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. 2009 Aug;21(8):2402–2423. doi: 10.1105/tpc.108.064964

Table 3.

Tentative Target Genes of LTR, Identified as Coregulated Genes in stn7-1, psad1-1, and psae1-3 Leaves

stn7-1
psad1-1
psae1-3
Gene Description Subcellular Location FC P Value FC P Value FC P Value
Downregulated
    At5g42800 Dihydroflavonol 4-reductase Endoplasmatic reticulum 0.14 0.0016 0.25 0.0099 0.07 0.0015
    At4g22870 Putative leucoanthocyanidin dioxygenase Unknown* 0.15 0.0005 0.19 0.0031 0.15 0.0025
    At1g56650 MYB75 transcription factor Nucleus 0.15 0.0003 0.06 0.0003 0.16 0.0090
    At5g17220 Putative glutathione S-transferase Cytoplasm 0.18 0.0050 0.22 0.0094 0.21 0.0116
    At1g03495 Transferase family protein Unknown* 0.18 0.0004 0.24 0.0030 0.08 0.0026
    At3g16360 Histidine-containing phosphotransmitter 4 Cytoplasm, nucleus 0.18 0.0166 0.05 0.0004 0.25 0.0019
    At4g14090 UDP-glucosyl transferase family protein Mitochondrion 0.19 0.0005 0.29 0.0047 0.21 0.0108
    At5g54060 UDP-glucose:flavonoid 3-O-glucosyltransferase Unknown* 0.20 0.0020 0.25 0.0104 0.32 0.0216
    At1g80130 Expressed protein Chloroplast* 0.23 0.0001 0.34 0.0070 0.24 0.0007
    At1g56600 Putative galactinol synthase Unknown* 0.24 0.0010 0.10 0.0015 0.25 0.0039
    At4g19430 Expressed protein Chloroplast 0.26 0.0211 0.18 0.0008 0.23 0.0006
    At5g52760 Heavy metal–containing protein Unknown* 0.27 0.0056 0.11 0.0051 0.45 0.0287
    At3g12580 Heat shock protein 70 Cytosol 0.29 0.0451 0.06 0.0017 0.33 0.0010
    At4g14365 Zinc finger (C3HC4-type) protein Nucleus 0.30 0.0056 0.22 0.0134 0.43 0.0210
    At5g11930 Glutaredoxin family protein Chloroplast* 0.31 0.0035 0.25 0.0024 0.26 0.0060
    At4g15620 Integral membrane family protein Unknown* 0.32 0.0059 0.22 0.0022 0.09 0.0001
    At2g17040 No apical meristem (NAM) family protein Unknown* 0.34 0.0006 0.08 0.0007 0.36 0.0086
    At5g52750 Heavy metal–containing protein Unknown* 0.35 0.0024 0.16 0.0060 0.49 0.0359
    At1g45145 Thioredoxin H-type 5 (TRX-H-5) (TOUL) Cytosol 0.36 0.0044 0.22 0.0084 0.50 0.0012
    At1g66390 Putative MYB transcription factor Nucleus 0.37 0.0003 0.30 0.0015 0.30 0.0132
    At1g73040 Jacalin lectin family protein Unknown* 0.39 0.0028 0.21 0.0008 0.42 0.0062
    At1g67360 Rubber elongation factor (REF) Vacuole 0.39 0.0003 0.13 0.0003 0.43 0.0093
    At4g32940 Vacuolar processing enzyme Vacuole 0.39 0.0006 0.28 0.0067 0.50 0.0165
    At1g17745 3-Phosphoglycerate dehydrogenase Chloroplast* 0.40 0.0004 0.23 0.0012 0.29 0.0002
    At5g22460 Esterase/lipase/thioesterase protein Cell Wall, vacuole 0.42 0.0317 0.49 0.0214 0.38 0.0036
    At4g39210 ADP-glucose pyrophosphorylase Unknown* 0.45 0.0006 0.09 0.0010 0.44 0.0036
    At4g33040 Glutaredoxin family protein Unknown* 0.46 0.0011 0.17 0.0011 0.42 0.0140
    At5g55450 Protease inhibitor Endomembrane system 0.46 0.0105 0.14 0.0018 0.26 0.0106
    At5g18130 Expressed protein Unknown* 0.47 0.0032 0.22 0.0019 0.43 0.0075
