Table II. Genes Downregulated by Inositol.
Description of Experiments are listed in Table I. Negative and positive values indicate downregulation and upregulation, respectively. Expression ratios in boldface indicate ≥ 2-fold difference. Overlapping expression ratios ≤ 2-fold meeting p-value cutoff of 0.025 are listed for comparison.
| Fold Difference
|
||||||||
|---|---|---|---|---|---|---|---|---|
| Gene | Expt 1 I+ | Expt 2 C+ | Expt 3 I+C+ (i) | Expt 4 I+C+ (ii) | Expt 5 opi1Δ I+ | Expt 6 opi1Δ I− | Expt 7 control | Description |
| Ino2p-Ino4p Target Genes* | ||||||||
| INO1 | −49.7 | −109.2 | −156.1 | 96.8 | inositol-3-phosphate synthase | |||
| OPI3 | −3.6 | −22.0 | −20.5 | 5.8 | 1.6 | phosphatidyl-N-methylethanolamine N-methyltransferase | ||
| PSD1 | −2.0 | −1.4 | −3.0 | −2.3 | 2.6 | 1.5 | phosphatidylserine decarboxylase | |
| CHO1 | −1.4 | −3.2 | −2.8 | 2.2 | CDP-diacylglycerol-serine O-phosphatidyltransferase | |||
| CDS1 | −1.4 | −2.4 | 2.1 | 1.5 | phosphatidate cytidylyltransferase | |||
| CKI1 | −3.0 | 1.9 | choline kinase | |||||
| ERG20 | −2.0 | −2.0 | 1.6 | dimethylallyltranstransferase | ||||
| OLE1 | −2.1 | stearoyl-CoA 9-desaturase | ||||||
| SAH1 | −1.8 | −3.4 | −2.8 | 1.8 | 1.3 | adenosylhomocysteinase | ||
| ITR1 | −2.6 | −8.6 | −7.0 | 3.6 | 1.6 | myo-inositol transporter | ||
| HNM1 | −2.7 | −2.1 | 1.3 | 1.3 | choline transporter | |||
| INO2 | −2.4 | −2.0 | 1.8 | transcription factor | ||||
| PHO81 | −2.4 | −2.2 | 2.1 | cyclin-dependent protein kinase inhibitor | ||||
| PBI2 | −1.9 | −2.3 | −3.5 | 1.7 | endopeptidase inhibitor | |||
| SRO77 | −2.6 | −2.2 | 2.6 | 1.7 | Golgi to plasma membrane transport | |||
| YIP3 | −2.2 | −3.1 | −3.1 | 2.4 | interacts with YPT proteins | |||
| ADO1 | −1.4 | −2.7 | −2.3 | 1.7 | 1.5 | adenosine kinase | ||
| GSC2 | −1.8 | −2.2 | −2.4 | −1.6 | 1,3-beta-glucan synthase | |||
| KNH1 | −1.9 | 2.4 | KRE9 homolog | |||||
| ORM2 | −2.4 | −3.0 | response to unfolded protein | |||||
| NRG2 | −3.2 | −4.5 | 2.2 | transcriptional repressor | ||||
| RMD12 | −1.9 | −2.2 | 2.2 | mitochondrial protein required for sporulation | ||||
| TYE7 | −1.7 | −2.3 | 1.4 | −1.1 | transcription factor | |||
| YEL073C | −3.3 | −1.4 | −4.9 | −4.2 | 5.1 | 1.8 | unknown | |
| YER034W | −2.1 | unknown | ||||||
| YJR008W | −2.2 | 3.2 | unknown | |||||
| YLR132C | −2.8 | unknown | ||||||
| YNL208W | −1.7 | −1.8 | −2.4 | 1.5 | unknown | |||
| UPR Target Genes* | ||||||||
