title: Genome-wide identification of KANADI1 target genes.
abstract: Plant organ development and polarity establishment is mediated by the action of several transcription factors. Among these, the KANADI (KAN) subclade of the GARP protein family plays important roles in polarity-associated processes during embryo, shoot and root patterning. In this study, we have identified a set of potential direct target genes of KAN1 through a combination of chromatin immunoprecipitation/DNA sequencing (ChIP-Seq) and genome-wide transcriptional profiling using tiling arrays. Target genes are over-represented for genes involved in the regulation of organ development as well as in the response to auxin. KAN1 affects directly the expression of several genes previously shown to be important in the establishment of polarity during lateral organ and vascular tissue development. We also show that KAN1 controls through its target genes auxin effects on organ development at different levels: transport and its regulation, and signaling. In addition, KAN1 regulates genes involved in the response to abscisic acid, jasmonic acid, brassinosteroids, ethylene, cytokinins and gibberellins. The role of KAN1 in organ polarity is antagonized by HD-ZIPIII transcription factors, including REVOLUTA (REV). A comparison of their target genes reveals that the REV/KAN1 module acts in organ patterning through opposite regulation of shared targets. Evidence of mutual repression between closely related family members is also shown.
authors.affiliation: European Molecular Biology Laboratory (EMBL), Heidelberg, Germany.
authors.forename: Paz
authors.initials: P
authors.lastname: Merelo
authors.forename: Yakun
authors.initials: Y
authors.lastname: Xie
authors.forename: Lucas
authors.initials: L
authors.lastname: Brand
authors.forename: Felix
authors.initials: F
authors.lastname: Ott
authors.forename: Detlef
authors.initials: D
authors.lastname: Weigel
authors.forename: John L
authors.initials: JL
authors.lastname: Bowman
authors.forename: Marcus G
authors.initials: MG
authors.lastname: Heisler
authors.forename: Stephan
authors.initials: S
authors.lastname: Wenkel
mesh_terms: D017360:Arabidopsis / Q000187:drug effects / Q000235:genetics*; D029681:Arabidopsis Proteins / Q000235:genetics / Q000378:metabolism*; D001483:Base Sequence; D047369:Chromatin Immunoprecipitation; D018506:Gene Expression Regulation, Plant / Q000187:drug effects; D063990:Gene Ontology; D017343:Genes, Plant / Q000235:genetics*; D018398:Homeodomain Proteins / Q000378:metabolism; D007210:Indoleacetic Acids / Q000494:pharmacology; D008969:Molecular Sequence Data; D038081:Organogenesis / Q000187:drug effects / Q000235:genetics; D011401:Promoter Regions, Genetic / Q000235:genetics; D011485:Protein Binding / Q000187:drug effects / Q000235:genetics; D017422:Sequence Analysis, DNA; D014157:Transcription Factors / Q000235:genetics / Q000378:metabolism*; D014158:Transcription, Genetic / Q000187:drug effects
chemical_list: D029681:Arabidopsis Proteins; D018398:Homeodomain Proteins; C402597:IFL1 protein, Arabidopsis; D007210:Indoleacetic Acids; C430846:KANADI protein, Arabidopsis; D014157:Transcription Factors