S-table+3 (8-17-07).xls

Supplementary Table 2: Genes upregulated by the cAMP-signaling pathway during normal budding growth
WT/ pde2/ pde2/
Grouping
ORF6. ORF19. cap1 cap1
Function
O-acetylhomoserine O-acetylserine sulfhydrylase; involved in sulfur amino acid biosynthesis; immunogenic; Hog1p; biofilm; Predicted ORF from Assembly 19; Gcn4p-regulatedProtein abundance is affected by URA3 expression in the CAI-4 strain background; alkaline upregulated; Gcn4p-regulatedProtein described as aspartate aminotransferase; soluble protein in hyphae; alkaline upregulated; amphotericin B repressed Malic enzyme, mitochondrial protein; transcription regulated by Mig1p and Tup1p; shows colony morphology-related gene Predicted ORF from Assembly 19; Gcn4p-regulated Large subunit of heterodimeric alpha-aminoadipate reductase; enzyme of lysine biosynthesis; contains predicted binding sites for AMP and alpha-aminoadipate; feedback inhibited by lysine or Putative NAD-specific glutamate dehydrogenase; fungal-specific (no human or murine homolog); transcription is regulated by Nrg1p, Mig1p, Tup1p, and Gcn4pSimilar to an aldose 1-epimerase-related protein; antigenic during murine systemic infectionSimilar to an aldose 1-epimerase-related protein; antigenic during Protein described as a putative precursor of a hypha surface antigen; putative GPI-anchor; induced by ciclopirox olamine, ketoconazole, or by Rim101p at pH 8; regulated during planktonic growth; induced during cell wall regeneration GPI-anchored cell wall protein; has CRoW motif; not required for filamentous growth; expression is regulated by Rfg1p, Rim101p; repressed by Sfu1p, Hog1p, Tup1p; induced by serum, iron, alkaline pH, ketoconazole, or ciclopirox olamine Major cell-surface ferric reductase under low-iron conditions; 7 transmembrane regions and a secretion signal predicted; repressed by Tup1p, Rim101p, Ssn6p, Hog1p, caspofungin; ciclopirox olamine induced; not required for filamentous growth Putative GPI-anchored protein that localizes to the cell wall; transcription is decreased upon yeast-hypha switch; transcriptionally regulated by iron; expression greater in high iron Surface antigen on elongating hyphae and buds; no obvious hypha defects in mutant; strain variation in number of repeat domains; upregulated in filaments; alkaline upregulated by Rim101p; 13.33 ciclopirox induced; Efg1p- and Cph1p-regulated Predicted ORF from Assembly 19; flucytosine inducedPredicted ORF from Assembly 19; ketoconazole-induced; Ergosterol Biosynthesis and Lipid Metabolism ERG251 (XJP2) Ergosterol Biosynthesis and Lipid Metabolism Predicted ORF in Assemblies 19 and 20Protein similar to S. cerevisiae Eht1p; transcription is induced in Ergosterol Biosynthesis and Lipid Metabolism response to alpha pheromone in Spider medium Protein similar to pyruvate decarboxylase; antigenic; at cell surface of hypha, but not yeast-form cells; soluble in hyphae; regulated by Gcn4p, Efg1p, Efh1p; fluconazole-induced; repressed upon amino acid starvation; biofilm-induced Putative alcohol dehydrogenase; soluble protein in hyphae; fungal-specific (no human or murine homolog); expression is regulated upon white-opaque switching; regulated by Ssn6pPutative pyruvate decarboxylase; fungal-specific (no human or Putative pyruvate carboxylase, binds to biotin cofactor; gene is up-regulated in a mutant lacking the Ssk1p response regulator protein, upon benomyl treatment, or in an azole-resistant strain Putative bHLH (basic region, helix-loop-helix) transcription factor; hypha regulated via Cph1p, Cyr1p; flucytosine, Hog1p induced; amphotericin B, caspofungin repressed; downregulated in azole- Protein described as hexokinase II; antigenic in human; downregulated in the presence of human neutrophils; regulated by Efg1p; fluconazole-induced; shows colony morphology-related Alpha subunit of phosphofructokinase (PFK), which is Pfk1p, Pfk2p heteromultimer; PFK is activated by fructose 2,6-bisphosphate or AMP, inhibited by ATP; activity reduced on hypha induction; phagocytosis-downregulated; fluconazole-induced Protein described as phosphoglycerate mutase; enzyme of glycolysis; antigenic during murine, human infection; biofilm-, fluconazole-, or amino acid starvation (3-aminotriazole treatment) Putative ortholog of S. cerevisiae Tpi1p, which is triose-phosphate isomerase involved in glycolysis and gluconeogenesis; antigenic in mouse or human; transposon