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Series GSE56706 Query DataSets for GSE56706
Status Public on Apr 12, 2014
Title ChIP-Sequencing of AL5 over-expressing Arabidopsis and its knock out mutant
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Summary Plant homeodomain (PHD) finger proteins affect growth and development by regulating transcription and reading epigenetic modifications of histones, but their functions in abiotic stress responses remain largely unclear. Here we characterize seven Arabidopsis thaliana Alfin1-like PHD finger proteins (ALs) in the response to abiotic stresses. ALs localize to the nucleus and repress transcription. Except AL6, all the ALs bind to G-box element. Changes of the amino acids at positions 34 and 35 in AL6 cause the loss of G-box binding ability. Expression of the ALs responded differently to osmotic stress, salt, cold and abscisic acid treatments. AL5 was induced by multiple stresses, and AL5-overexpressing plants showed higher tolerance to salt, drought and freezing stress than Col-0. Also, al5 mutants showed reduced stress tolerance. ChIP-Seq assay helps find the direct targets of AL5.
 
Overall design Polyclonal antibody of AL5 protein was used to perform ChIP experiment. Two samples were analyzed, AL5 OE sample and its knock out mutant. Data was analyzed as OE sample Vs mutant sample and help find targets of AL5 protein.
 
Contributor(s) Wei W, Zhang Y, Tao J, Chen H, Li Q, Zhang W, Ma B, Lin Q, Zhang J, Chen S
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Submission date Apr 10, 2014
Last update date May 15, 2019
Contact name Wei Wei
Organization name Institute of Genetics and Developmental Biology, Chinese Academy of Sciences
Department State Key Lab of Plant Genomics
Street address Chaoyang District, Beichen West Road, Campus #1, No.2
City Beijing
ZIP/Postal code 100101
Country China
 
Platforms (1)
GPL11221 Illumina Genome Analyzer IIx (Arabidopsis thaliana)
Samples (2)
GSM1367107 AL5_OE
GSM1367108 al5_mutant
Relations
BioProject PRJNA244331
SRA SRP041096

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Supplementary file Size Download File type/resource
GSE56706_RAW.tar 28.1 Mb (http)(custom) TAR (of WIG)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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