An integrated analysis of cell-type specific gene expression reveals genes regulated by REVOLUTA and KANADI1 in the Arabidopsis shoot apical meristem

Autoři: Hasthi Ram aff001;  Sudeep Sahadevan aff001;  Nittaya Gale aff003;  Monica Pia Caggiano aff001;  Xiulian Yu aff001;  Carolyn Ohno aff001;  Marcus G. Heisler aff001
Působiště autorů: European Molecular Biology Laboratory, Meyerhofstrasse, Heidelberg, Germany aff001;  National Agri-Food Biotechnology Institute, SAS Nagar, Mohali, Punjab, India aff002;  School of Life and Environmental Sciences, University of Sydney, NSW, Australia aff003
Vyšlo v časopise: An integrated analysis of cell-type specific gene expression reveals genes regulated by REVOLUTA and KANADI1 in the Arabidopsis shoot apical meristem. PLoS Genet 16(4): e32767. doi:10.1371/journal.pgen.1008661
Kategorie: Research Article
doi: 10.1371/journal.pgen.1008661


In the Arabidopsis thaliana shoot apical meristem (SAM) the expression domains of Class III Homeodomain Leucine Zipper (HD-ZIPIII) and KANADI (KAN) genes are separated by a narrow boundary region from which new organs are initiated. Disruption of this boundary through either loss of function or ectopic expression of HD-ZIPIII and KAN causes ectopic or suppression of organ formation respectively, raising the question of how these transcription factors regulate organogenesis at a molecular level. In this study we develop a multi-channel FACS/RNA-seq approach to characterize global patterns of gene expression across the HD-ZIPIII-KAN1 SAM boundary. We then combine FACS, RNA-seq and perturbations of HD-ZIPIII and KAN expression to identify genes that are both responsive to REV and KAN1 and normally expressed in patterns that correlate with REV and KAN1. Our data reveal that a significant number of genes responsive to REV are regulated in opposite ways depending on time after induction, with genes associated with auxin response and synthesis upregulated initially, but later repressed. We also characterize the cell type specific expression patterns of auxin responsive genes and identify a set of genes involved in organogenesis repressed by both REV and KAN1.

Klíčová slova:

Auxins – Cytokinins – Epidermis – Gene expression – Gene ontologies – Gene regulation – Organogenesis – Meristems


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