Table 1.
Potential Zap1p target genes
| Gene | Description | Start* | Score† | ZRE sequence | Average ratio of expression‡
|
||
|---|---|---|---|---|---|---|---|
| WT −Zn/+Zn | WT/zap1 −Zn | zap1 −Zn/+Zn | |||||
| Genes with consensus ZREs (ACCYYNAAGGT) | |||||||
| YNL254C | Unknown | 431 | 15.10 | ACCTTCAAGGT | 9.7 | 12.0 | 0.9 |
| YOL084W | Major facilitator superfamily | 765 | 15.10 | ACCTTCAAGGT | 9.7 | 2.1 | 6.5 |
| ZRT1 | High-affinity Zn uptake transporter | 203 | 15.05 | ACCTTGAAGGT | 24.2 | 18.9 | 3.4 |
| 318 | 15.02 | ACCCTCAAGGT | |||||
| 445 | 12.84 | ACCTTTGGGGT | |||||
| 337 | 10.78 | ACCTCGAAGGA | |||||
| YNR039C | Putative transporter | 527 | 15.05 | ACCTTGAAGGT | 3.2 | 3.5 | 0.9 |
| YOL154W | Zn-metalloprotease-like protein | 328 | 15.05 | ACCTTCAGGGT | 13.9 | 10.1 | 2.1 |
| 313 | 14.97 | ACCCTGAAGGT | |||||
| YLL020C | Unknown | 932 | 15.02 | ACCCTCAAGGT | 5.1 | 3.1 | 1.5 |
| ZRT2 | Low-affinity Zn uptake transporter | 261 | 14.61 | ACCTTTAGGGT | 5.6 | 12.3 | 0.9 |
| 310 | 14.50 | ACCCTAAAGGT | |||||
| YDR492W | Putative transporter | 416 | 14.61 | ACCTTTAGGGT | 2.8 | 4.4 | 0.5 |
| MCD4 | Major facilitator superfamily | 103 | 14.58 | ACCTTAAAGGT | 4.1 | 2.5 | 1.7 |
| ZRT3 | Vacuolar Zn efflux | 154 | 14.53 | ACCTTAAGGGT | 7.9 | 8.7 | 1.2 |
| ZAP1 | Zn-responsive transcription factor | 143 | 14.50 | ACCCTAAAGGT | 7.5 | 16.9 | 1.5 |
| Genes with ZRE-like sequences | |||||||
| YGL258W | Unknown–similar to YOR387C | 231 | 12.91 | ACCCTGCGGGT | 16.3 | 4.0 | 1.7 |
| YOR387C | Unknown–similar to YGL258W | 230 | 12.91 | ACCCTGCGGGT | 23.6 | 19.3 | 1.3 |
| RAD27 | Endonuclease | 996 | 12.79 | ACCCGGAGGGT | 2.2 | 4.7 | 0.5 |
| YJR061W | Unknown–similar to MNN4 | 277 | 12.73 | TCCTTGAAGGT | 4.6 | 2.1 | 1.6 |
| DPP1 | DAGPP phosphatase | 451 | 12.64 | ACCTTTCAGGT | 5.5 | 3.6 | 0.8 |
| ZIP1 | Synaptonemal complex component | 574 | 12.45 | ACCTGAAAGGT | 4.5 | 2.0 | 1.6 |
| YMR086W | Unknown | 144 | 12.11 | ACCTTAAAGGA | 2.0 | 2.4 | 0.7 |
| ADH4 | ADH | 268 | 12.09 | ACCTTCACGGT | 26.2 | 5.6 | 0.7 |
| ZRC1 | Vacuolar Zn influx | 173 | 12.00 | GCCTTGAAGGT | 2.1 | 4.7 | 0.8 |
| GRE2 | Stress response protein | 919 | 11.95 | GCCTTGAGGGT | 2.5 | 2.6 | 1.5 |
| MNT2 | Mannosyltransferase | 493 | 11.93 | ACCGTGAAGGT | 2.3 | 4.4 | 0.5 |
| NRG2 | Negative regulator of glucose control | 919 | 11.56 | ACCCTCAAGTT | 5.1 | 2.2 | 1.2 |
| YOL131W | Unknown | 999 | 11.47 | AACTTCAGGGT | 6.6 | 2.3 | 2.5 |
