Table 2.
Up or down regulated transcripts upon different temperature and light treatments
| AGI-code and Description Cold and Dehydration Responsive Genes | Control | Cold/Light | Cold/Dark | Dark |
| At1g09350 galactinol synthase, AtGolS3 | 0.9 ± 0.1 | 42.0 ± 3.0* | 17.1 ± 1.5 | 1.0 ± 0.4 |
| At3g50970 dehydrin (XERO2) (Low-temperature-induced protein, LTI30) | 1.0 ± 0.1 | 17.8 ± 3.0 | 11.7 ± 5.3 | 0.4 ± 0.1 |
| At5g52310 low-temperature-induced protein 78, (RD29A) (UP) | 1.3 ± 0.2 | 11.6 ± 3.5* (a) | 3.6 ± 1.7 | 0.1 ± 0.1 |
| At1g20450 dehydrin (ERD10, Low-temperature-induced protein, LTI45) | 1.3 ± 0.2 | 10.4 ± 1.4* | 3.8 ± 0.6 | 0.6 ± 0.1 |
| At4g19120 ERD3 protein | 1.3 ± 0.2 | 3.5 ± 0.6* | 1.6 ± 0.4 | 0.4 ± 0.1 |
| At5g15960 stress-induced protein KIN1 (UP) | 1.3 ± 0.1 | 2.6 ± 0.9 | 1.7 ± 0.2 | 0.1 ± 0.1 |
| At1g56600 galactinol synthase, AtGolS2 (Down) | 1.2 ± 0.2 | 2.1 ± 0.2* | 1.2 ± 0.3 | 0.7 ± 0.2 |
| At5g55400 dehydrin RAB18 | 1.2 ± 0.1 | 2.0 ± 0.3 | 0.9 ± 1.0 | 0.5 ± 0.3 |
| LHCB genes | ||||
| At3g27690 light harvesting chlorophyll A/B binding protein, LHCB 2.4 (Down) | 1.2 ± 0.2 | 15.8 ± 4.1* | 1.7 ± 0.2 | 0.5 ± 0.3 |
| At2g05070 light-harvesting chlorophyll A/B binding protein, LHCB 2.2 (Down) | 1.2 ± 0.1 | 8.1 ± 2.3* | 1.3 ± 0.2 | 0.6 ± 0.3 |
| At3g08940 chlorophyll a/b-binding protein, LHCB 4.2 (Down) | 1.2 ± 0.1 | 2.7 ± 0.8* | 0.7 ± 0.2 | 1.7 ± 0.2 |
| At3g22840 early light-induced protein, ELIP1 (Up) | 1.0 ± 0.1 | 2.4 ± 0.3* | 1.1 ± 0.1 | 0.8 ± 0.2 |
| At1g29930 light harvesting chlorophyll A/B binding protein (Down) | 1.1 ± 0.1 | 2.1 ± 0.3* | 0.9 ± 0.1 | 1.2 ± 0.2 |
| Photosystem I related genes | ||||
| At5g64040 photosystem I reaction center subunit, PSI-N (Down) | 1.2 ± 0.2 | 2.5 ± 0.3* | 1.3 ± 0.2 | 0.8 ± 0.1 |
| At1g08570 thioredoxin | 1.1 ± 0.1 | 2.0 ± 0.2 | 1.7 ± 0.2 | 1.7 ± 0.2 |
| Genes encoding chloroplast targeted proteases | ||||
| At1g49630 Zn metalloprotease | 1.2 ± 0.1 | 5.5 ± 0.9* | 1.9 ± 0.2 | 0.6 ± 0.1 |
| At5g42270 FTSH protease (H5) (Up) | 1.1 ± 0.1 | 2.9 ± 0.4* | 1.0 ± 0.2 | 0.6 ± 0.1 |
| At1g50250 FTSH protease (H1) (Up) | 1.2 ± 0.1 | 2.3 ± 0.3* | 1.2 ± 0.2 | 0.6 ± 0.1 |
| At1g06430 FTSH protease (H8) | 1.1 ± 0.1 | 2.1 ± 0.3* | 0.9 ± 0.2 | 0.7 ± 0.1 |
| At1g09130 ATP-dependent CLP protease (CLPR3)(-) | 1.1 ± 0.1 | 2.1 ± 0.5 | 1.7 ± 0.7 | 1.3 ± 0.1 |
| At5g51070 ATP-dependent CLP protease (CLPD), ERD1 protein (-) | 1.1 ± 0.1 | 0.4 ± 0.1 | 0.5 ± 0.1 | 1.5 ± 0.1 |
