Table II.

Genes whose expression was altered 28 and 100 h after the withdrawal of P from the nutrient solution

Elements (P, K, or N) were withdrawn from the nutrient solutions supplied to 28-d-old Arabidopsis plants growing hydroponically. Gene expression profiles were determined in shoots 28 and 100 h after the withdrawal of P and 28 h after the withdrawal of K or N. Gene expression was calculated as the ratio of transcript abundance in shoots of plants starved of P, K, or N divided by transcript abundance in shoots of plants supplied with full nutrient solution.

Gene Expression Relative to Nutrient Replete Plants
GeneChip IDa Time Point Expression Levelb P Starved for 28 h P Starved for 100 h K Starved for 28 h N Starved for 28 h Specificityc Other Stimulid AGI IDe Functional Categoryf
1 2 1 2 1 2 1 2
17012_at 28 M 2.53 2.55 0.85 1.12 2.92 1.00 0.95 0.52 +P w, d At1g72260 Thionin Cell rescue, defense, and virulence
19186_s_at 28 H 3.36 2.91 10.08 2.27 8.81 1.20 1.53 0.47 +P c, w, d, ab, s At3g50970 Dehydrin Xero2 Cell rescue, defense, and virulence
20641_at 28 H 2.77 3.67 3.31 1.07 2.50 0.47 1.00 0.35 +P d At1g52690 LEA76 homolog type1 Unclassified
14025_s_at 28/100 M 2.54 3.84 3.05 2.84 2.39 2.49 3.56 2.36 +P At2g04160 Subtilisin-like Ser protease AIR3 Protein fate
12608_i_at 100 M 0.94 0.60 0.19 0.32 0.92 1.50 0.43 1.05 -P a, b At4g38850 Small auxin up RNA (SAUR-AC1) Unclassified
13322_at 100 H 0.61 0.68 0.28 0.40 0.42 0.60 0.25 0.54 -P b At4g38860 Putative auxin-regulated protein Unclassified
13660_i_at 100 L 0.76 0.98 0.27 0.37 1.39 1.66 0.23 0.90 -P a, w At1g15580 IAA5 Transcription
13972_at 100 M 0.72 0.66 0.36 0.35 0.43 0.71 0.30 0.69 -P At4g17810 SUPERMAN-like protein Transcription
14048_at 100 M 0.87 0.77 0.28 0.24 0.47 0.81 0.50 1.53 -P c At2g18890 Putative protein kinase Cellular communication
14946_at 100 H 0.45 0.52 0.36 0.39 0.37 0.22 0.47 0.44 -PK At4g21620 Putative protein Unclassified
15084_at 100 M 0.75 0.93 0.35 0.25 0.67 0.81 0.31 0.91 -P c At4g35320 Putative protein Unclassified
15671_s_at 100 M 0.82 1.19 0.40 0.31 0.61 1.11 0.51 1.45 -P w At1g75840 Rac-like GTP binding protein (ARAC5) Cellular communication
15817_at 100 M 0.53 0.63 0.40 0.34 0.42 0.76 0.33 0.69 -P At4g37240 Putative protein Unclassified
16312_at 100 M 0.51 0.53 0.39 0.15 0.47 1.10 0.18 1.05 -P At4g12970 Putative protein Unclassified
18755_at 100 L 1.05 0.79 0.33 0.40 0.68 1.38 1.02 1.90 -P At4g25780 Putative pathogenesis-related protein Cell rescue, defense, and virulence
20575_at 100 L 0.33 0.92 0.35 0.26 0.32 0.76 0.37 1.52 -P At4g32890 Putative protein Transcription
12341_s_at 100 M 1.00 1.53 2.61 4.42 1.76 0.71 3.08 0.76 +P ms At4g20110 Vacuolar sorting receptor-like protein Protein fate
12500_s_at 100 M 2.86 1.56 5.06 4.87 5.62 1.00 5.48 0.65 +P d At1g51760 Indole acetic acid-Ala hydrolase (IAR3) Unclassified
12597_at 100 M 0.83 0.61 5.36 2.63 0.58 1.46 2.17 1.28 +P At2g22780 Putative glyoxysomal malate dehydrogenase precursor Energy
12880_at 100 H 2.18 1.33 2.80 5.33 2.02 1.05 2.96 0.63 +P w, d, g At3g28930 AIG2-like protein Unclassified
13004_at 100 M 1.39 2.16 6.39 3.20 4.12 9.54 2.90 4.71 +PKN c, s At2g17840 Putative senescence-associated protein 12 Unclassified
