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Gardocki ME, et al.  (2005) Genomic analysis of PIS1 gene expression. Eukaryot Cell 4(3):604-14

Abstract: The Saccharomyces cerevisiae PIS1 gene is essential and required for the final step in the de novo synthesis of phosphatidylinositol. Transcription of the PIS1 gene is uncoupled from the factors that regulate other yeast phospholipid biosynthetic genes. Most of the phospholipid biosynthetic genes are regulated in response to inositol and choline via a regulatory circuit that includes the Ino2p:Ino4p activator complex and the Opi1p repressor. PIS1 is regulated in response to carbon source and anaerobic growth conditions. Both of these regulatory responses are modest, which is not entirely surprising since PIS1 is essential. However, even modest regulation of PIS1 expression has been shown to affect phosphatidylinositol metabolism and to affect cell cycle progression. This prompted the present study, which employed a genomic screen, database mining, and more traditional promoter analysis to identify genes that affect PIS1 expression. A screen of the viable yeast deletion set identified 120 genes that affect expression of a PIS1-lacZ reporter. The gene set included several peroxisomal genes, silencing genes, and transcription factors. Factors suggested by database mining, such as Pho2 and Yfl044c, were also found to affect PIS1-lacZ expression. A PIS1 promoter deletion study identified an upstream regulatory sequence element that was required for carbon source regulation located downstream of three previously defined upstream activation sequence elements. Collectively, these studies demonstrate how a collection of genomic and traditional strategies can be implemented to identify a set of genes that affect the regulation of an essential gene.

Status: Published Type: Journal Article PubMed ID: 15755922

Topics addressed in this paper

Number of different genes curated to this paper: 126

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Topics Topics not linked to Genes Genes linked to topics (#1 - 10 )
AAD4 ACB1 ACE2 ADH2 APT1 ATG17 ATG19 ATG27 ATG29 BAS1
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Topics Genes linked to topics (#11 - 20 )
CIK1 COQ4 CPD1 CPS1 CPT1 CRH1 CTF19 CWH41 DFG10 DYN1
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Topics Genes linked to topics (#21 - 30 )
EAP1 EDC3 EGD1 ENT3 ENT4 FAB1 FUB1 GCS1 GPD1 GRX2
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Topics Genes linked to topics (#31 - 40 )
GSH1 HIR3 HSP104 HST3 HST4 IRC21 IRC3 JLP1 LDB19 LSB3
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Topics Genes linked to topics (#41 - 50 )
MUD1 MUM2 NDL1 NHX1 NRG2 NTG2 NYV1 OGG1 OSM1 OTU1
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Topics Genes linked to topics (#51 - 60 )
PAC1 PAR32 PAU8 PDX3 PET130 PEX17 PEX22 PEX3 PEX4 PEX7
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Topics Genes linked to topics (#61 - 70 )
PHO2 PHO4 PIM1 PIS1 PMT3 POC4 POG1 PTC1 PTC3 RDH54
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Regulation of blue ball
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Topics Genes linked to topics (#71 - 80 )
REG2 RIF1 RIM8 RMD1 RMR1 ROT2 RPB4 RPB9 RPL8B RPS25A
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Topics Genes linked to topics (#81 - 90 )
RTK1 SFG1 SHB17 SIN3 SIT4 SMY1 SPO23 SPO75 SRT1 STE12
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Topics Genes linked to topics (#91 - 100 )
STM1 SUE1 SWI5 SYO1 THI12 TIR4 TYW3 VPS33 VTA1 VTS1
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Topics Genes linked to topics (#101 - 110 )
WHI4 YBR053C YDL057W YDL119C YDL129W YDR124W YDR417C YDR445C YDR521W YGL165C
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Topics Genes linked to topics (#111 - 120 )
YGR022C YGR242W YIL028W YKL147C YLL032C YLL054C YLR366W YNL134C YNR025C YOL107W
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Topics Genes linked to topics (#121 - 126 )
YOL153C YOR029W YPL077C YPL162C YPR123C YTP1
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