This Article Full Text Full Text (PDF) Supplemental Data All Versions of this Article: 21/9/2563    most recent tpc.109.068890v1 Alert me when this article is cited Alert me if a correction is posted Services Email this article to a friend Similar articles in this journal Similar articles in PubMed Alert me to new issues of the journal Download to citation manager Citing Articles Citing Articles via CrossRef Google Scholar Articles by Zheng, Y. Articles by Perry, S. E. PubMed PubMed Citation Articles by Zheng, Y. Articles by Perry, S. E. Agricola Articles by Zheng, Y. Articles by Perry, S. E.

Global Identification of Targets of the Arabidopsis MADS Domain Protein AGAMOUS-Like15^[C],[W]

^a Department of Plant and Soil Sciences, University of Kentucky, Lexington, Kentucky 40546-0312
^b Department of Statistics, University of Kentucky, Lexington, Kentucky 40506-0027

³ Address correspondence to sperr2{at}email.uky.edu.

AGAMOUS-Like15 (AGL15) is a MADS domain transcriptional regulator that promotes somatic embryogenesis by binding DNA and regulating gene expression. Chromatin immunoprecipitation (ChIP) analysis previously identified DNA fragments with which AGL15 associates in vivo, and a low-throughput approach revealed a role for AGL15 in gibberellic acid catabolism that is relevant to embryogenesis. However, higher throughput methods are needed to identify targets of AGL15. Here, we mapped AGL15 in vivo binding sites using a ChIP-chip approach and the Affymetrix tiling arrays for Arabidopsis thaliana and found that 2000 sites represented in three biological replicates of the experiment are annotated to nearby genes. These results were combined with high-throughput measurement of gene expression in response to AGL15 accumulation to discriminate responsive direct targets from those further downstream in the network. LEAFY COTYLEDON2, FUSCA3, and ABA INSENSITIVE3, which encode B3 domain transcription factors that are key regulators of embryogenesis, were identified and verified as direct target genes of AGL15. Genes identified as targets of the B3 genes are also targets of AGL15, and we found that INDOLEACETIC ACID-INDUCED PROTEIN30 is involved in promotion of somatic embryo development. The data presented here and elsewhere suggest that much cross-regulation occurs in gene regulatory networks underpinning embryogenesis.