13230_at 100 H 2.00 0.76 2.89 3.11 0.03 0.95 3.81 1.14 +P At4g16190 Cys proteinase Energy
13666_s_at 100 M 2.10 1.03 2.85 2.88 5.28 1.04 4.35 1.02 +P At2g04400 Putative Indole-3-glycerol phosphate synthase Metabolism
13695_at 100 M 1.37 0.94 3.72 2.76 0.83 1.34 1.70 1.87 +P w At3g20600 Non-race-specific disease resistance protein (NDR1) Cell rescue, defense, and virulence
13934_g_at 100 M 2.58 1.81 2.53 3.43 3.03 2.38 6.32 1.71 +P At4g17230 Scarecrow-like 13 (SCL 13) Transcription
14016_s_at 100 M 2.33 1.37 2.80 2.54 0.70 0.67 2.58 1.99 +P g, c At1g30700 FAD-linked oxidoreductase family Metabolism
14032_at 100 M 1.83 1.37 6.30 5.18 1.78 0.43 3.59 0.58 +P o, c, lo, s At4g37370 Cytochrome P450-like protein Metabolism
14116_at 100 H 2.52 1.17 6.06 2.55 1.88 1.00 4.72 0.92 +P cc At5g26340 Hexose transporter-like protein Transport facilitation
14614_at 100 M 1.83 1.49 3.62 3.41 1.40 1.22 2.14 0.80 +P cc At2g30140 Putative glucosyltransferase Metabolism
14672_at 100 H 2.38 1.30 5.56 2.80 0.98 1.50 3.88 1.44 +P cc, d, g At3g54640 Tryptophan synthase α-chain Metabolism
14978_at 100 M 2.66 2.07 2.69 6.34 1.00 0.94 3.56 1.27 +P At2g43820 Putative glucosyltransferase Metabolism
15124_at 100 H 2.61 1.24 2.60 8.41 1.96 0.79 2.75 0.36 +P g, c At3g30775 Osmotic stress-induced Pro dehydrogenase Metabolism
15156_at 100 H 1.68 1.10 3.14 5.18 1.01 2.05 3.69 1.84 +P At5g50850 Pyruvate dehydrogenase E1 component β-subunit Metabolism
15195_s_at 100 H 2.82 1.29 3.87 2.86 4.52 0.82 3.09 0.64 +P cc At2g30490 Cinnamate-4-hydroxylase Metabolism
15616_s_at 100 H 1.06 2.24 2.85 7.28 2.69 4.35 5.65 2.11 +PK At1g21250 Ser-Thr kinase Cellular communication
15629_s_at 100 H 2.52 1.93 5.08 3.85 4.70 1.07 4.88 0.66 +P At1g17740 Phosphoglycerate dehydrogenase Energy
15656_at 100 M 1.00 0.76 2.72 3.61 1.41 0.68 1.93 1.15 +P At5g54080 Homogentisate 1,2-dioxygenase Unclassified
15866_s_at 100 H 1.20 1.03 2.79 2.47 1.76 0.95 2.50 0.85 +P At2g38860 Expressed protein Unclassified
15976_at 100 M 0.68 1.10 3.09 5.52 1.44 2.21 2.15 1.05 +P cc, sulf At1g21750 Putative protein disulfide isomerase precursor Protein fate
16053_i_at 100 H 1.84 0.94 4.71 3.70 2.23 0.51 3.29 0.34 +P g, lo, w At1g02920 Glutathione S-transferase Metabolism
16077_s_at 100 M 1.22 1.33 3.36 3.04 1.39 2.73 3.87 1.64 +P hm At5g44070 Phytochelatin synthase Unclassified
16440_at 100 M 1.33 1.08 2.53 4.46 2.20 1.02 2.14 0.47 +P lo, c, o At2g40000 Putative nemalode-resistance protein Cell rescue, defense, and virulence
16493_at 100 H 2.35 1.89 2.59 3.71 8.84 0.63 2.53 0.71 +P s, c At1g54010 Myrosinase-associated protein Metabolism
16609_at 100 M 1.74 0.72 4.12 2.64 1.32 0.76 5.50 1.09 +P w, e, cc At5g47220 Ethylene-responsive element-binding factor 2 (EREB2) Transcription
17104_s_at 100 H 1.86 1.36 2.72 2.98 4.47 0.62 3.62 0.38 +P At4g35630 Phospho-Ser aminotransferase Metabolism
17105_at 100 M 2.94 1.07 2.95 3.44 3.28 1.10 7.11 1.32 +P w, lo At5g47910 Respiratory burst oxidase protein Cell rescue, defense, and virulence
17207_at 100 M 1.83 0.82 2.70 3.82 1.43 0.67 4.05 0.72 +P At4g36670 Sugar transporter like protein Metabolism
