Differential control of Zap1-regulated genes in response to zinc deficiency in Saccharomyces cerevisiae

BMC Genomics

Table 2 New candidate Zap1 target genes identified by E1, E2, and E3 clustering.

ORF^a	Gene	Function	Fold induction				ZRE
			E1^b	E2^b	E3-1^c	E3-2^c	start^d	score^e	sequence^f
YBL029W		function unknown	3.0	2.9	1.6	1.4	-995	5.8	CCCCTGCCGGT
YBR072W*	HSP26*	small heat shock protein, protein folding	40.5	2.0	3.3	3.5	-451	5.3	ACCTTGCCTGT
YDR077W*	SED1*	cell wall protein	2.6	2.2	2.6	2.1	-896	4.7	CCCTTATAGGA
YGR088W*	CTT1*	catalase T, oxidative stress resistance	17.1	3.7	1.9	1.7	-337	5.7	CCCTTACCGGT
YGR243W	FMP43	mitochondrial protein, function unknown	2.8	2.7	3.1	2.5	-552	4.9	TCCTCGAATGT
YHR214W-A		function unknown	6.5	2.6	3.0	3.2	-274	4.8	ACCTCTGGTGT
YIL045W	PIG2	putative protein phosphatase regulatory subunit	4.6	2.4	1.6	1.5	-859	4.7	ACCTTCCACGT
YJL048C*	UBX6*	UBX (ubiquitin regulatory X) domain-containing protein	2.3	3.3	1.8	1.6	-198	5.2	TCCATTAAGGT
							-39	5.9	CCCTCAAAGGA
YKR046C	PET10	lipid particle protein, unknown function	2.9	3.0	1.7	1.7	-929	4.8	ATCTTGCAGGT
YLR136C*	TIS11*	tristetraproline homolog, control of mRNA stability	2.6	4.1	5.6	3.7	-821	4.9	GCCCGTGAGGT
							-768	6.3	AACCTGCGGGT
							-507	6.0	GCCCAGAGGGT
YML028W	TSA1	peroxiredoxin, oxidative stress resistance	5.0	2.9	2.0	1.5	-195	5.5	GCCCGTCGGGT
							-170	7.2	TCCCTAAAGGA
YMR181C		function unknown	5.9	2.2	2.6	2.7	-237	5.1	CCCTTCGAGGG
YNL239W*	LAP3*	homocysteine thiolactonase	2.1	4.7	2.9	2.9	-947	4.8	GCCTCCAATGT
YOL082W	ATG19	autophagy and cytoplasm-to-vacuole (CVT) targeting pathway	4.3	3.2	1.6	1.4	-281	5.9	ACCTTAAAAGT
							-998	4.9	ACCAACAGGGT
YOL155C*		cell wall protein	11.8	3.5	2.3	2.9	-361	6.3	ACCGTGCAGGA
YPL159C	PET20	mitochondrial protein required for respiratory growth	9.1	5.2	4.5	4.0	-278	5.3	GCCATTAAGGT
							-180	5.6	ACCCTTTGGGA

a) Results for genes marked with asterisks were confirmed independently by S1 nuclease protection assay in Figure 2.
b) Expression ratios are the average of two independent microarray experiments (Lyons et. al. 2000).
c) Results from two independent microarray experiments (E3-1 and E3-2) are shown.
d) Numbers indicate the distance from the ATG initiation codon.
e) Score calculated for each sequence with a position-specific scoring matrix generated by RSAT.
f) ZREs shown in bold were tested for interaction with Zap1 as described in Figure 3A.

ISSN: 1471-2164