427 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 26812 | 10670 | 35600 | 7963 | 2.513 | 4.471 | 3.350 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 25663 | 9746 | 32520 | 7685 | 2.633 | 4.232 | 3.338 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 24020 | 9468 | 34329 | 8241 | 2.537 | 4.166 | 3.295 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 24578 | 10218 | 35465 | 8158 | 2.405 | 4.347 | 3.267 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 24662 | 9850 | 26041 | 5957 | 2.504 | 4.371 | 3.208 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 22240 | 9526 | 31641 | 7643 | 2.335 | 4.140 | 3.138 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 24548 | 11084 | 35328 | 8233 | 2.215 | 4.291 | 3.100 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 19465 | 8343 | 30897 | 7912 | 2.333 | 3.905 | 3.098 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 26572 | 12004 | 37720 | 8844 | 2.214 | 4.265 | 3.084 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 21583 | 9921 | 31828 | 7410 | 2.175 | 4.295 | 3.082 | Flavonoid-3' hydroxylase |
| Gm-b10BB-22 | AF499731 | 21122 | 10431 | 37273 | 8852 | 2.025 | 4.211 | 3.028 | Flavonoid-3' hydroxylase |
| Gm-b10BB-23 | AF499730 | 26053 | 12897 | 37691 | 8164 | 2.020 | 4.617 | 3.027 | Flavonoid-3' hydroxylase |
| Underexpressed in XB22A | |||||||||
| Gm-r1070-484 | BE819850 | 2843 | 6235 | 3931 | 8702 | 0.456 | 0.452 | 0.454 | Bowman-Birk inhibitor |
| Gm-r1070-8083 | BE823467 | 2471 | 5070 | 3498 | 8557 | 0.487 | 0.409 | 0.438 | Ribonucleoprotein homolog |
| Gm-r1070-8006 | BE823540 | 3353 | 7237 | 4145 | 12219 | 0.463 | 0.339 | 0.385 | Trypsin inhibitor, Kunitz |
| Gm-r1070-9195 | BE824378 | 1889 | 4384 | 2383 | 7562 | 0.431 | 0.315 | 0.358 | No hits found |
| Gm-r1070-120 | BE657237 | 3083 | 7548 | 3769 | 11877 | 0.408 | 0.317 | 0.353 | Trypsin inhibitor, Kunitz |
| Gm-r1070-8909 | BE824331 | 3771 | 10945 | 3756 | 13568 | 0.345 | 0.277 | 0.307 | Beta conglycinin |
| Gm-r1070-9099 | BE824364 | 1806 | 19569 | 1663 | 31399 | 0.092 | 0.053 | 0.068 | Albumin precursor/leginsulin |
(a) Intensities after background subtraction and global normalization between replicates and within each slide are shown.
(b) The mean ratios of the 16 flavonoid hydroxylase cDNAs are significant below the p = 0.0001 level in a t-test compared to 2.0 as the mean.
(c) The average ratio of both slides is calculated by as follows: (XB22A Rep 1 intensity + XB22A Rep2 intensity) / (37609 Rep 1 intensity + 37609 Rep 2 intensity)
(d) The matches for all of the functional annotations were to soybean (Glycine max) sequences except for the ribonucleoprotein homolog which was to Arabidopsis thaliana.