| 457 | 10.45 | ACCTGGAAGGA | |||||
| YGL121C | Unknown | 207 | 11.45 | ACCGTAAAGGT | 10.8 | 2.7 | 10.7 |
| 286 | 10.85 | CCCTTCGAGGT | |||||
| YKL174C | Putative amino acid permease | 492 | 11.10 | ACCATAAGGGT | 3.2 | 2.0 | 1.8 |
| PRC1 | Vacuolar carboxypeptidase Y | 181 | 11.07 | ACCCGCGGGGT | 3.0 | 3.5 | 1.0 |
| ADE17 | Adenine biosynthesis | 97 | 10.85 | ACCTTTAGTGT | 5.2 | 3.7 | 1.3 |
| TKL2 | Transketolase II | 843 | 10.84 | ACCTTATGGGT | 5.4 | 2.0 | 2.6 |
| COS4 | Unknown | 308 | 10.82 | ACCTTAAATGT | 2.6 | 2.0 | 1.4 |
| COS6 | Unknown | 308 | 10.82 | ACCTTAAATGT | 2.7 | 2.2 | 1.4 |
| COS8 | Unknown | 313 | 10.82 | ACCTTAAATGT | 2.2 | 2.1 | 1.5 |
| COS1 | Unknown | 313 | 10.82 | ACCTTAAATGT | 2.1 | 2.0 | 1.7 |
| COS2 | Unknown | 313 | 10.74 | ACCCTAAATGT | 2.1 | 2.0 | 1.7 |
| COS3 | Unknown | 313 | 10.74 | ACCCTAAATGT | 2.7 | 2.2 | 1.4 |
| FET4 | Low-affinity Fe uptake transporter | 383 | 10.63 | ACCCGTGGGGT | 2.3 | 2.4 | 0.8 |
| YJL132W | Similar to phospholipase D | 153 | 10.61 | ACCCAAAGGGT | 5.2 | 3.8 | 1.7 |
| YPL250C | Unknown | 755 | 10.57 | CCCTTCCGGGT | 2.1 | 2.3 | 0.9 |
| 523 | 10.44 | TCCCTTGGGGT | |||||
| BAG7 | Putative GTPase-activating protein | 324 | 10.49 | CCCCTGCAGGT | 5.9 | 2.0 | 4.0 |
| YOL002C | Similar to YDR492W | 225 | 10.48 | TCCTCTAGGGT | 2.0 | 2.0 | 0.8 |
| PST1 | Unknown | 404 | 10.21 | TCCTTGAGGGA | 5.0 | 2.7 | 2.5 |
| 885 | 10.18 | ACCCCAAGGGA | |||||
| URA10 | Pyrimidine biosynthesis | 142 | 10.13 | ACCTTTCGGGA | 6.1 | 2.5 | 2.6 |
| YBL048W | Unknown | 857 | 10.06 | CCCTTGAGGGA | 7.7 | 2.0 | 5.8 |
| YBL049W | Unknown | 386 | 10.06 | CCCTTGAGGGA | 10.7 | 2.2 | 6.3 |
| PEP4 | Vacuolar proteinase A | 395 | 9.99 | GCCTTCCGGGT | 2.6 | 2.1 | 1.2 |
| YNL234W | Globin-like heme binding protein | 67 | 9.95 | CCCCTCAAGGG | 2.6 | 2.1 | 2.3 |
Shown are genes showing Zap1p-dependent regulation pattern whose promoters contain sequences that match the previously published consensus sequence or sequences related to the meme-derived ZRE consensus. Zap1p-dependent regulation of genes in bold has been confirmed independently by lacZ fusions either in this study or in other reports. ADH, alcohol dehydrogenase; WT, wild type.
*
Refers to the distance from the first base of the motif to the putative ATG initiation codon.
†
Calculated for each sequence with the meme-generated scoring matrix.
‡
Expression ratios were determined by microarray analysis. Each value is the average of two independent arrays.