title: RNA-Seq Analysis of the Arabidopsis Transcriptome in Pluripotent Calli.
abstract: Plant cells have a remarkable ability to induce pluripotent cell masses and regenerate whole plant organs under the appropriate culture conditions. Although the in vitro regeneration system is widely applied to manipulate agronomic traits, an understanding of the molecular mechanisms underlying callus formation is starting to emerge. Here, we performed genome-wide transcriptome profiling of wild-type leaves and leaf explant-derived calli for comparison and identified 10,405 differentially expressed genes (> two-fold change). In addition to the well-defined signaling pathways involved in callus formation, we uncovered additional biological processes that may contribute to robust cellular dedifferentiation. Particular emphasis is placed on molecular components involved in leaf development, circadian clock, stress and hormone signaling, carbohydrate metabolism, and chromatin organization. Genetic and pharmacological analyses further supported that homeostasis of clock activity and stress signaling is crucial for proper callus induction. In addition, gibberellic acid (GA) and brassinosteroid (BR) signaling also participates in intricate cellular reprogramming. Collectively, our findings indicate that multiple signaling pathways are intertwined to allow reversible transition of cellular differentiation and dedifferentiation.
authors.affiliation: Department of Bioactive Material Sciences and Research Center of Bioactive Materials, Chonbuk National University, Jeonju 561-756, Korea.
authors.forename: Kyounghee
authors.initials: K
authors.lastname: Lee
authors.affiliation: Department of Chemistry and Research Institute of Physics and Chemistry, Chonbuk National University, Jeonju 561-756, Korea.
authors.forename: Ok-Sun
authors.initials: OS
authors.lastname: Park
authors.affiliation: Department of Bioactive Material Sciences and Research Center of Bioactive Materials, Chonbuk National University, Jeonju 561-756, Korea.|Department of Chemistry and Research Institute of Physics and Chemistry, Chonbuk National University, Jeonju 561-756, Korea.
authors.forename: Pil Joon
authors.initials: PJ
authors.lastname: Seo
mesh_terms: D017360:Arabidopsis / Q000235:genetics*; D029681:Arabidopsis Proteins / Q000235:genetics*; D054337:Cell Dedifferentiation; D002454:Cell Differentiation; D003080:Cold Temperature; D020869:Gene Expression Profiling / Q000379:methods*; D018506:Gene Expression Regulation, Plant; D018515:Plant Leaves / Q000235:genetics; D017423:Sequence Analysis, RNA / Q000379:methods*; D015398:Signal Transduction
chemical_list: D029681:Arabidopsis Proteins
keywords: Arabidopsis; RNA-Seq; biological process; callus formation; dedifferentiation