Project description:Transcriptional programs that regulate development are exquisitely controlled in space and time. Elucidating these programs that underlie development is essential to understanding the acquisition of cell and tissue identity. We present microarray expression profiles of a high resolution set of developmental time points within a single Arabidopsis root, and a comprehensive map of nearly all root cell-types. These cell-type specific transcriptional signatures often predict novel cellular functions. A computational pipeline identified dominant expression patterns that demonstrate transcriptional connections between disparate cell types. Dominant expression patterns along the root’s longitudinal axis do not strictly correlate with previously defined developmental zones, and in many cases, expression fluctuation along this axis was observed. Both robust co-regulation of gene expression and potential phasing of gene expression were identified between individual roots. Methods that combine these two sets of profiles demonstrate transcriptionally rich and complex programs that define Arabidopsis root development in both space and time. We used microarrays to profile expression of nearly all cell types in the Arabidopsis root, and to profile at high resolution, developmental time points along the root's longitudinal axis. Keywords: Cell-type specific analysis using FACS, and a developmental time course.
Project description:Transcript profiling analysis of Hydraulic conductivity of Root 1 (HCR1) mutant compared to wild type (Col-0) using ARABIDOPSIS GENE1.1ST ARRAY STRIP (901793, Affymetrix, Santa Clara, USA).
Project description:Root hair cells growth under contolled conditions harvested at 3 different time points (276, 288 and 312 hours after sowing). For each time point, 3 biological replicates have been produced
Project description:Average hydroxymethylation levels on transcription factor binding sites obtained from ENCODE (ChIP-sequencing of GM12878 lymphoblastoid cell line). Data from 6 individuals at different time points.
Project description:To understand the molecular mechanisms regulating the competence to produce adventitious roots in wounded arabidopsis hypocotyl, we examined gene expression in the basal and medial zones of wild type (Col-0) and ahk3 ahk4 hypocotyl segments at early time points post-excision, prior to the appearance of adventitious root primordia.
Project description:The following study was conducted to better understand the genetic response of maize roots to nitrate availability. To do so, an array was designed and created by the Plant Sciences Institute at Iowa State University. This custom array contained 7,888 informative spots of cDNA obtained from NSF Plant Genome EST projects led by Ginny Walbot and Pat Schnable. RNA was collected from root tissue at two time points: 30 minutes and 24 hours. At each time point, transcript profiles were compared between root tissues treated with 5mM calcium nitrate and controls treated with 5mM calcium sulfate. Keywords: Nutrient response in maize roots
Project description:We profiled small RNAs obtained from B. cinerea-infected Arabidopsis rosette leaves at four different time points after inoculation.