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. 2009 Apr 24;8(6):806–820. doi: 10.1128/EC.00002-09

TABLE 5.

List of genes whose expression is modulated in CJD21/PMK-CAP1-CSE versus CJD21/PMK-CAP1

Systematic namea CGD nameb Molecular functionc Relative level of gene expression (n-fold)d Cap1p-CSE-HA3 binding ratioe Cap1p-HA3 binding ratiof MTKASTMA motifg Starting positionh Ending positionh Strandi
orf19.3121 Transcription corepressor activity 145.3 1.9 1.2 ATTACTAA −177 −170 D
ATTAGTAA −39 −32 D
orf19.3131 OYE32 NADPH dehydrogenase activity 79.2 3.3 1.6 CTTAGTAA −744 −737 D
orf19.113 CIP1 67.5 2.0 1.2 CTTACTAA −573 −566 R
orf19.5604 MDR1 Fluconazole transporter activity 57.9 2.5 1.8 ATGACTCA −737 −730 D
ATTAGTAA −533 −526 D
orf19.1763 IFR1 38.2 2.5 1.2 ATTAGTAA −304 −297 D
ATTAGTAA −161 −154 D
orf19.2285 27.2 1.2 1.7 ATTACTAA −120 −113 D
orf19.3150 GRE2 Oxidoreductase activity 25.9 1.8 1.7 CTTACTAA −390 −383 D
orf19.1149 MRF1 DNA binding 18.1 1.3 1.4 ATGAGTCA −561 −554 D
orf19.2262 NADPH:quinone reductase activity 17.7 1.8
orf19.2693 Transcription corepressor activity 12.7 1.4 1.7 CTTAGTAA −162 −155 D
orf19.1167 Sulfonate dioxygenase activity 11.9 — — CTTACTAA −239 −232 D
orf19.3122 ARR3 Arsenite transmembrane transporter activity 11.2 1.9 1.2 ATTACTAA −329 −322 D
ATTAGTCA −178 −171 D
CTTAGTCA −968 −961 R
orf19.7531 10.4 — — ATTACTAA −79 −72 D
orf19.7042 9.9 1.9 1.9 ATTACTAA −709 −702 D
ATGAGTAA −339 −332 D
ATTACTAA −214 −207 D
orf19.1237 ARO9 Aromatic amino acid transaminase activity 7.7 — — ATTAGTAA −153 −146 D
orf19.6898 7.0 — 1.4 ATTAGTCA −426 −419 D
ATTAGTAA −340 −333 D
CTGACTAA −516 −509 R
orf19.251 7.0 2.0 1.5 ATTAGTAA −939 −932 D
ATTACTAA −725 −718 D
orf19.847 YIM1 Endopeptidase activity 5.4 1.4 1.3 ATTAGTAA −169 −162 D
orf19.5770 OPT8 Oligopeptide transporter activity 5.3 — 1.4 CTGACTAA −243 −236 D
orf19.1340 Aldehyde reductase activity 5.2 — 1.2 ATTAGTCA −156 −149 D
orf19.4757 NAR1 4.9 — — ATTACTAA −113 −106 D
orf19.5259 4.9 — —
orf19.344 4.9 1.4 1.4 ATTACTAA −505 −498 D
orf19.747 NBP35 4-Iron, 4-sulfur cluster binding 4.8 — —
orf19.5060 GCS1 Glutamate-cysteine ligase activity 4.5 — —
orf19.2862 RIB1 Cyclohydrolase activity 4.0 1.3 1.3 ATTACTAA −913 −906 D
ATTACTAA −882 −875 D
ATTAGTAA −808 −801 D
CTTACTAA −612 −605 R
CTTAGTAA −139 −132 R
orf19.4449 Superoxide dismutase copper chaperone activity 3.6 1.2 — ATTACTAA −114 −107 D
orf19.6757 GCY1 Aldehyde reductase activity 3.1 1.3 1.5
orf19.2396 IFR2 3.1 1.5 1.2 CTTACTCA −33 −26 D
orf19.1162 3.1 — —
orf19.3537 Sulfiredoxin activity 3.0 — 1.2 ATGACTAA −257 −250 D
ATGAGTAA −56 −49 R
orf19.5517 Alcohol dehydrogenase (NADP+) activity 2.9 2.0 — ATTACTAA −180 −173 D
orf19.4337 Monocarboxylic acid transmembrane transporter activity 2.8 — — ATTAGTCA −538 −531 D
ATGACTCA −601 −594 R
ATGAGTAA −389 −382 R
orf19.3668 HGT2 Glucose transmembrane transporter activity 2.6 — — ATTACTAA −239 −232 D
orf19.5133 ZCF29 Specific RNA polymerase II transcription factor activity 2.5 1.3 1.2 ATTACTAA −64 −57 D
orf19.3130 2.5 — — CTTACTAA −144 −137 D
orf19.4147 GLR1 Glutathione-disulfide reductase activity 2.5 1.2 1.4 ATTAGTAA −230 −223 D
orf19.3139 2.4 — — ATTACTAA −307 −300 D
orf19.6610 Microtubule binding 2.4 — —
orf19.6464 2.2 — — ATGACTAA −697 −690 D
CTGACTCA −463 −456 D
ATTACTAA −90 −83 D
ATTACTCA −167 −160 R
orf19.5257 d-erythro-sphingosine kinase activity 2.2 — — ATTAGTAA −681 −674 D
orf19.105 HAL22 3′(2′),5′-bisphosphate nucleotidase activity 2.2 — — CTTACTCA −359 −352 D
orf19.4906 2.1 — — CTTACTCA −791 −784 D
ATTAGTAA −333 −326 D
orf19.5811 MET1 Uroporphyrin III C-methyltransferase activity 2.0 — —
orf19.7589 0.5 — —
orf19.2256 0.5 — —
orf19.4900 Alpha-1,3-mannosyltransferase activity 0.5 — — ATTAGTAA −404 −397 R
orf19.1866 Hydrogen ion-transporting ATPase activity; rotational mechanism 0.5 — —
orf19.3523 CRK1 Mitogen-activated protein kinase activity 0.5 — —
orf19.1996 CHA1 Ammonia-lyase activity 0.5 — — ATTACTCA −922 −915 R
ATTACTAA −201 −194 R
orf19.5485 MEC3 DNA binding 0.3 — —
a

orf19 nomenclature according to the assembly 19 version.

b

Gene name according to the CGD (http://www.candidagenome.org/).

c

Descriptions using GO terminology according to the CGD.

d

Expression (n-fold) of the gene in strain CJD21/PMK-CAP1-CSE relative to that in strain CJD21/PMK-CAP1.

e

Corresponding log2-transformed pseudomedian binding ratio in Cap1p-CSE-HA3 ChIP-chip data (see Table S1 in the supplemental material). If more than one peak was associated with a target gene, the average log2-transformed pseudomedian binding ratio is shown. A dash indicates that binding peaks around the locus of the corresponding gene were not detected using our criteria (see Materials and Methods).

f

Corresponding log2-transformed pseudomedian binding ratio in Cap1p-HA3 ChIP-chip data (see Table S2 in the supplemental material). If more than one peak was associated with a target gene, the average log2-transformed pseudomedian binding ratio is shown. A dash indicates that binding peaks around the locus of the corresponding gene were not detected using our criteria (see Materials and Methods).

g

MTKASTMA sequence within the promoter region of the corresponding gene (see Materials and Methods).

h

Limits (starting and ending) of the MTKASTMA sequence relative to the ATG translation start site.

i

D, sense strand; R, antisense strand.