Table 3.

GA and ABA Metabolic and Response Gene Expression in the Embryo and Endosperm during Germination

		Embryo			Endosperm
Affymetrix ID	Name	PAC	ABA	CON	PAC	ABA	CON
GA metabolism
255461_at	CPS (GA1)	58.5 ± 7.2	15.4 ± 2.5*	10.1 ± 1.8*	12.0 ± 3.3*	9.2 ± 3.9*	6.3 ± 2.8*
262891_at	KS (GA2)	21.5 ± 2.5	27.6 ± 3.8	25.0 ± 5.1	22.8 ± 1.8	23.1 ± 0.5	20.2 ± 2.2
246864_at	KO1 (GA3)	1053.8 ± 83.2	487.3 ± 33.1	400.8 ± 7.0	1231.8 ± 140.3	572.8 ± 55.3	291.3 ± 42.7
264586_at	KAO1	30.2 ± 1.9	51.2 ± 1.2	25.8 ± 0.6	25.8 ± 5.1	29.5 ± 4.1	20.7 ± 1.5
254065_at	GA20OX1	335.1 ± 14.1	28.1 ± 1.4	37.4 ± 4.5	204.1 ± 16.6	23.7 ± 2.9	14.0 ± 6.0
248371_at	GA20OX2	306.1 ± 4.2	7.7 ± 1.0*	21.5 ± 3.4	203.9 ± 12.6	8.5 ± 0.7*	5.8 ± 3.5*
250611_at	GA20OX3	775.9 ± 22.3	24.1 ± 3.7	3.4 ± 1.5*	798.3 ± 29.0	19.2 ± 1.2*	10.7 ± 4.8*
261768_at	GA3OX1 (GA4)	1984.1 ± 103.4	282.8 ± 28.1	597.7 ± 89.6	642.6 ± 103.5	86.9 ± 32.8	102.8 ± 21.9
260300_at	GA3OX2	339.4 ± 38.3	105.2 ± 6.3	376.1 ± 15.0	107.8 ± 28.0	37.3 ± 9.4	75.5 ± 31.1
260023_at	GA2OX2	10.4 ± 4.2*	26.4 ± 6.8	24.2 ± 10.0	5.7 ± 3.1*	22.9 ± 4.1	18.8 ± 2.9*
GA signaling
262850_at	GAI	137.0 ± 4.1	286.5 ± 19.7	73.1 ± 2.1	158.1 ± 15.3	311.0 ± 30.9	218.0 ± 18.2
266331_at	RGA	87.3 ± 2.7	90.3 ± 5.3	74.2 ± 6.9	88.3 ± 11.9	69.2 ± 11.6	47.3 ± 8.6
260141_at	RGL1	13.0 ± 2.6*	14.1 ± 2.4*	24.6 ± 1.8	43.5 ± 3.5	19.3 ± 2.3*	37.5 ± 5.3
259042_at	RGL2	403.9 ± 16.3	488.1 ± 43.0	167.2 ± 7.9	561 ± 58.9	715.0 ± 13.9	519.2 ± 49.0
246432_at	RGL3	84.2 ± 6.6	150.3 ± 9.5	42.9 ± 1.6	81.4 ± 5.2	100.0 ± 11.2	75.5 ± 5.4
254160_at	SLY1	137.2 ± 28.9	86.4 ± 10.7	80.8 ± 6.2	187.2 ± 2.8	73.5 ± 10.1	102.8 ± 25.3
251200_at	ATGID1a	4.3 ± 1.5*	2.7 ± 1.6*	6.5 ± 0.6*	7.6 ± 2.6*	4.5 ± 2.8*	11.1 ± 6.3*
259302_at	ATGID2	124.1 ± 11.1	80.3 ± 6.1	37.4 ± 2.6	102.7 ± 8.7	85.4 ± 11.6	53.0 ± 10.8
246782_at	ATGID3	24.2 ± 3.3	27.3 ± 4.3	10.9 ± 1.4*	22.2 ± 4.3*	15.6 ± 5.7*	16.6 ± 2.2*
ABA metabolism
247025_at	ABA1	397.8 ± 5.1	365.2 ± 14.8	138.2 ± 2.0	260.4 ± 10.6	320.0 ± 54.4	213.8 ± 14.3
257280_at	NCED3	4.4 ± 2.9*	2.1 ± 1.3*	2.0 ± 1.5*	2.3 ± 1.4*	1.5 ± 0.4*	1.2 ± 0.3*
