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Table 2 Genes showing at least two-fold differential expression (induction/repression) in Arabidopsis AtTIL knock-out plants.

From: The plant Apolipoprotein D ortholog protects Arabidopsis against oxidative stress

    Differential expression
(absolute values)
  
    KO KO 4°C WT 4°C KO 4°C   
    vs vs vs vs Regulation  
Putative Function and Reference Locus ID ProbesetIDs WT KO WT WT 4°C   
Upregulated Genes         
Transcription Factors:         
   pseudo-response regulator 5 (APRR5) At5g24470 249741_at 5,3 6,3 33,8 -1,0  
   zinc-binding family protein (DUF597) At1g76590 259977_at 2,9 2,1 5,7 1,1 #  
   WRKY family transcription factor (WRKY54) At2g40750 257382_at 2,8 2,2 4,8 1,3 #  
   DRE-binding protein (DREB1A)/CRT/DRE-binding factor 3 (CBF3) At4g25480 254066_at 2,3 4,0 12,9 -1,4   
   ABA-responsive element-binding protein (ABRE) At1g49720 261613_at 2,2 2,4 4,9 1,1   
   sigA-binding protein At3g56710 246293_at 2,2 1,8 3,6 1,1 #  
   heat shock factor protein, putative (HSF5) (HSTF5) At1g67970 259992_at 2,1 2,2 4,0 1,2 #  
   gigantea protein (GI) At1g22770 264211_at 2,0 3,6 6,9 1,1  
   zinc finger (MYND type) family protein At5g50450 248502_at 2,1 2,2 4,4 1,1   
   zinc finger (C3HC4-type RING finger) family protein At1g49230 260753_at 2,1 1,4 2,9 1,0 #  
   CONSTANS-LIKE 13 zinc finger (B-box type) family protein At2g47890 266514_at 2,1 3,5 6,5 1,1   
   ABI3-interacting protein 1 (AIP1) (TOC1) At5g61380 247525_at 2,1 3,1 5,4 1,2  
Signal Transduction:         
   invertase/pectin methylesterase inhibitor family protein At5g62360 247478_at 5,2 1,3 5,8 1,1 #  
   cold circadian rhythm-RNA binding 2; CCR2 At2g21660 263548_at 4,4 3,2 13,4 1,1   
   acid phosphatase class B family protein At2g39920 267361_at 4,0 -1,1 3,4 1,0 #  
   auxin-regulated protein kinase, putative At2g33830 267461_at 3,2 -1,6 1,7 1,1 *  
   peptidyl-prolyl cis-trans isomerase/cyclophilin (CYP2)/rotamase At2g21130 264019_at 2,3 2,9 6,4 1,1   
   ankyrin repeat family protein (ACD6) At4g14400 245265_at 2,2 2,0 4,5 -1,0   
   protein kinase, putative BIK kinase At3g55450 251789_at 2,2 2,1 4,2 1,1 #  
   phosphorylase family protein At4g24340 254163_s_at 2,1 -3,3 -1,3 -1,2 *  
Stress Reponse, Cell Rescue and Defense:         
   DNAJ heat shock N-terminal domain-containing protein At5g23240 249850_at 6,5 2,1 11,6 1,2 #  
   DNAJ heat shock N-terminal domain-containing protein At1g56300 256221_at 4,4 -1,2 3,1 1,2 #  
   hydrophobic protein, low temperature and salt responsive protein At4g30650 253627_at 2,3 7,8 17,5 1,0   
   senescence-associated protein-related (SAG102) At1g53885 262226_at 2,3 -4,7 -2,1 1,0   
   hydrophobic protein, low temperature and salt responsive protein At4g30660 253581_at 2,1 -2,7 -1,1 -1,2 *  
   universal stress protein (USP) family protein At3g62550 251221_at 2,0 -2,4 -1,3 1,1 *  
   heavy-metal-associated domain-containing protein At1g51090 245749_at 2,0 5,7 11,1 1,0   
   pathogenesis-related thaumatin family protein (calcium storage) At1g20030 261248_at 2,0 -1,7 1,0 1,0 *  
   cold-regulated protein (cor15b) At2g42530 263495_at 2,0 24,0 47,7 1,0   
   pathogen and circadian controlled 1 (PCC1) At3g22231 256766_at 2,0 1,6 2,9 1,0 #  