| KAR2 | −2.4 | −2.3 | −3.0 | −1.9 | chaperone | |||
| SCJ1 | −1.8 | −1.9 | −2.2 | 1.3 | co-chaperone | |||
| ERO1 | −2.6 | 1.7 | −2.3 | −3.0 | −2.8 | electron carrier | ||
| FPR2 | −2.3 | −2.5 | peptidyl-prolyl cis-trans isomerase | |||||
| MPD1 | −2.1 | −2.1 | −2.8 | protein disulfide isomerase | ||||
| PDI1 | −2.2 | −1.8 | −2.4 | protein disulfide isomerase | ||||
| MCD4 | −1.8 | −1.9 | −2.1 | −2.3 | 1.2 | GPI anchor biosynthesis | ||
| DER1 | −1.6 | −2.1 | protein degradation | |||||
| SIL1 | −2.3 | −1.8 | −2.2 | −2.8 | interacts with Kar2p | |||
| SWA2 | −1.6 | −2.0 | −2.2 | 1.3 | auxilin-like protein | |||
| ATG17 | 1.7 | −1.7 | −2.1 | kinase activator | ||||
| DOG1 | −1.5 | −1.9 | −2.1 | 1.1 | 2-deoxyglucose-6-phosphatase | |||
| ECM27 | −1.7 | −2.2 | −2.4 | ExtraCellular Mutant | ||||
| MNN4 | −1.6 | −2.0 | mannosyltransferase | |||||
| PAU2 | −2.2 | seriPAUperin family | ||||||
| YJR107W | −1.6 | −2.1 | −2.1 | lipase | ||||
| YBL101W-A | −2.4 | TyA Gag protein | ||||||
| YFR026C | −2.6 | −2.1 | −2.9 | unknown | ||||
| YGR294W | −1.4 | −2.3 | unknown | |||||
| YHL046C | −2.0 | unknown | ||||||
| YIL176C | −2.0 | 1.4 | unknown | |||||
| YMR040W | −2.5 | −6.6 | unknown | |||||
| YMR184W | −2.2 | −2.3 | −2.7 | −1.3 | unknown | |||
| Other Genes | ||||||||
| MET13 | −1.4 | −1.7 | −3.3 | −2.1 | methylenetetrahydofolate reductase | |||
| SAM2 | −1.8 | −2.6 | −2.0 | 2.6 | 1.4 | 1.3 | methionine adenosyltransferase | |
| PHO84 | −7.5 | −9.8 | 2.4 | inorganic phosphate transporter | ||||
| VTC1 | −2.2 | −2.4 | −2.2 | 1.8 | Vacuolar Transporter Chaperone | |||
| VTC3 | −3.8 | −4.2 | −3.8 | Vacuolar Transporter Chaperone | ||||
| VTC4 | −2.4 | −2.4 | −1.9 | 1.5 | Vacuolar Transporter Chaperone | |||
| YHR138C | −2.1 | endopeptidase inhibitor | ||||||
| YDR034C-C | 1.5 | −2.0 | TyA Gag protein | |||||
| YDR210W-A | 1.4 | −2.1 | TyA Gag protein | |||||
| YFL002W-B | −1.9 | −3.2 | −3.5 | TyA Gag protein | ||||
| YGR161W-A | −1.3 | −2.0 | −2.7 | TyA Gag protein | ||||
| YLR410W-A | −2.2 | −3.0 | TyA Gag protein | |||||
| YOR192C-A | −2.1 | TyA Gag protein | ||||||
| YOR343W-A | −1.8 | −1.7 | −2.3 | TyA Gag protein | ||||
| BNA2 | −3.7 | −3.5 | −6.6 | 1.7 | tryptophan 2,3-dioxygenase | |||
| ALD2 | −1.5 | 1.6 | −2.1 | aldehyde dehydrogenase | ||||
| AMS1 | −2.2 | −3.5 | −2.6 | alpha-mannosidase | ||||
| APE2 | −2.0 | leucyl aminopeptidase | ||||||
| ARP10 | −2.1 | 2.0 | −1.4 | Actin-Related Protein | ||||