    At2g39330 Jacalin lectin family protein Unknown* 0.49 0.0183 0.28 0.0049 0.25 0.0003
    At1g29395 Putative stress-responsive protein Chloroplast 0.49 0.0019 0.14 0.0003 0.33 0.0002
    At2g19810 Zinc finger (CCCH-type) protein Nucleus 0.49 0.0000 0.43 0.0013 0.45 0.0145
    At3g15650 Phospholipase/carboxylesterase family protein Mitochondrion 0.50 0.0129 0.19 0.0017 0.37 0.0055
    At2g41410 Putative calmodulin Plasma membrane 0.50 0.0047 0.27 0.0001 0.48 0.0036
Upregulated
    At3g09580 Putative oxidoreductase Chloroplast 2.02 0.0001 4.01 0.0040 2.43 0.0008
    At5g54180 Unknown protein Chloroplast 2.05 0.0007 2.61 0.0094 2.23 0.0007
    At5g40890 Anion channel protein Unknown* 2.07 0.0005 5.34 0.0002 2.19 0.0021
    At5g24420 6-Phospho-gluconolactonase-like protein Unknown* 2.08 0.0053 2.29 0.0016 3.11 0.0006
    At5g20250 Imbitition protein Sip1 Chloroplast 2.19 0.0179 12.88 0.0006 3.36 0.0006
    At4g12600 Ribosomal protein L7Ae-like Cytosol 2.20 0.0075 2.43 0.0154 2.08 0.0162
    At3g62950 Glutaredoxin-C11 Endomembrane system 2.23 0.0121 15.20 0.0000 6.09 0.0006
    At3g17170 Hypothetical protein Chloroplast* 2.23 0.0009 2.12 0.0125 2.19 0.0020
    At5g49360 Xylosidase Extracellular matrix 2.28 0.0107 14.97 0.0002 2.18 0.0245
    At1g33340 Unknown protein Unknown* 2.37 0.0009 2.66 0.0013 2.43 0.0012
    At4g04330 Hypothetical protein Chloroplast* 2.39 0.0007 4.25 0.0007 2.43 0.0011
    At4g30610 Ser carboxypeptidase II-like Extracellular space 2.41 0.0002 2.85 0.0071 2.82 0.0070
    At2g40400 Unknown protein Chloroplast 2.50 0.0110 2.78 0.0174 3.72 0.0003
    At1g56050 GTP binding protein Chloroplast 2.62 0.0021 2.33 0.0078 2.03 0.0058
    At5g08610 RNA helicase-like protein Chloroplast 3.02 0.0014 2.18 0.0076 2.92 0.0001
    At1g69200 pfkB-type carbohydrate kinase family protein Chloroplast 3.07 0.0001 2.13 0.0081 2.55 0.0008
    At5g17300 Unknown protein Nucleus 3.14 0.0003 52.32 0.0008 2.67 0.0021
    At3g53460 RNA binding protein CP29 Nucleus 3.16 0.0034 8.39 0.0005 2.66 0.0020
    At3g03630 O-acetylserine (thiol) lyase Chloroplast 3.30 0.0009 2.71 0.0023 3.13 0.0004
    At3g54090 pfkB-type carbohydrate kinase family protein Chloroplast 3.53 0.0003 2.52 0.0084 2.53 0.0002
    At2g44040 Unknown protein Chloroplast 4.02 0.0018 3.06 0.0140 2.45 0.0055
    At5g58310 Polyneuridine aldehyde esterase-like Unknown* 4.66 0.0019 8.39 0.0027 3.17 0.0007

The gene names are according to the Arabidopsis Genome Initiative. FC, the actual fold change in relative expression relative to the wild type. The subcellular location was identified based either on the information available at The Arabidopsis Information Resource database (www.Arabidopsis.org) or by TargetP prediction (asterisks) (www.cbs.dtu.dk/services/TargetP) (Emanuelsson et al., 2000). The expression of the underlined genes was found to be differentially regulated when comparing Col-0 and Ws-2 transcript profiles.