!Citation=Yoshimoto H, et al. (2002). J Biol Chem 277(34):31079-31088 !Title=Genome-wide Analysis of Gene Expression Regulated by the Calcineurin/Crz1p Signaling Pathway in Saccharomyces cerevisiae. !PubMedID=12058033 !Name=Calcium Time Series !ExptSetNo=1407 !Description=Cells were grown at 30oC in YPD medium (buffered to pH 5.0 with 7.5 mM succinate) containing ET solution to a density of 0.6 X 107 cells/ml (A600 0.6). The culture was supplemented with ET at 30oC for 15 min. Cells were collected for the t=0 min sample. Next, an equal volume of YPD medium (pH 5.0) containing ET and 0.4M CaCl2 was added to the ET-treated culture (final concentration 0.2 M CaCl2). Cells were collected by centrifugation at 5, 15, 30 and 60 min, frozen at 80oC and processed for RNA extraction. For the publication, the experiment was repeated twoce, and corresponding timepoints from each experiment were averaged. The first 4 and last 4 arrays in this set correspond to each experiment. !Name=Calcium + FK506 Time Series !ExptSetNo=1410 !Description=Cells were grown at 30oC in YPD medium (buffered to pH 5.0 with 7.5 mM succinate) containing ET solution to a density of 0.6 X 107 cells/ml (A600 0.6). The culture was supplemented with FK506 (1.0 mg/ml final concentration) in ET at 30oC for 15 min. Cells were collected for the t=0 min sample. Next, an equal volume of YPD medium (pH 5.0) containing FK506 (1.0 mg/ml) and 0.4 M CaCl2 was added to the FK506-treated culture (final concentration 0.2 M CaCl2). Cells were collected by centrifugation at 5, 15, 30 and 60 min, frozen at 80oC and processed for RNA extraction. For the publication this experiment was done twice, and corresponding time points were averaged. The first 4 and last 4 arrays in the set define each experiment. !Name=Calcium + FK506 vs Calcium !ExptSetNo=1411 !Description=Cells were cultured with or without FK506 treatment and exposed to CaCl2. Samples were collected from the drug-treated and control cultures at 15 and 30 min after Ca2+ addition. For the publication the experiment was repeated twice, and corresponding time-points were averaged. The first two and the last two arrays in this set correspond to the individual experiments. !Name=crz1 + Calcium vs CRZ1 + Calcium !ExptSetNo=1413 !Description=Wild-type strain DBY7286 and the crz1D strain YHY804 were cultured and exposed to CaCl2 as described for Experiments 1 and 2. Samples were collected at 15 and 30 min after Ca2+ addition. For the publication, the experiment was repeated twice, and corresponding timepoints were averaged between the experiments. The first two arrays and last two arrays in this set correspond to the separate experiments. !Name=crz1 + NaCl vs CRZ1 + NaCl !ExptSetNo=1415 !Description=Wild-type strain DBY7286 and the crz1 mutant strain YHY804 were cultured and exposed to NaCl. Samples were collected at 30 and 45 min after Na+ addition. For the publication the experiment was repeated twice, and corresponding timepoints from each experiment were averaged. The first two arrays and last two arrays in this set correspond to the individual experiments. !Name=NaCl time series !ExptSetNo=1417 !Description=Cells were grown in YPD medium (pH 5.0) at 30oC to a density of 0.6 X 107 cells/ml (A600=0.6). The culture was supplemented with ET at 30 oC for 15 min. Cells were collected for the t=0 min sample. Next, an equal volume of YPD medium (pH 5.0) containing ET solution and 1.6 M NaCl was added to the ET-treated culture (final concentration 0.8 M NaCl). Samples were collected 15, 30, 45 and 60 minutes after Na+ addition. !Name=NaCl + FK506 vs NaCl !ExptSetNo=1420 !Description=Cells were cultured with or without FK506 treatment and exposed to 0.8 M NaCl. Samples were collected from the drug-treated and control cultures at 30 and 45 min after Na+ addition. For the publication, the experiment was repeated twice, and the corresponding time points from each experiment were averaged. The first two arrays and the last two arrays of this set correspond to the two experiments. !Name=NaCl + FK506 Time Series !ExptSetNo=1423 !Description=Cells were grown in YPD medium (pH 5.0) at 30oC to a density of 0.6 X 107 cells/ml (A600=0.6). The culture was supplemented with FK506 (1.0 mg/ml) in ET at 30oC for 15 min. Cells were collected for the t=0 min sample. Next, an equal volume of YPD medium (pH 5.0) containing FK506 (1.0 mg/ml) and 1.6 M NaCl was added to the FK506-treated culture (final concentration 0.8 M NaCl). Samples were collected 15, 30, 45 and 60 minutes after Na+ addition. !Name=Complete data for : Yoshimoto H, et al. (2002) J Biol Chem !ExptSetNo=1427 !Description=In Saccharomyces cerevisiae, the Ca2+/calmodulin-dependent protein phosphatase, calcineurin, is activated by specific environmental conditions, including exposure to Ca2+ and Na+, and induces gene expression by regulating the Crz1p/Tcn1p transcription factor. We used DNA microarrays to perform a comprehensive analysis of calcineurin/Crz1p-dependent gene expression following addition of Ca2+ (200 mM) or Na+ (0.8 M) to yeast. 163 genes exhibited increased expression that was reduced 50% or more by calcineurin inhibition. These calcineurin dependent genes function in signaling pathways, ion/small molecule transport, cell wall maintenance, vesicular transport, and include many open reading frames of heretofore-unknown function. Three distinct gene classes were defined: 28 genes displayed calcineurin-dependent induction in response to Ca2+ and Na+, 125 showed calcineurin-dependent expression following Ca2+ but not Na+ addition, and 10 were regulated by calcineurin in response to Na+ but not Ca2+. Analysis of crz1D cells established Crz1p as the major effecter of calcineurin-regulated gene expression in yeast. We identified the Crz1p binding site as 5-GNGGC(G/T)CA-3 by in vitro site selection. A similar sequence, 5-GAGGCTG-3, was identified as a common sequence motif in the upstream regions of calcineurin/Crz1p-dependent genes. This finding is consistent with direct regulation of these genes by Crz1p.