Metabolism:         
   riboflavin biosynthesis protein, putative At2g22450 264045_at 2,8 1,2 3,2 -1,0 #  
   pyruvate decarboxylase, putative At5g54960 248138_at 2,6 1,6 3,7 1,1 #  
   preprotein and amino acid transporter At4g26670 253981_at 2,4 1,8 4,0 1,1 #  
   succinate-semialdehyde dehydrogenase (SSADH1) At1g79440 262892_at 2,2 2,6 5,6 1,0   
   aldose 1-epimerase family protein At3g47800 252387_at 2,2 1,6 3,7 -1,1 #  
   nucellin protein, putative At4g33490 253331_at 2,1 -1,1 1,7 1,1 *  
   auxin-responsive family protein At5g35735 249719_at 2,1 1,2 2,4 1,0 #  
   acyl CoA:diacylglycerol acyltransferase (DGAT) At2g19450 267280_at 2,1 3,0 5,9 1,1   
   isoamylase, putative/starch debranching enzyme, putative At4g09020 255070_at 2,1 3,0 6,0 1,0   
   2-oxoacid-dependent oxidase, putative (DIN11) At3g49620 252265_at 2,1 -2,8 -1,2 -1,1 *  
   OEP16-like protein At2g28900 266225_at 2,1 2,7 5,8 -1,0   
   starch phosphorylase, putative At3g46970 252468_at 2,1 1,6 2,9 1,1 #  
   glycoside hydrolase starch-binding domain-containing protein At5g26570 246829_at 2,0 2,5 4,9 1,0   
   amino acid permease family protein or GABA permease At2g01170 265790_at 2,0 1,1 2,1 1,0 #  
Expressed Protein         
   expressed protein At4g16146 245319_at 4,0 4,2 14,7 1,2   
   expressed protein At1g53035 261318_at 2,6 5,1 12,0 1,1   
   expressed protein At4g04330 255331_at 2,6 -1,6 1,5 1,1 *  
   expressed protein At2g14560 265837_at 2,5 2,9 6,1 1,2   
   expressed protein At2g15890 265478_at 2,4 -3,0 -1,4 1,1 *  
   expressed protein At1g70420 264314_at 2,1 -1,8 1,6 -1,3 *  
   expressed protein At1g14870 262832_at 2,1 4,0 5,9 1,4   
Downregulated Genes         
Transcription Factors:         
   late elongated hypocotyl (LHY) At1g01060 261569_at -3,2 6,2 2,1 -1,1  
   CONSTANS-LIKE 2 (COL2) At3g02380 258497_at -2,4 -2,0 -3,2 -1,5 #
Signal Transduction:         
   cysteine proteinase, putative At2g27420 265665_at -2,3 2,3 1,0 -1,0 *  
   calcium-binding RD20 protein (RD20) At2g33380 255795_at -2,1 -2,1 -3,7 -1,2 #  
Stress response, Cell Rescue and Defense:         
   At TIL, lipocalin At5g58070 247851_at -3,6 -1,7 1,5 -8,8 *  
   putative membrane related protein CP5 At1g55960 260603_at -2,2 -2,0 -4,3 -1,0 #  
   phosphate-responsive protein, putative (EXO) At4g08950 255064_at -2,0 -2,0 -5,3 1,3   
Metabolism:         
   dehydrodolichyl diphosphate synthase, putative At5g58770 247780_at -3,1 -2,8 -7,6 -1,1   
   trehalose-6-phosphate phosphatase (TPPA) At5g51460 248404_at -2,8 -2,6 -6,7 -1,1   
   starch synthase, putative At1g32900 261191_at -2,5 6,4 2,7 -1,1   
   carbonic anhydrase family protein At3g52720 252011_at -2,2 -3,3 -6,9 -1,1   
   glutathione S-transferase, putative (ERD9) At1g10370 264436_at -2,2 4,5 2,1 -1,0   
   adenosylmethionine decarboxylase family protein At5g15950 246490_at -2,0 6,6 3,5 -1,1   
Expressed Protein         
   expressed protein At3g28270 256603_at -2,3 -1,9 -4,0 -1,1 #  
   expressed protein At1g68440 259856_at -2,1 -2,5 -4,6 -1,1   
  1. * 12 genes regulated (induced or repressed) only in the KO line (not regulated by exposure of the WT to LT)
  2. # 22 genes for which the regulation in KO is at least 50% of the regulation seen in WT exposed at 4°C
  3. † key regulators of the circadian clock