| ATP14 | −1.7 | −1.9 | −2.1 | hydrogen-transporting ATP synthase | ||||
| BIO5 | −2.1 | permease | ||||||
| CAR1 | −1.5 | −1.8 | −2.0 | arginase | ||||
| FMP46 | −2.0 | −2.6 | 1.8 | Found in Mitochondrial Proteome | ||||
| FOL1 | 2.0 | 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine diphosphokinase | ||||||
| GAL4 | −1.6 | 2.0 | transcriptional activator | |||||
| GPG1 | −2.7 | signal transducer | ||||||
| GWT1 | −1.5 | −2.0 | −2.0 | GPI anchor biosynthesis | ||||
| HIT1 | −2.1 | HIgh Temperature growth | ||||||
| HNT3 | 2.1 | Histidine triad NucleoTide-binding | ||||||
| HSP26 | −1.4 | −2.5 | −1.9 | chaperone | ||||
| HSP30 | −2.1 | −2.9 | −1.4 | heat shock protein | ||||
| HXT12 | −2.5 | −3.7 | HeXose Transporter | |||||
| IDS2 | −1.5 | −1.9 | −2.0 | IME2-Dependent Signaling | ||||
| KTR2 | −2.0 | 1.2 | mannosyltransferase | |||||
| MED11 | −2.2 | RNA polymerase II transcription mediator | ||||||
| MER1 | −2.3 | 1.6 | pre-mRNA splicing factor | |||||
| MOG1 | −2.2 | −2.2 | RAN protein binding | |||||
| PRB1 | −1.9 | −2.3 | −3.3 | serine-type endopeptidase | ||||
| RTS3 | −1.7 | −2.2 | protein phosphatase type 2A | |||||
| SML1 | −1.4 | −2.0 | −2.0 | enzyme inhibitor | ||||
| SNA3 | −2.0 | −2.1 | Sensitivity to Na+ | |||||
| SPG5 | −1.9 | −1.9 | −2.1 | Stationary Phase Gene | ||||
| SPS19 | −2.0 | −1.2 | −1.9 | 2,4-dienoyl-CoA reductase (NADPH) | ||||
| TPO4 | −2.1 | −2.3 | −2.7 | spermine transporter | ||||
| WSS1 | −2.1 | weak suppressor of smt3 | ||||||
| YHC1 | 2.3 | mRNA binding | ||||||
| YPS1 | −1.4 | 1.5 | −2.4 | aspartic-type endopeptidase | ||||
| YPS3 | −1.1 | −2.4 | aspartic-type endopeptidase | |||||
| GON3 | −1.4 | −2.4 | unknown | |||||
| ICT1 | −2.1 | −2.2 | unknown | |||||
| YDL183C | −2.0 | unknown | ||||||
| YDR210W | −1.4 | −2.9 | −2.5 | unknown | ||||
| YDR542W | −1.5 | −2.1 | 2.3 | unknown | ||||
| YER130C | −1.8 | −2.0 | unknown | |||||
| YER138W-A | −1.4 | −2.0 | −2.1 | unknown | ||||
| YIL175W | −2.3 | unknown | ||||||
| YLL053C | −2.6 | unknown | ||||||
| YLR168C | −1.5 | −2.1 | −1.8 | 2.1 | −1.2 | unknown | ||
| YLR173W | −2.1 | −1.7 | 2.0 | unknown | ||||
| YLR194C | −1.9 | −2.6 | unknown | |||||
| YLR414C | −1.3 | −1.6 | −2.0 | unknown | ||||
| YOL002C | −2.2 | unknown | ||||||
| YOR289W | −2.1 | −3.3 | 1.8 | unknown | ||||
| YPL095C | −2.7 | unknown | ||||||
*
Criteria for classification of Ino2p-Ino4p Target Genes and UPR Target Genes are described in the text of the Results.