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Series GSE99587 Query DataSets for GSE99587
Status Public on Jul 12, 2017
Title Identification of LEC1 binding sites in Arabidopsis bent cotyledon stage seeds
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary LEAFY COTYLEDON1 (LEC1), an atypical subunit of the NF-Y CCAAT binding transcription factor, is a central regulator that controls many aspects of seed development including the maturation phase during which seeds accumulate storage macromolecules and embryos acquire the ability to withstand desiccation. To define the gene network and developmental processes controlled by LEC1, genes regulated directly by and downstream of LEC1 were identified. In this part of the study, we identified the genes bound by LEC1 in Arabidopsis bent cotyledon stage seeds. We expressed a GFP-tagged form of LEC1 under the control of its native promoter and terminator in lec1 null mutant seeds. Using an anti-GFP antibody (NeuroMab 75-131) , we performed chromatin immunoprecipitation followed by sequencing (ChIP-Seq) using chromatin isolated from bent cotyledon stage seeds to identify the genes bound by LEC1.
Overall design Plants homozygous for both the lec1-1 mutation and the LEC1:LEC1-GFP:LEC1 transgene were used to isolate chromatin from bent cotyledon-stage seeds. Anti-GFP antibodies (Neuromab 75-131) were used to immunoprecipitate LEC1-bound DNA fragments and compared to total fragmented chromatin from the same biological materials. Two biological replicates per conditions were analyzed.
Contributor(s) Pelletier J, Baden R, Hashimoto M, Fei J, Golberg RB, Harada JJ
Citation(s) 28739919
Submission date Jun 01, 2017
Last update date Jun 27, 2019
Contact name John Harada
Organization name University of California
Department Plant Biology
Lab Harada lab
Street address One Shields Avenue
City Davis
State/province CA
ZIP/Postal code 95616
Country USA
Platforms (1)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
Samples (4)
GSM2648112 BCOT_chip_br1
GSM2648113 BCOT_chip_br2
GSM2648114 BCOT_input_br1
BioProject PRJNA388934
SRA SRP108548

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Supplementary file Size Download File type/resource
GSE99587_BCOT_peaks.bed.gz 91.2 Kb (ftp)(http) BED
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