mutation affects filamentous growth; Predicted ORF in Assemblies 19 and 20Predicted ORF in Assemblies 19 and 20; possibly spurious ORF Predicted ORF from Assembly 19; removed from Assembly 20 Predicted ORF in Assemblies 19 and 20Transcription is positively regulated by Sfu1p; possibly spurious ORF (Annotation Working Group prediction)Predicted ORF from Assembly 19; merged with orf19.3117 in Predicted ORF from Assembly 19; removed from Assembly 20 Inositol-1-phosphate synthase; enzyme of inositol biosynthesis; antigenic in human; repressed by farnesol (in biofilm) or caspofungin; regulated during planktonic growth; upstream inositol/choline regulatory element; glycosylation predicted Iron utilization protein; similar to an S. cerevisiae oxidoreductase, Ynr060wp; regulated by Sfu1p, Nrg1p, Tup1p; alkaline (via Rim101p, low iron, fluphenazine, ciclopirox olamine, flucytosine, induced; caspofungin, amphotericin B repressed Similar to GTPase regulators; transcriptionally regulated by iron; expression greater in low iron; possibly spurious ORF (Annotation Similar to multicopper ferroxidase; transcriptionally regulated by iron; expression greater in low iron; transcription is negatively regulated by Sfu1p; merged with orf19.4215 in Assembly 20 Protein similar to ferric reductases; transcription is positively regulated by Rim101p; expression greater in low iron; fluconazole-downregulated; ciclopirox olamine induced; colony morphology- Protein described as a similar to F1 beta subunit of F1F0 ATPase complex; antigenic in human; transcription upregulated in response to ciclopirox olamine; flucytosine induced; caspofungin repressed; macrophage/pseudohypha-induced Protein not essential for viability; similar to S. cerevisiae Aah1p, which is an adenine deaminase involved in purine salvage and nitrogen catabolism; shows colony morphology-related gene regulation by Ssn6p; Hog1p-, biofilm-induced Similar to oxidoreductases and to S. cerevisiae Yjr096wp; transcription is negatively regulated by Sfu1p; increased transcription is observed upon benomyl treatment; decreased expression observed in an ssr1 homozygous null mutant Predicted ORF in Assemblies 19 and 20Predicted ORF from Assembly 19; transcription is regulated by Protein with similarity to proteasomal 26S regulatory subunit of S. cerevisiae, H. sapiens, Methanobacterium thermoautotrophicum Protein described as an aminopeptidase; transcription is positively regulated by Sfu1p; transcription is repressed in response to alpha pheromone in Spider mediumPredicted ORF from Assembly 19; soluble protein in hyphae; Putative gypsy-like reverse transcriptase; transcription is downregulated in response to treatment with ciclopirox olamine; 3,4-Dihydroxy-2-butanone 4-phosphate synthase; homodimeric enzyme of riboflavin biosynthesis; converts ribulose 5-phosphate to L-3,4-dihydroxy-2-butanone 4-phosphate; transcription regulated on yeast-hypha switch; macrophage interaction Inositol phosphoryl transferase, involved in sphingolipid biosynthesis; catalyzes the synthesis of the most abundant sphingolipid, mannose-(inositol-P)2-ceramide, M(IP)2C, from MIPC; required for wild-type membrane localization of Cdr1p Protein described as 4-nitrophenyl phosphatase; hypha downregulated; induced in core stress response; induced by heavy Copper- and zinc-containing superoxide dismutase, expression is regulated during white-opaque switching; ciclopirox olamine induced; caspofungin repressed; member of a gene family that includes SOD1, SOD4, SOD5, and SOD6Predicted ORF in Assemblies 19 and 20; induced by nitric oxide in Protein of TSA/alkyl hydroperoxide peroxidase C (AhPC) family; similar to thiol-dependent peroxidases, roles in oxidative stress signaling; immunogenic; on hypha surface, nucleus; yeast-form nucleus, cytoplasm; neutrophil, peroxide induced D-Arabinono-1,4-lactone oxidase, involved in biosynthesis of D-erythroascorbic acid, which has a protective role against oxidative damage; required for full virulence in a mouse model of systemic Similar to thioredoxin; increased transcription is observed upon benomyl treatment; flucytosine induced; amphotericin B repressed; caspofungin repressed; peroxide-induced; upregulated SUMO, small ubiquitin-like protein; Smt3p-conjugated proteins localize to septation site and mother side of bud neck; C. albicans septins appear not to be Smt3p-modified, in contrast to S. cerevisiae