. 2003 Jun;132(2):578–596. doi: 10.1104/pp.103.020941

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Elements (P, K, or N) were withdrawn from the nutrient solutions supplied to 28-d-old Arabidopsis plants growing hydroponically.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 ID^a	Time Point	Expression Level^b	P Starved for 28 h		P Starved for 100 h		K Starved for 28 h		N Starved for 28 h		Specificity^c	Other Stimuli^d		AGI ID^e	Functional Category^f
			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

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.