Characterization of Phototransduction Gene Knockouts Revealed Important Signaling Networks in the Light-Induced Retinal Degeneration

Table 1

Significant or specific regulations in early stage of Rhok^−/−/Sag^−/− mutant. L0: low light for 0 hour in wild-type; L1: low light for 1 hour in wild-type; and so on. H0, high light for 0 hour in wild-type; H1: high light for 1 hour in wild-type; and so on. M0: low light for 0 hour in Rhok^−/−/Sag^−/− mutant; M1: low light for 1 hour in Rhok^−/−/Sag^−/− mutant; and so on. The numbers are in log₂ ratio. Refer to the text for details.

Gene Name	Accession	L0	L1	L3	L5	L12	L20	H0	H1	H3	H5	H16	H24	M0	M1	M3	M5	M7	M9	M12	M16	M20	M24
FBJ osteosarcoma oncogene	V00727	2.8	1	0	1.6	1.5	0	2	1.5	3	3.4	2.2	0.7	1.5	1.4	2.5	1.9	2.5	2.6	2.1	2.1	1.7	1.1
connective tissue growth factor	M70642	0.9	0	0.8	0	0	0	0	0	0	1.4	0	−1.3	1.1	1.8	1.1	1	1.9	1.7	1.6	1.9	1.3	1.3
CCAAT/enhancer binding protein (C/EBP), delta	X61800	0	0	0	0	−0.6	−0.5	0	0	2.6	3.6	3	2.9	1.1	0	2.5	2.9	3.6	4.2	4	4.1	4	4.3
early growth response 1	M28845	2.5	0	1.1	1.8	1.5	0	0	2.3	3	3.2	1.6	0	1	1.4	2.8	1.5	2.4	2.9	2.4	2.4	1.4	0.6
prostaglandin D2 synthase (21 kDa, brain)	AB006361	−0.7	−0.8	0	−0.8	−0.5	−0.3	0	1	1.2	0.9	0	−0.3	0.9	1	1.2	1	0.9	0.5	0.9	1.1	0.8	0.6
brain derived neurotrophic factor	X55573	0.6	0	0	0	0	0	1	0.8	0	1.3	1.4	0.6	0.9	0	0	0	1	1.2	0.8	1.2	0.6	0.9
nuclear receptor subfamily 4, group A, member 1	X16995	2.1	0.7	0	0.4	0.7	0	1.3	0	0	1.2	0	0	0.9	0	0	0	0	0.4	0.5	0.6	0.9	0
prostaglandin D2 synthase (21 kDa, brain)	AB006361	−0.5	−1	0.4	−0.8	−0.8	−0.4	0.6	1	1.3	1.1	0	0	0.8	1.2	1.2	0.5	0.7	0.6	1	1.1	0.9	0.8
activating transcription factor 4	M94087	1	1	0.5	0	0	0	0.7	0.7	0	0	0	0	0.7	1.2	1.3	1.2	1.1	0.6	0.6	0.5	0	0
retinol binding protein 1, cellular	X60367	0	−0.4	0	−0.4	0	0	0.6	0.9	0.6	0.9	1	0.6	0.7	0.6	0.6	0	0.9	1.3	1.8	2.2	1.9	2.4
metallothionein 2	K02236	0	0	0.9	0	0	0	0	1.4	2	3.7	0	1.2	0.6	1.2	2.5	2.6	4	3.8	4.1	3.7	3.1	2.7
metallothionein 1	V00835	0	0.6	1	0.4	−0.4	0	0	0.9	1.7	3	1	0.8	0	1.1	2.1	2.5	3.7	3.8	3.7	4	2.6	2.6
Bcl2-associated athanogene 3	AV373612	0	0	0	0	0	0	0	0	1.7	2.8	0	0	0	0	5.2	0	6.4	6.6	6	6.8	6.1	6.2
fos-like antigen 1	AF017128	0	0	0	0	0	0	0	0	0	3.2	0	0	0	0	3.7	0	4.6	4.8	4.9	4	3.7	0
growth arrest and DNA-damage-inducible 45 beta	AV138783	1.2	0.9	0	0	0	0	1.3	1.1	2.2	3.3	3	2	0	0	3.1	2	3.6	4.4	4.5	4.2	3.7	3.5
activating transcription factor 3	U19118	0	0	0	0	0	0	0	0	0	0	0	0	0	0	3	2.9	2.5	2.3	2.6	2.7	2.9	2.7
cytokine inducible SH2-containing protein 3	AV374868	0	0	0	0	0	0	0	0	1.8	3.1	2.9	2.9	0	0	2.6	2.4	3.3	3.2	3.7	3.3	3.3	3.3
myocyte enhancer factor 2C	AI426400	0	0	0	0	0	0	0	0	−0.6	−1	−0.9	0	0	−0.7	−1.2	0	−0.5	−0.7	−0.7	−1.3	−1.3	−1.7
Similar to rhodopsin (opsin 2, rod pigment)	M36699	0	−0.2	0	0	0	0	0	0	0	0	0	0	−0.3	0	−1.2	−1.4	−1.6	−1.2	−1.4	−1.5	−0.9	−1.5
hexokinase 2	Y11666	0	0	0	0	0	0	−0.5	−0.7	0	0	0	−0.7	−0.4	−1	−1.3	−1.2	−1.3	−1	−1.2	−1	−0.6	−1.2
expressed sequence AA960287	AW061237	−0.4	0	0	0	0	0	0	0	0	−0.6	0	0	−0.6	0	−0.9	−1	−1.4	−0.8	−1.1	−1.3	−0.8	−1.2
rod outer segment membrane protein 1	AV356715	0	0	0	0	0	0	0	−0.4	0	0	0	−0.3	−0.6	−0.6	−1	−0.9	−1.5	−1	−1	−1	−0.6	−0.9
WNT1 inducible signaling pathway protein 1	AF100777	−0.4	0	0	0	0	0	−0.3	−0.5	−0.6	0	0	0	−0.6	−0.9	−0.8	0	−0.9	−1.1	−1.4	−1.4	−1	−1.5
high mobility group box 2	X67668	0	0	−0.8	0	0	0	0	−0.7	−1.2	0	0	0	−0.6	−0.9	−1.3	−1	0	0	−1	−1	−0.8	0
ESTs	C78037	0	0	0	0	0	0	0	0	0	0	0	0	−0.8	0	0	0	−1.2	0	−0.9	−1.1	−0.7	−1.3
kallikrein 9	M17979	0.6	0	0	−0.4	0	−1.4	0	−0.8	−1.7	−3.9	0	−3.8	−0.8	0	−0.9	−0.8	−0.7	0	−0.9	0	−1.4	−0.9
ISL1 transcription factor, LIM/homeodomain, (islet-1)	AJ132765	−0.2	−0.5	0	0	−0.3	0	−0.5	−0.7	0	0	0	0	−0.8	−1.5	−0.6	−0.5	−0.7	0	0	0	−0.7	0
RIKEN cDNA 1110013B16 gene	AW123271	0	0	−0.5	0	0	−0.3	0	0	0	0	−1.6	0	−1.3	−0.9	−1.1	−1.3	−1.4	−0.6	−1.2	−1.3	−1.4	−1.1