septins; similar to S. cerevisiae Smt3p Protein described as beta subunit of succinate-CoA ligase; transcription regulated by Mig1p and Tup1p; transcriptionally regulated by iron; expression greater in high iron; merged with orf19.1860 in Assembly 20Protein described as isocitrate dehydrogenase; transcriptionally induced by interaction with macrophage; alkaline upregulated Putative transcription factor; zinc finger; similar to S. cerevisiae Crz1p; homozygous crz1, not crz2, null mutation suppresses fluconazole resistance of homozygous cka2 null (defective in CK2 Protein similar to S. cerevisiae Pob3p, which is involved in chromatin assembly and disassembly; transposon mutation affects Predicted ORF from Assembly 19; caspofungin repressed Putative transporter; slightly similar to the Sit1p siderophore transporter; Gcn4p-regulated; fungal-specific (no human or murine homolog)Putative low-affinity phosphate transporter; fungal-specific (no Putative potassium transporter; similar to Schwanniomyces occidentalis Hak1p; amphotericin B induced; transcriptionally induced upon phagocytosis by macrophagePutative sperimidine transporter; fungal-specific (no human or Putative glucose transporter, major facilitator superfamily; glucose-, fluconazole-, Snf3p-induced, expressed at high glucose; upregulated in biofilm; C. albicans glucose transporter family comprises 20 members; 12 TM regions predicted Protein not essential for viability; similar to S. cerevisiae Smf1p, which is a manganese transporter; Gcn4p-regulated; alkaline Oligopeptide transporter; transports 3-to-5-residue peptides; alleles are distinct, one has intron; not ABC or PTR type transporter; suppresses S. cerevisiae ptr2-2 mutant defects; induced by BSA or peptides; Stp3p, Hog1p regulated Predicted ORF in Assemblies 19 and 20; Gcn4p-regulated; flucytosine induced; ketoconazole-repressed; oxidative stress- Protein described as predicted zinc transporter; ciclopirox olamine, fluconazole, or alkaline downregulated; transcriptionally induced by interaction with macrophage; amphotericin B inducedAlkaline downregulated; amphotericin B induced; shows colony morphology-related gene regulation by Ssn6pPutative general amino acid permease; Plc1p-regulated; Gcn4p- regulated; fungal-specific (no human or murine homolog) Putative oligopeptide transporter; regulated by Stp2p and Stp3p; transcriptionally induced upon phagocytosis by macrophage; downregulated by Rim101p at pH 8Predicted ORF in Assemblies 19 and 20; regulated by Tsa1p, Transcriptionally regulated by iron or by yeast-hypha switch; expression greater in high iron, decreased upon yeast-hypha switch; downregulation correlates with clinical development of fluconazole resistance; Ras1p-regulatedPredicted ORF in Assemblies 19 and 20; ciclopirox olamine induced; regulated by Ssn6p; induced by nitric oxide in yhb1 Predicted ORF in Assemblies 19 and 20; decreased expression observed in an ssr1 homozygous null mutant Predicted ORF in Assemblies 19 and 20; ketoconazole-repressed Predicted membrane protein; similar to S. cerevisiae Ynr018wp Protein not essential for viability; similar to S. cerevisiae Ecm21p (may have cell wall role); alkaline upregulated by Rim101p; fluconazole induced; caspofungin repressed; downregulated in azole-resistant strain overexpressing MDR1 Putative 3-phosphoserine phosphatase; fungal-specific (no human or murine homolog); increased transcription is observed upon benomyl treatment or in an azole-resistant strain that Predicted ORF in Assemblies 19 and 20; downregulation correlates with clinical development of fluconazole resistance Protein similar to S. cerevisiae Sha3p, which is a serine/threonine kinase involved in glucose transport; transposon mutation affects filamentous growth; fluconazole-induced; ketoconazole-repressed; induced in response to alpha pheromoneProtein described as having a role in Ty3 transposition; decreased expression in hyphae compared to yeast-form cells Putative cell wall protein; transcription is negatively regulated by Rim101p, Efg1p, Ssn6p; alkaline downregulated; predicted signal Predicted ORF in Assemblies 19 and 20; decreased transcription is observed upon fluphenazine treatment or in an azole-resistant strain that overexpresses CDR1 and CDR2Predicted ORF in Assemblies 19 and 20; fluconazole-induced;

Source: http://www.candidagenome.org/download/systematic_results/Bahn_2007/S_Table_3.pdf