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Table 2 Up or down regulated transcripts upon different temperature and light treatments

From: Light has a specific role in modulating Arabidopsis gene expression at low temperature

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

  1. 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.
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BMC Plant Biology

ISSN: 1471-2229

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