17413_s_at 100 H 6.29 0.36 8.64 5.51 0.12 0.48 5.73 0.18 +P lo At5g64120 Putative peroxidase Cell rescue, defense, and virulence
17484_at 100 M 0.52 2.95 3.37 3.17 1.30 0.70 0.54 0.45 +P At1g17020 SRG1-like protein Metabolism
17775_at 100 M 1.42 0.84 4.14 2.70 0.77 0.48 3.08 0.47 +P w, ms At1g61800 Glc-6-phosphate/phosphate-translocator precursor Transport facilitation
17877_g_at 100 H 1.54 1.73 2.77 2.66 2.36 0.71 1.92 0.49 +P lo At4g15760 Monooxygenase Metabolism
17917_s_at 100 H 1.07 1.53 4.56 3.68 1.73 2.54 2.49 1.94 +P At2g41090 Putative calcium binding protein CaBP-22 Cellular communication
17930_s_at 100 H 3.07 1.68 7.35 3.27 0.92 0.41 4.49 0.46 +P ms, lo At4g37520 Peroxidase, prxr2 Cell rescue, defense, and virulence
18228_at 100 H 2.29 0.96 5.23 3.21 3.40 0.65 4.14 0.59 +P ms At3g15356 Lectin-like protein Unclassified
18946_at 100 M 3.05 0.48 3.46 2.88 5.39 0.31 4.19 0.29 +P ms At5g39580 Peroxidase ATP24a Cell rescue, defense, and virulence
19373_at 100 M 0.77 1.67 2.71 3.46 0.80 1.09 2.55 2.16 +P At2g29670 Expressed protein Unclassified
19614_at 100 H 2.78 2.05 3.28 3.77 3.62 0.15 0.68 0.23 +P At1g09500 Putative cinnamyl alcohol dehydrogenase Metabolism
19640_at 100 H 2.97 1.60 4.31 3.81 3.39 0.54 3.39 0.29 +P ms At2g29460 Putative glutathione S-transferase Metabolism
19704_i_at 100 H 4.82 1.23 3.98 4.42 1.77 1.09 4.94 1.49 +P ms At5g24160 Squalene monooxygenase 1,2 (squalene epoxidase 1,2) Metabolism
19843_at 100 M 2.84 0.92 3.11 3.19 2.16 1.16 3.69 2.14 +P At1g61890 Expressed protein Transport facilitation
19844_at 100 M 1.13 0.69 2.57 3.60 1.79 0.72 2.52 0.63 +P w At4g38540 Monooxygenase 2 (MO2) Metabolism
19991_at 100 H 1.00 0.95 6.61 2.66 0.50 0.58 1.77 0.47 +P g At2g35980 Similar to harpin-induced protein hin1 from tobacco Cell rescue, defense, and virulence
20344_at 100 M 0.93 1.72 2.88 2.79 1.20 2.02 1.02 1.74 +P At2g15090 Putative fatty acid elongase Metabolism
20442_i_at 100 H 0.97 0.75 2.63 2.87 1.49 0.32 1.52 0.74 +P At1g16410 Putative cytochrome P450 protein Metabolism
  • a Affymetrix probe set number. b Qualitative estimates of absolute gene expression, classified as low (L, Affymetrix signal values < 150), medium (M), and high (H, Affymetrix signal values > 800). c Treatments for which genes were differentially expressed 2.5-fold in two biological replicates. (+), Genes whose expression has increased; (-), Genes whose expression has decreased. d Genes whose expression responds to auxin (a); abscisic acid (ab); brassinosteroids (b); cold (c); cell-cycle regulated (cc); drought (d); ethylene (e); gravity (g); high light (hl); heat shock (hs); low oxygen (lo); mechanical stimuli (ms); salinity (s); sulfur deficiency (sulf); and wounding and/or pathogen attack (w); see text for references. e AGI numbers and brief descriptions of the transcript identified by BLAST searching and from the descriptions provided by Ghassemian et al. (2002). f Functional categories for genes were identified using the AGI number to search the MIPS database (http://mips.gsf.de/proj/thal/db/; 28/11/02), where no category had been experimentally determined the category with the highest probability score was used.