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Table 4 List of 22 genes of the OsDREB1C-specific regulon of commonly cold-induced DEGs between C418 and K354

From: Genome-wide gene expression profiling of introgressed indica rice alleles associated with seedling cold tolerance improvement in a japonica rice background

Gene ID

Annotation

Fold change [K354] vs [C418]a

Fold change [K354 stress] vs [K354 control]

Fold change [C418 stress] vs [C418 control]

Co-expressed with OsDREB1C (r > 0.9) in other microarray experiments available at TIGR websiteb

  

Control

2 h

6 h

2 h

6 h

2 h

6 h

 

LOC_Os06g03670

OsDREB1C

   

6.08

35.80

33.09

60.14

 

OsDREB1 regulon

         

LOC_Os04g33820

OsFBX132 - F-box domain containing protein, expressed

       

GSE6901,GSE18361,E-MEXP-2267,E-MEXP-1766

LOC_Os01g17050

VQ domain containing protein, putative, expressed

    

5.46

8.04

5.32

GSE11025,GSE18361

LOC_Os01g48190

drought induced 19 protein, putative, expressed

    

6.53

8.53

  

LOC_Os01g51670

expressed protein

     

13.96

7.19

GSE11025,GSE18361

LOC_Os01g52730

DUF584 domain containing protein, putative, expressed

   

6.27

8.36

9.59

7.32

GSE18361

LOC_Os01g56890

expressed protein

     

5.50

  

LOC_Os01g58130

expressed protein

     

7.89

 

GSE18361

LOC_Os01g58140

expressed protein

     

9.10

6.98

GSE18361

LOC_Os01g64470

harpin-induced protein 1 domain containing protein, expressed

    

5.27

8.31

6.40

GSE11025,GSE18361,GSE17245

LOC_Os02g52210

zinc finger, C3HC4 type domain containing protein, expressed

     

5.95

  

LOC_Os04g58890

expressed protein

     

8.68

 

GSE11025,GSE18361

LOC_Os05g03620

TKL_IRAK_CR4L.4 - The CR4L subfamily has homology with Crinkly4, expressed

0.19

    

6.76

 

GSE18361

LOC_Os05g31620

OsCML15 - Calmodulin-related calcium sensor protein, expressed

   

6.92

9.40

11.39

7.48

GSE18361,E-MEXP-1766

LOC_Os05g35500

MYB family transcription factor, putative, expressed

0.12

    

8.14

  

LOC_Os05g39930

spotted leaf 11, putative, expressed

     

7.82

5.07

GSE11025,GSE18361

LOC_Os05g47960

expressed protein

0.18

    

15.73

5.76

GSE11025,GSE18361

LOC_Os06g13760

glycosyl transferase 8 domain containing protein, putative, expressed

     

5.47

5.44

 

LOC_Os07g47790

AP2 domain containing protein, expressed

0.12

    

13.54

5.87

GSE18361

LOC_Os08g19670

expressed protein

0.20

    

7.90

 

GSE18361

LOC_Os08g31090

expressed protein

     

5.76

 

GSE11025,GSE18361

LOC_Os08g34580

trehalose-6-phosphate synthase, putative, expressed

0.09

    

11.36

 

E-MEXP-2267,E-MEXP-1766

LOC_Os09g37080

expressed protein

0.20

   

5.93

11.85

6.33

GSE11025,GSE18361,GSE6893,GSE17245

  1. a. DEGs identified by using the empirical criterion of more than 5-fold change and cut-off p < 0.05 in SAM based on three independent biological replicates.
  2. b. Experiment ID of other rice microarray experiments at TIGR website [30].
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BMC Genomics

ISSN: 1471-2164

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