| Genes Encoding Chloroplast Targeted ROS Scavenging Enzymes | ||||
| At4g11600 glutathione peroxidise (Up) | 1.3 ± 0.1 | 5.7 ± 1.1* | 1.4 ± 0.2 | 0.7 ± 0.1 |
| At4g25100 iron superoxide dismutase (FeSOD) (Up) | 1.2 ± 0.3 | 3.2 ± 0.4* | 1.7 ± 0.2 | 1.8 ± 0.3 |
| At2g25080 glutathione peroxidise (Down) | 1.3 ± 0.2 | 2.8 ± 0.3* | 1.4 ± 0.3 | 1.4 ± 0.2 |
| At3g54660 gluthatione reductase (-) | 1.2 ± 0.1 | 2.1 ± 0.2* | 1.4 ± 0.1 | 0.6 ± 0.1 |
| Expression of Catalase and Ascorbate Reductase Genes | ||||
| At4g35090 catalase 2 (Up) | 1.3 ± 0.1 | 6.4 ± 1.4 | 3.8 ± 1.2 | 2.5 ± 0.4 |
| At3g09940 monodehydroascorbate reductase | 0.9 ± 0.1 | 0.9 ± 0.1 | 1.2 ± 0.2 | 0.8 ± 0.1 |
| At3g52880 monodehydroascorbate reductase | 1.3 ± 0.1 | 0.9 ± 0.2 | 0.7 ± 0.1 | 0.7 ± 0.1 |
| At1g20630 catalase 1 (Down) | 1.1 ± 0.1 | 0.8 ± 0.1 | 0.9 ± 0.2 | 1.2 ± 0.2 |
| At1g75270 dehydroascorbate reductase | 0.9 ± 0.1 | 0.6 ± 0.1 | 0.6 ± 0.1 | 0.5 ± 0.2 |
| At5g03630 monodehydroascorbate reductase | 1.3 ± 0.1 | 0.5 ± 0.1 | 0.6 ± 0.1 | 0.9 ± 0.2 |
| At1g19570 dehydroascorbate reductase | 0.9 ± 0.2 | 0.4 ± 0.2 | 0.4 ± 0.1 | 0.3 ± 0.1 |
| At1g20620 catalase 3 (Down) | 1.5 ± 0.3 | 0.4 ± 0.1 | 0.5 ± 0.1 | 2.4 ± 0.2 |
| Carotenoid Biosynthesis Genes | ||||
| At5g67030 zeaxanthin epoxidase precursor, (LOS6/ABA1)(ZEP) | 1.3 ± 0.2 | 3.8 ± 0.6* | 1.7 ± 0.5 | 0.7 ± 0.1 |
| At1g74470 geranylgeranyl reductase | 1.4 ± 0.1 | 3.0 ± 0.4* | 1.1 ± 0.1 | 1.3 ± 0.2 |
| At4g32770 tocopherol cyclase (SXD1) | 1.0 ± 0.1 | 2.1 ± 0.2* | 1.0 ± 0.1 | 0.8 ± 0.2 |
| At1g08550 violaxanthin de-epoxidase precursor, (NPQ1) | 1.2 ± 0.1 | 0.9 ± 0.1 | 0.7 ± 0.1 | 0.6 ± 0.1 |
| Chlorophyll Biosynthesis Genes | ||||
| At1g58290 glutamyl-tRNA reductase 1 (GluTR) (HEMA1) | 1.0 ± 0.1 | 6.5 ± 0.7* | 2.6 ± 0.9 | 1.2 ± 0.2 |
| At3g56940 dicarboxylate diiron protein, (CHL27, CRD1) | 1.2 ± 0.1 | 4.5 ± 0.6* | 1.4 ± 0.1 | 1.1 ± 0.2 |
| At5g13630 Mg-chelatase H-subunit (CHLH) | 1.2 ± 0.1 | 2.2 ± 0.2* | 1.2 ± 0.2 | 0.9 ± 0.1 |
| Phenylpropanoid Pathway Genes | ||||
| At5g17050 UDP glucose:flavonoid 3-o-glucosyl-transferase | 1.0 ± 0.1 | 12.6 ± 3.7* | 1.9 ± 0.8 | 0.8 ± 0.1 |
| At3g53260 phenylalanine ammonia-lyase (PAL2)(-) | 1.2 ± 0.2 | 3.7 ± 0.6 | 1.9 ± 0.7 | 1.2 ± 0.1 |
| At5g13930 chalcone synthase (naringenin-chalcone synthase) (Up) | 1.0 ± 0.1 | 2.9 ± 1.0 | 1.0 ± 0.2 | 0.6 ± 0.4 |
| At4g30210 NADPH-cytochrome p450 reductase, (ATR2) | 1.2 ± 0.1 | 2.5 ± 0.2 | 2.1 ± 0.3 | 1.3 ± 0.5 |
