Identification of differentially expressed genes after partial rat liver ischemia/reperfusion by suppression subtractive hybridization

Table 1 PCR primers and annealing temperatures used for target amplification and labelling ([α-³²P]-dCTP).

Description	Accession number	Primer sequence (5'-3')	Size1 (bp)	Annealingtemperature (°C)
Adapter-1		TCGAGCGGCCGCCCGGGCAGGT		68
Adapter-2R		AGCGTGGTCGCGGCCGACGT
β-Actin forward	V01217	2161-ATGTTTGAGACCTTCAACAC-2180	483	56
β-Actin reverse	V01217	2743-AACGTCACACTTCATGATGG-2724
Fos forward	XM_234422	695-TGGTGAAGACCATGTCAGGCG-715	404	60
Fos reverse	XM_234422	1098-ATTGAGAAGAGGCAGGGTGAAGG-1076
Jun forward	NM_021835	367-GGAAACGACCTTCTACGACGATG-389	519	60
Jun reverse	NM_021835	885-GGGTTGAAGTTGCTGAGGTTGG-864
Jund forward	NM_138875	465-AGTACGCAGTTCCTCTACCCTAA-487	413	58
Jund reverse	NM_138875	877-ATGTCGATGGGCGACAGTGGA-857
Hsp27 forward	M86389	157-GTTTCCCGATGAGTGGTCTCAGT-179	378	63
Hsp27 reverse	M86389	534-TCAGGGGACAGGGAAGAGGACAC-512
Hsp60 forward	X54793	913-CCAGGGTTTGGGGACAACAGG-933	380	59
Hsp60 reverse	X54793	1293-TCTTGTAGCATTGAGAGCATCTG-1271
Hsp70 forward	L16764	2129-GGCTAGAGACAGACTCTTGATGG-2151	276	58
Hsp70 reverse	L16764	2404-CTCAGTTTGTAGGGATGCAAGG-2383
Gadd45a forward	L32591	51-GAAGATCGAAAGGATGGACACGG-73	307	63
Gadd45a reverse	L32591	357-GCTCTCAGCGGGGCTCTTGTC-337
Ldlr forward	X13722	1337-CTGTGGGTTCCATAGGGTTTCTG-1359	561	60
Ldlr reverse	X13722	1897-GTTTGGAATCAACCCAATAGAGG-1875

Table 2 Summary of Northern blot expression data of rat liver lobes after partial WI/R (1h/2h).

Description	Up-regulated genes (C-lobes vs I-lobes; n = 14)
	UniGene ID	Accession number	% Identity1	Method	Mean fold increase2	SE3	WI/R citation4
Stress response
Heat shock 10 ku protein 1 (Hspe1,Hsp10)	Rn.106093	NM_012966	id	SSH	2.8 (n = 4)	1.4
Heat shock protein 27 ku (Hsp27)	Rn.3841	M86389	id	A	13.7 (n = 4)	1.6	[21, 27]
Heat shock protein 60 ku (liver) (Hsp60)	Rn.102058	X54793	id	A	1.4 (n = 4)	1.4
Heat shock 70 ku protein 1A (Hspa1a,Hsp70)	Rn.1950	L16764	id	SSH/A	64.0 (n = 4)	1.6	[22, 36-39]
Heat shock 70 ku protein 8 (Hspa8, Hsc70)	Rn.120392	M11942	id	SSH	1.5 (n = 4)	1.5	[37, 40]
Heat shock protein 1, alpha (Hspca,Hsp86)	Rn.3277	AJ297736	id	SSH	2.5 (n = 4)	1.1	[39]
Similar to heat shock protein 105 ku alpha (LOC288444, Hsp105)	Rn.37805	XM_213699	id	SSH	1.9 (n = 4)	1.1
Cell cycle arrest, DNA damage, apoptosis
Growth and DNA-damage-inducible transcript-1 (Gadd45a)	Rn.10250	L32591	id	A	3.7 (n = 4)	1.2
Transcription factor
Jun D proto-oncogene (Jund)	Rn.46225	NM_138875	id	A	4.6 (n = 4)	1.3	[9, 29]
c-fos mRNA (Fos)	Rn.103750	XM_234422	id	A	16.3 (n = 4)	1.9	[9, 28, 29, 36, 37, 41]
Avian sarcoma virus 17 oncogene homolog (Jun)	Rn.93714	NM_021835	id	A	2.5 (n = 3)	1.5	[9, 28, 29, 36, 41]
Cellular metabolism
Low density lipoprotein receptor (Ldlr)	Rn.10483	X13722	id	A	9.1 (n = 4)	1.4
Gene product function unknown
ESTs	Rn.16092	BM391881	id	SSH	5.2 (n = 4)	1.2
ESTs	Rn.2835	BG664888	id	SSH	3.6 (n = 4)	1.4