Table 1 Significantly induced genes of Saccharomyces cerevisiae by HMF during the lag phase
Systematic Name | Standard Name | Description | Fold change | |||
|---|---|---|---|---|---|---|
| Â | Â | Â | 0.2 h | 0.5 h | 1 h | 2 h |
Reductase | ||||||
YCR105W | ADH7 | NADPH-dependent medium chain alcohol dehydrogenase with broad substrate specificity | +38.4 | +60.3 | +81.3 | +39.5 |
YGL157W | ARI1 | NADPH-dependent aldehyde reductase | +12.3 | +21.3 | +29.2 | +27.2 |
YOL151W | GRE2 | 3-methylbutanal reductase and NADPH-dependent methylglyoxal reductase (D-lactaldehyde dehydrogenase) | +8.0 | +7.6 | +10.4 | +12.0 |
YOR374W | ALD4 | NAD(P)-dependent mitochondrial aldehyde dehydrogenase | +4.3 | +3.2 | +2.7 | +3.2 |
PDR family | ||||||
YOR153W | PDR5 | Plasma membrane ATP-binding cassette (ABC) transporter | +30.0 | +19.0 | +30.6 | +23.7 |
YPL058C | PDR12 | Plasma membrane ATP-binding cassette (ABC) transporter | +7.1 | +4.1 | +6.2 | +3.3 |
YDR406W | PDR15 | Plasma membrane ATP binding cassette (ABC) transporter | +9.5 | +3.5 | +5.4 | +7.3 |
YDR011W | SNQ2 | Plasma membrane ATP-binding cassette (ABC) transporter | +4.7 | +3.8 | +6.4 | +4.1 |
YGR281W | YOR1 | Plasma membrane ATP-binding cassette (ABC) transporter | +4.7 | +3.0 | +4.4 | +3.5 |
YOR049C | RSB1 | Suppressor of sphingoid long chain base (LCB) sensitivity of an LCB-lyase mutation | +15.7 | +6.9 | +9.5 | +8.6 |
YLR099C | ICT1 | Lysophosphatidic acid acyltransferase | +3.4 | +2.9 | +4.8 | +6.2 |
YER142C | MAG1 | 3-methyl-adenine DNA glycosylase involved in protecting DNA against alkylating agents | +4.3 | +4.5 | +5.1 | +3.7 |
YER143W | DDI1 | DNA damage-inducible v-SNARE binding protein | +2.4 | +2.2 | +2.4 | +1.7 |
YLL028W | TPO1 | Polyamine transporter that recognizes spermine, putrescine, and spermidine | +4.5 | +3.3 | +5.1 | +4.3 |
YOR273C | TPO4 | Polyamine transporter that recognizes spermine, putrescine, and spermidine | +2.7 | +2.0 | +3.0 | +2.6 |
YDL020C | RPN4 | Transcription factor that stimulates expression of proteasome genes | +1.9 | +2.5 | +2.8 | +3.3 |
YGR035C | YGR035C | Putative protein of unknown function | +3.1 | +3.8 | +4.1 | +5.9 |
YLL056C | YLL056C | Putative protein of unknown function | +2.0 | +2.0 | +5.8 | +6.2 |
YMR102C | YMR102C | Putative protein of unknown function | +1.8 | +1.6 | +2.2 | +2.9 |
Proteasome and ubiquitin | ||||||
YER012W | PRE1 | Beta 4 subunit of the 20 S proteasome | +2.7 | +2.4 | +2.1 | +1.8 |
YJL001W | PRE3 | Beta 1 subunit of the 20 S proteasome | +3.0 | +3.0 | +2.6 | +2.1 |
YOL038W | PRE6 | Alpha 4 subunit of the 20 S proteasome | +2.0 | +2.2 | +2.8 | +2.3 |
YBL041W | PRE7 | Beta 6 subunit of the 20 S proteasome | +3.5 | +2.6 | +2.6 | +1.9 |
YOR362C | PRE10 | Alpha 7 subunit of the 20 S proteasome | +2.4 | +2.2 | +2.2 | +1.9 |
YER094C | PUP3 | Beta 3 subunit of the 20 S proteasome involved in ubiquitin-dependent catabolism | +2.4 | +2.2 | +2.9 | +2.1 |
YDR427W | RPN9 | Non-ATPase regulatory subunit of the 26 S proteasome | +2.7 | +2.4 | +2.4 | +2.1 |
YFR052W | RPN12 | Subunit of the 19 S regulatory particle of the 26 S proteasome lid | +2.8 | +2.4 | +2.6 | +2.5 |
YHL030W | ECM29 | Major component of the proteasome | +4.6 | +3.3 | +3.6 | +2.6 |
YDL007W | RPT2 | One of six ATPases of the 19 S regulatory particle of the 26 S proteasome involved in the degradation of ubiquitinated substrates | +3.3 | +2.6 | +2.6 | +2.4 |
YDR394W | RPT3 | One of six ATPases of the 19 S regulatory particle of the 26 S proteasome involved in the degradation of ubiquitinated substrates | +2.9 | +2.0 | +2.5 | +2.5 |
YOR259C | RPT4 | One of six ATPases of the 19 S regulatory particle of the 26 S proteasome involved in the degradation of ubiquitinated substrates | +3.1 | +2.6 | +3.2 | +2.5 |
YBL058W | SHP1 | UBX (ubiquitin regulatory X) domain-containing protein that regulates Glc7p phosphatase activity and interacts with Cdc48p | +2.5 | +2.0 | +2.1 | +2.8 |