| At1g15950 cinnamoyl-CoA reductase | 1.0 ± 0.1 | 2.5 ± 0.2* | 1.4 ± 0.3 | 0.9 ± 0.2 |
| At4g34050 caffeoyl-CoA 3-O-methyltransferase | 1.1 ± 0.1 | 2.2 ± 0.5 | 1.1 ± 0.2 | 0.6 ± 0.1 |
| Carbon metabolism genes | ||||
| At1g32900 starch synthase | 1.3 ± 0.4 | 6.1 ± 2.1 | 4.0 ± 3.2 | 1.1 ± 0.2 |
| At4g17090 glycosyl hydrolase family 14 (beta-amylase) | 1.2 ± 0.1 | 6.1 ± 0.7 | 3.2 ± 1.4 | 0.5 ± 0.2 |
| At1g08920 sugar transporter, putative similar to ERD6 protein | 1.0 ± 0.1 | 3.4 ± 0.8 | 2.2 ± 0.3 | 0.8 ± 0.1 |
| At3g01550 triose/phosphate translocator | 1.1 ± 0.1 | 2.4 ± 0.2* | 1.3 ± 0.2 | 1.0 ± 0.1 |
| At4g38970 plastidic fructose-bisphosphate aldolase (UP) | 1.3 ± 0.2 | 2.0 ± 0.2 | 2.4 ± 0.4 | 0.3 ± 0.2 |
| At1g69830 alpha-amylase (1,4-alpha-D-glucan glucanohydrolase) | 1.3 ± 0.2 | 1.0 ± 0.2 | 0.5 ± 0.1 | 0.3 ± 0.1 |
| At4g36670 sugar transporter | 1.0 ± 0.1 | 0.9 ± 0.2 | 2.0 ± 0.5 | 1.8 ± 0.2 |
| At3g46970 starch phosphorylase, alpha-glucan phosphorylase, H isozyme | 0.9 ± 0.1 | 0.9 ± 0.1 | 0.5 ± 0.1 | 0.6 ± 0.2 |
| At1g71880 sucrose transporter SUC1 (sucrose-proton symporter) | 1.0 ± 0.1 | 0.8 ± 0.1 | 2.9 ± 0.7* | 0.5 ± 0.2 |
| Anaerobic Carbon Metabolism Related Genes | ||||
| At4g33070 pyruvate decarboxylase-1, (PDC1) | 1.1 ± 0.1 | 6.3 ± 1.3 | 3.3 ± 0.6 | 0.9 ± 0.2 |
| At1g77120 alcohol dehydrogenase, (ADH)(-) | 0.9 ± 0.1 | 2.0 ± 0.3 | 1.5 ± 0.1 | 1.0 ± 0.2 |
| At4g17260 L-lactate dehydrogenase, (LDH) | 1.0 ± 0.1 | 1.7 ± 0.1 | 1.8 ± 0.1 | 1.0 ± 0.2 |
Control represents internal variation (technical and/or biological) of different leaf samples from growth condition. Value ± s.e. indicates expression ratio of Treatment/Control after normalization ± standard error of the mean (n = 3–4). Genes in the table are listed in decreasing expression ratios according to Cold/Light treatment in each group of genes. (a)Genes that differ significantly (Students t test p-value less than 0.05) in their expression between the Cold/Light and Cold/Dark condition are marked with an asterisk (*). Values in bold indicate the quality control of gene expression (a statistical test of differential expression for a specific condition, Students t test p-value less than 0.05). A comparison between Cold/Light and moderate high light responsive gene expression [4] is indicated after description of the gene: (UP); a gene up regulated under moderate high light, (Down); a gene down regulated under moderate high light and (-); no change in the gene expression under moderate high light.