This file contains raw data of the Microarray with functional groups for each gene, genes sorted for binding >0,5 log2 fold change for Mex67 and Npl3 at 42°C and 25°C and raw data for the total dissociation of mRNAs at 42°C.
We also measured dimer formation under conditions in which Myc-tagged wild-type or mutant Smc1 proteins (expressed from the ura3 locus) compete with untagged Smc1 protein (expressed from the endogenous gene) for binding to Smc3-HA6 (expressed from a single endogenous gene).
The former was mainly represented by genes for 'nucleotide binding' and 'protein binding', while the latter was mainly represented by genes with 'transferase activity'hydrolaseactivityvity', and 'kinase activity'.
In our study, SSR-containing genes encoding for binding, catalytic, and structural molecules were abundant in the GO molecular function category, similar to results found in Brachypodium[ 19].
Some of these motifs have been characterized in animals regarding specificity in the DNA-binding sequence recognition and dimerization activities responsible for the activation or repression of target genes or for binding to small molecules [ 1].
To facilitate reconstruction of directional relationships between co-regulated genes, we screened upstream sequences (−400 to +20 bp from start codons) of all genes for putative binding sites of bacterial transcription factors using a self-optimizing search method developed here.
We also observed up-regulation of several genes for Ca2+ binding proteins (Fig. 5).
Furthermore, all retrieved paralogous genes indeed possess HRE motifs; these paralogous genes might be considered as alternative HIF target genes for DNA binding within the HIF functional pathway.