YFL044C | OTU1 | Deubiquitylation enzyme that binds to the chaperone-ATPase Cdc48p | +2.3 | +1.9 | +3.3 | +2.3 |
Amino acids | ||||||
YLR142W | PUT1 | Proline oxidase | +4.8 | +6.9 | +10.8 | +43.0 |
YHR037W | PUT2 | Delta-1-pyrroline-5-carboxylate dehydrogenase | +3.7 | +3.7 | +4.7 | +3.3 |
YJR010W | MET3 | ATP sulfurylase | +2.5 | +2.7 | +3.3 | +3.6 |
YKL001C | MET14 | Adenylylsulfate kinase | +1.7 | +2.6 | +2.8 | +3.2 |
YCL064C | CHA1 | Catabolic L-serine (L-threonine) deaminase, catalyzes the degradation of both L-serine and L-threonine | +13.3 | +17.7 | +15.8 | +7.3 |
YLR089C | ALT1 | Alanine transaminase | +2.9 | +3.1 | +4.1 | +4.9 |
YPL111W | CAR1 | Arginase, responsible for arginine degradation | +3.4 | +2.2 | +1.9 | +1.6 |
Stress | ||||||
YBR072W | HSP26 | Small heat shock protein (sHSP) with chaperone activity | +10.8 | +1.8 | +2.0 | +8.0 |
YER103W | SSA4 | Heat shock protein that is highly induced upon stress | +13.2 | +1.5 | +2.0 | +2.6 |
Transcription factors | ||||||
YML007W | YAP1 | Basic leucine zipper (bZIP) transcription factor required for oxidative stress tolerance | +3.3 | +2.1 | +2.5 | +2.2 |
YDL020C | RPN4 | Transcription factor that stimulates expression of proteasome genes | +1.9 | +2.5 | +2.8 | +3.3 |
Others | ||||||
YPL171C | OYE3 | Conserved NADPH oxidoreductase containing flavin mononucleotide (FMN) | +5.9 | +3.9 | +5.3 | +17.7 |
YOR306C | MCH5 | Plasma membrane riboflavin transporter | +2.6 | +4.9 | +7.8 | +7.2 |
YAR073W | IMD1 | Nonfunctional protein with homology to IMP dehydrogenase | +2.2 | +2.1 | +3.4 | +2.7 |
YBL078C | ATG8 | Component of autophagosomes and Cvt vesicles | +4.5 | +3.3 | +2.7 | +3.5 |
YBR062C | YBR062C | Hypothetical protein | +2.5 | +2.4 | +2.4 | +2.1 |
YML130C | ERO1 | Thiol oxidase required for oxidative protein folding in the endoplasmic reticulum | +2.3 | +2.4 | +2.8 | +2.3 |
YBR114W | RAD16 | Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair | +2.8 | +2.1 | +2.8 | +1.7 |
YBR170C | NPL4 | Endoplasmic reticulum and nuclear membrane protein | +2.4 | +2.7 | +2.2 | +1.5 |
YDL021W | GPM2 | Homolog of Gpm1p phosphoglycerate mutase | +3.5 | +1.6 | +1.7 | +2.8 |
YBL101W-A | YBL101W-A | Retrotransposon TYA Gag gene co-transcribed with TYB Pol | +1.4 | +1.6 | +2.6 | +6.4 |
YDR210W-B | YDR210W-B | Retrotransposon TYA Gag and TYB Pol genes | +1.9 | +1.7 | +2.6 | +4.4 |
YDR316W-B | YDR316W-B | Retrotransposon TYA Gag and TYB Pol genes | +1.8 | +1.8 | +2.6 | +3.2 |
YDR365W-B | YDR365W-B | Retrotransposon TYA Gag and TYB Pol genes | +1.7 | +1.7 | +2.2 | +4.3 |
YDR515W | SLF1 | RNA binding protein that associates with polysomes | +2.7 | +2.7 | +2.4 | +2.7 |
YOR009W | TIR4 | Cell wall mannoprotein of the Srp1p/Tip1p family of serine-alanine-rich proteins | -1.3 | +1.3 | +4.6 | +5.9 |
YPL156C | PRM4 | Pheromone-regulated protein proposed to be involved in mating | +3.4 | +2.8 | +3.5 | +3.5 |
YGL062W | PYC1 | Pyruvate carboxylase isoform | +2.3 | +2.6 | +3.1 | +2.1 |
YOR007C | SGT2 | Glutamine-rich cytoplasmic protein of unknown function | +2.8 | +2.5 | +2.9 | +3.0 |
YOR052C | YOR052C | Nuclear protein of unknown function | +4.1 | +2.6 | +1.8 | +2.4 |
YDR034W-B | YDR034W-B | Protein of unknown function | +7.2 | +5.0 | +3.6 | +4.5 |
YML125C | PGA3 | Putative cytochrome b5 reductase | +1.6 | +2.7 | +3.0 | +2.4 |
YBL107C | YBL107C | Putative protein of unknown function | +2.4 | +2.6 | +2.1 | +2.9 |
YBR255C-A | YBR255C-A | Putative protein of unknown function | +4.0 | +2.0 | +1.8 | +2.1 |
YER137C | YER137C | Putative protein of unknown function | +2.9 | +2.4 | +2.5 | +3.6 |
YGR111W | YGR111W | Putative protein of unknown function | +2.1 | +2.2 | +4.3 | +7.1 |
YHR138C | YHR138C | Putative protein of unknown function | +4.2 | +2.8 | +2.4 | +2.8 |
YKR011C | YKR011C | Putative protein of unknown function | +4.6 | +2.3 | +1.9 | +1.3 |
YNL155W | YNL155W | Putative protein of unknown function | +3.7 | +2.4 | +2.2 | +1.9 |
YOR059C | YOR059C | ORF, Uncharacterized | +2.1 | +2.6 | +2.2 | +2.2 |