257242_at	NCED6	0.9 ± 0.2*	1.3 ± 0.3*	0.9 ± 1.2*	2.1 ± 0.5*	1.6 ± 0.5*	1.9 ± 0.4*
260797_at	NCED9	7.7 ± 0.7*	2.8 ± 1.0*	3.3 ± 1.7*	21.8 ± 2.0	26.7 ± 2.5	24.7 ± 3.7
259669_at	ABA2	82.0 ± 5.4	76.3 ± 4.3	78.9 ± 1.7	116.6 ± 6.6	136.0 ± 5.0	121.3 ± 2.7
246325_at	ABA3	52.5 ± 4.9	51.5 ± 7.1	15.7 ± 3.0*	36.3 ± 1.2	36.5 ± 1.9	33.1 ± 5.6
263570_at	AAO3	74.4 ± 4.1	73.3 ± 6.8	42.2 ± 5.7	96.7 ± 28.6	94.2 ± 4.0	103.0 ± 3.8
266778_at	CYP707A2	53.0 ± 1.5	82.9 ± 12.3	25.6 ± 2.9	19.3 ± 3.5*	176.9 ± 17.5	21.2 ± 10.9
ABA signalingb
253994_at	ABI1	373.9 ± 24.5	390.5 ± 53.5	436.9 ± 20.3	282.6 ± 21.6	429.5 ± 143.1	640.6 ± 112.3
247957_at	ABI2	11.2 ± 5.1*	42.6 ± 1.7	17.1 ± 3.6*	3.2 ± 1.7*	39.0 ± 4.2	7.1 ± 2.8*
256898_at	ABI3	264.8 ± 22.4	137.3 ± 11.4	30.6 ± 2.9	342.7 ± 29.9	190.2 ± 14.1	131.7 ± 31.6
263377_at	ABI4	69.5 ± 8.8	115.3 ± 22.2	61.6 ± 14.7	13.9 ± 2.6*	42.3 ± 12.9c	24.5 ± 6.2*
263907_at	ABI5	182.4 ± 4.8	133.7 ± 18.3	23.7 ± 1.8*	108.2 ± 8.8	121.2 ± 66.1	52.2 ± 20.3
258666_at	ABI8	132.6 ± 4.6	161.9 ± 12.9	122.1 ± 11.6	104.9 ± 13.4	109.1 ± 16.2	112.7 ± 7.0
248719_at	rbohD	78.3 ± 9.2	79.8 ± 7.1	27.5 ± 1.4	649.3 ± 7.8	501.3 ± 78.9	869.9 ± 56.1
262344_at	rbohF	7.9 ± 3.0*	6.2 ± 1.1*	17.0 ± 4.3*	3.5 ± 1.1*	6.1 ± 2.3*	21.4 ± 3.6*
Light signaling
264508_at	PHYA	1385.7 ± 52.3	842.1 ± 50.2	1036.0 ± 53.5	2516.9 ± 190.1	1475.2 ± 164.2	2545.5 ± 145.9
266065_at	PHYB	331.5 ± 25.5	261.2 ± 5.7	188.9 ± 1.6	299.0 ± 6.0	206.6 ± 6.1	198.1 ± 8.4
245487_at	PHYD	137.8 ± 1.9	159.9 ± 19.8	46.0 ± 1.9	58.8 ± 4.6	67.9 ± 1.8	25.7 ± 5.8
254680_at	PHYE	161.6 ± 8.2	180.2 ± 3.4	100.5 ± 2.9	143.1 ± 19.3	176.0 ± 4.2	82.1 ± 14.9
265584_at	PIL5/PIF1	373.7 ± 22.6	337.2 ± 6.0	207.2 ± 11.0	383.5 ± 41.5	320.4 ± 10.6	213.8 ± 29.6
246212_at	SPATULA	54.5 ± 4.3	54.7 ± 3.5	207.1 ± 4.4	187.2 ± 21.4	170.7 ± 48.1	483.6 ± 121.5

Asterisk indicates an absent call in at least two of three replicates. CON, control.

^aThe Arabidopsis homologues of the recently identified rice GA receptor GIBBERELLIN INDEPENDENT DWARF1.

^bMajor and relevant ABA response genes shown only.

^cOne absent, one present, and one marginal call.