Table 4.
Characteristics of unique genes
| Probe ID (MZxxxxxxxx) Gene ID (GRMZM2Gxxxxxx) Annotations (MaizeGDB) |
Gene expression in control conditions by microarrays [log2(control)] | Gene expression in control conditions by RT-qPCR 2(ctk-ctK) | Cold-induced gene expression change by microarrays [log2(c/k)] | Cold-induced gene expression change by RT-qPCR [ΔΔ(CT)] | ||||||||
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| I | II | III | IV | V | ||||||||
| S68911 | S50676 | S160 | S68911 | S50676 | S160 | S68911 | S50676 | S160 | S68911 | S50676 | S160 | |
| MZ00021278; GRMZM2G019907 MaizeCyc: Ocs-element binding factor 3. BP: regulation of transcription, DNA-dependent CC: nucleus |
8.14 | 6.88 | 6.85 | 0.0032 ± 0.0018 | 0.0014 ± 0.0008 | 0.0012 ± 0.0003 | -2.1a | -0.88 ns | -0.8 ns | -1.98 ± 0.67 | -0.71 ± 0.29 | -0.63 ± 0.05 |
| MZ00026395; GRMZM2G331566 MaizeCyc: cellulase AT4G02290.1: glycosyl hydrolase 9B13 CC: extracellular region |
9.29 | 5.85 | 5.49 | 0.0417 ± 0.0173 | 0.0113 ± 0.0056 | 0.0006 ± 0.0002 | -1.63a | -0.69 ns | -0.38 ns | -1.64 ± 0.15 | -0.83 ± 0.47 | -0.33 ± 1.28 |
| MZ00029516; GRMZM2G108576 AT3G06260.1(GATL4): galacturonosyltransferase-like 4 CC: Golgi apparatus |
8.38 | 6.64 | 5.14 | 0.2713 ± 0.1 | 0.0783 ± 0.056 | 0.0454 ± 0.0105 | -1.37a | -1.5a | -0.47 ns | -1.26 ± 0.45 | -1.54 ± 2.49 | -0.88 ± 0.07 |
| MZ00056664; GRMZM2G176998 Gramene Annotations: Putative WD40-like beta propeller repeat family protein AT1G21680.1: DPP6 N-terminal domain-like protein CC: plant-type cell wall, extracellular region, vacuole |
10.5 | 6.67 | 6.18 | 0.2413 ± 0.1477 | 0.009 ± 0.001 | 0.0034 ± 0.0025 | -2.32a | 0.05 ns | -0.68 ns | -1.78 ± 1.07 | 0.28 ± 0.09 | -0.72 ± 0.2 |
Column I gives microarray probe ID, gene ID according to Maize Sequence Project, and annotations according to MaizeGDB and related databases (MaizeCyc, Gramene). Column II gives transcript level in control plants estimated by microarray hybridization; value close to 6 or below indicates no expression. Column III gives transcript level in control plants estimated by RT-qPCR in relation to reference gene (GAPDH). Column IV presents expression change (cold, c vs control, k) as found by means of microarrays; data are means of 4 biological experiments; a marks statistical significance at false discovery rate correction set at 0.05 (p-value = 0.0054). Column V presents expression change (cold vs control) as found by means of RT-qPCR; data are means of 4 biological experiments (with 3 technical replications) ± SD