Fig. 3: Identification of MIB2 target genes.

a Pie chart displaying the genomic distribution of MIB2 binding sites in the meristematic tissues of proMIB2:MIB2-HA plants by ChIP-seq. Promoter, −5 kb to −1 bp upstream of the ATG; downstream region, +1 bp to +1 kb downstream of the stop codon. b The most significant MIB2 binding motif produced by MEME. The bottom graph shows the distribution of the motif corresponding to the −150 to +150 bp region flanking the binding-site peaks. The E-value of a motif is based on its log likelihood ratio. The x-axis indicates the position of the binding motif in the sequence, and the y-axis indicates the probability of the identified motif. Each “motif probability curve” shows the (estimated) probability of the best match to a given motif occurring at a given position in the input sequences. The p-value is calculated by using the one-tailed binomial test on the number of sequences with a match to the motif that have their best match in the reported region. c Venn diagram showing the number of overlapping genes between the putative MIB2-bound genes identified by ChIP-seq and differentially regulated genes in NIL-mib2^MM relative to NIL-MIB2^ST082 as identified by RNA-seq. d Chromatin binding profiles of MIB2 at the HEAT SHOCK PROTEIN 90 (HSP90) and HEAT SHOCK TRANSCRIPTION FACTOR 6B (HSFA6B) promoters. The short black lines labeled P1 and P2 represent the regions used for ChIP-qPCR. e ChIP-qPCR analysis of the bound regions in the HSP90 and HSFA6B promoters. P1 and P2 represent the regions used for ChIP-qPCR. Input was used as a negative control. The DNA fragment of the ACTIN (Solyc03g078400) 3’ intergenic region was used as an internal control. Data were compared by two-tailed Student’s t-test, **, p < 0.01; n.s. no significant difference (p > 0.05). Values are means ± SEM (n = 4 biologically independent replicates). f Expression levels of HSP90 and HSFA6B in meristematic tissues of NIL-MIB2^ST082 and NIL-mib2^MM plants under NT and HT conditions. UBIQUITIN3 (Solyc01g056940) was used as the reference transcript. Different letters indicate a significant difference (p  <  0.05) based on the one-way ANOVA followed by Tukey’s multiple comparisons test. Values are means ± SEM (n = 4 biologically independent replicates). Source data are provided as a Source Data file.