TABLE 1.

Temperature-regulated genes

Effect on gene at 37°CGene nameaAnnotationE valuebGenbank accession no. of orthologFold changec
InductionCNC05450Putative short-chain dehydrogenase6.6E−38 CAB86467 16
CNA06780WSC domain protein (SLG1)1.2E−6312
CNL00800Amino acid permease3.1E−102 CAA65074 11
MGA2 Transcriptional activator2.9E−20 CAB92703 11
CNC06420Hypothetical protein1.0E−73 CAC36937 8.2
CND03740Catalase, putative8.0E−136 AAG45152 7.9
CNE01110Predicted protein2.7E−80 CAD37156 7.5
PPS1 Putative dual-specificity phosphatase2.4E−42 CAD21139 7
THR4 Threonine synthase AAK83373 7
CLC1 Voltage-gated chloride channel AAO73005 6.3
CNA02540S1/P1 nuclease2.2E−29 BAB96801 6
GLT1 Glutamate synthase0E+00 CAA61505 5.8
CNH04480Trehalose synthesis1.3E−90 BAA31349 5.3
DUR3 Urea transporter1.1E−85 AAB65069 5.1
CNI03330 O-Methyl transferase1.2E−36 AAK44417 4.9
LYS2 Aminoadipate semialdehyde dehydrogenase6.4E−12 CAA85072 4.9
CND06130Unknown4.5
SMG1 Putative aryl alcohol oxidase AAM83033 4.5
CNI01590Superoxide dismutase1.2E−69 AAK82369 4.5
CNF03810Unknown4.4
CNA04360Unknown4.3
CNA07560Unknown4.2
CNA05600Catalase A related1.7E−170 AAK15808 4.2
RDS1 Stress response protein6.9E-98CAB522754.2
CNE00600Carboxypeptidase F5.9E-172CAA560754.1
CHD02910Malate synthase7.0E−185 AABD01988 4.1
CNB05770Putative ABC transporter0E+00CAD103274
CNM01770Similar to benzodiazepine receptor8.1E-17CAA221824
CNL01900Unknown3.9
CNK00270UDP-N-acetyl-glucosamine-1-P transferase6.9E-98CAA673663.9
CNB00750Unknown3.7
CNB02490Putative short-chain dehydrogenase5.8E-62AAK890743.7
CNB04620Similar to HSCARG protein6.5E-31AAH300393.7
CNE04710Unknown3.6
CNC00290Putative multiple-drug resistance protein1.3E-128CAD296133.6
CNB00710Unknown3.5
CNF04870Proline oxidase2.6E-21AAB887893.4
CNH02020Conserved hypothetical protein8.5E-19CAD370543.4
CND0110012-Oxophytodienoate reductase2.6E-68CAB435063.4
RIM15 Trehalose-associated protein kinase9.6E-131CAD274683.3
PMA1 Plasma membrane ATPase1.2E-285AAK941883.2
CNE00040Putative transketolase5E-38AAD368263.1
CNF05280Unknown3.1
CNF00410Unknown3.1
CNA05300Chitin synthase 62.1E-302AAB842853.1
CNI00390C2H2 zinc finger protein2.4E-14CAB635413
CNFp2250Unknown3
CNH03900Unknown3
CHL1 DNA helicase1.1E-122AAB187493
Repression FHB1 Flavohemoglobin AAP41066 −25
CNG00908Unknown−11
CNB05100Unknown−8.3
AOX1 Alternative oxidase AAM22475 −7.1
CNA01720Unknown−5.3
ILV5 Acetohydroxyacid reductoisomerase−4.5
CNC06370Hypothetical WD-repeat protein3.6E−101 CAB11489 −4.5
CNH00300Ribosomal protein P.05.0E−88 AAK11262 −3.9
ILV2 Acetolactate synthase AAR29084 −3.8
CNC00200CTP synthase1.4E−193 CAA15716 −3.7
CND01770Ribosomal protein S26E2.9E−35 AAC95384 −3.6
RPL22 Ribosomal protein L22 AAN75181 −3.5
PKR1 Protein kinase A regulatory subunit AAG30146 −3.4
CND04910Putative dityrosine transporter4.6E−41 CAD70885 −3.4
CNM01290Unknown−3.4
CNE02070HpcH/HpaI aldolase family1.2E−38 PF03328 −3.4
PAN6 Pantothenate biosynthesis AAN75165 −3.3
CNK02850Putative allantoate transporter4.8E−58 CAA22656 −3.3
URA2 Pyrimidine biosynthesis0E+00 CAA91130 −3.2
CNC04280Pumilio family RNA binding protein1.6E−69 CAB03616 −3.2
CND04330Cdc20/fizzy9.0E−101 CAB57442 −3.2
SPE3-LYS9 Chimeric spermidine synthase-saccharopine dehydrogenaseAAK83327−3.2
  • a Named genes include known genes with specifically amplified PCR products included on the array or genomic clones of previously identified C. neoformans genes (no E value is provided) and clones with significant homology to other fungal orthologs that have a gene name. Genes that do not fit these criteria were given the C. neoformans JEC21 annotation database locus name.

  • b E value comparing C. neoformans gene and its ortholog, using information from BLASTx searches of the nonredundant database at the National Center for Biotechnology Information and from the C. neoformans JEC21 annotation database (http://www.tigr.org/tdb/e2k1/cna1/cna1.shtml ).

  • c Peak fold induction ratio from the time course and steady-state experiments. Genes displaying both induction and repression over the course of the experiments were categorized as induced or reduced based on cluster analysis (Fig. 1).