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Series GSE16469 Query DataSets for GSE16469
Status Public on Apr 15, 2010
Title Cell signalling by microRNA165/6 directs gene dose dependent root cell fate
Organism Arabidopsis thaliana
Experiment type Expression profiling by array
Summary A key question in developmental biology is how cells exchange positional information for proper patterning during organ development. In plant roots the radial tissue organization is highly conserved with a central vascular cylinder in which two water conducting cell types, protoxylem and metaxylem, are patterned centripetally. We show that this patterning occurs through crosstalk between the vascular cylinder and the surrounding endodermis mediated by cell-to-cell movement of a transcription factor in one direction and microRNAs in the other. SHORT ROOT, produced in the vascular cylinder, moves into the endodermis to activate SCARECROW. Together these transcription factors activate MIR165a and 166b. Endodermally produced miR165/6 then acts to degrade its target mRNAs encoding class III homeodomain-leucine zipper transcription factors in the endodermis and stele periphery. The resulting differential distribution of target mRNA in the vascular cylinder determines xylem cell types in a dosage dependent manner.
 
Overall design To investigate the global regulation of SHR and SCR in the root, direct and indirect target genes of SHR and SCR were cross-compared with selected cell type specific expression profiles in the Arabidopsis root published in Birnbaum et al. (2003), Nawy et al. (2005), Lee et al. (2006), and Brady et al. (2007) [pubmed IDs: 14671301, 15937229, 16581911, 17975066]. Furthermore, the mature endodermis specific transcript profiles were generated using a GFP marker line, E30, and used together with published profiles in this comparison.
 
Contributor(s) Lee J, Benfey P
Citation(s) 20410882
Submission date Jun 05, 2009
Last update date Jun 12, 2017
Contact name Ji-Young Lee
E-mail(s) jl924@cornell.edu
Phone 607-254-5453
Organization name Boyce Thompson Institute
Street address Tower Rd.
City Ithaca
State/province NY
ZIP/Postal code 14853
Country USA
 
Platforms (1)
GPL198 [ATH1-121501] Affymetrix Arabidopsis ATH1 Genome Array
Samples (3)
GSM413915 mature endodermis, biologlcal rep1
GSM413916 mature endodermis, biologlcal rep2
GSM413917 mature endodermis, biologlcal rep3
Relations
BioProject PRJNA116053

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE16469_RAW.tar 10.5 Mb (http)(custom) TAR (of CEL, CHP)
Processed data included within Sample table

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