Fig. 5

Putative targets of GIF1 detected by chromatin immunoprecipitation sequencing (ChIP-seq). A Genes both detected by ChIP-seq and showing differential expression detected by RNA-seq. DEG: differentially expressed gene. B Gene Ontology (GO) enrichment of 79 GIF1 targets. Gene num. = gene number. C, F, I Peak distribution of three representative targets including CLE4a C, TPS2 F and AGO108 (I). D, G, J Fold enrichment of three representative targets detected by ChIP-qPCR. Gene specific primers were used to quantify DNA targets including CLE4a (D), TPS2 (G) and AGO108 (J) immunoprecipitated by anti-GFP antibody relative to input DNA, respectively. The columns are the mean value of fold enrichment detected in three separate experiments, each with three technical replicates. Error bars show the standard deviation. The statistical significance was estimated using a Student’s t-test. ** P < 0.01. E, H, K Relative expression levels of CLE4a (E), TPS2 (H) and AGO108 (K) in ears of the gif1 and the wild type detected by RNA-seq and qPCR. qPCR is performed with three biological replicates, each with three technical replicates. Error bars show the standard deviation. CLE4a: CLAVATA3 (CLV3)/ENDOSPERM SURROUNDING REGION (ESR) 4a. TPS2: Trehalose-6-phosphate synthase 2. AGO108: Argonaute108