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Series GSE79738 Query DataSets for GSE79738
Status Public on May 28, 2016
Title Requirement for flap endonuclease 1 (FEN1) to maintain genomic stability and transcriptional gene silencing in Arabidopsis
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary As a central component during Okazaki fragment maturation, flap endonuclease 1 (FEN1) removes the 5’ flap and maintains genomic stability. Here, FEN1 was cloned as a suppressor of transcriptional gene silencing (TGS) from a forward genetic screen. FEN1 is abundant in the root and shoot apical meristems and FEN1-GFP shows a nucleolus-localized signal in tobacco cells. Arabidopsis fen1-1 mutant is hypersensitive to MMS and shows reduced telomere length. Interestingly, genome-wide ChIP-seq and RNA-seq results demonstrate that FEN1 mutation leads to a decrease in the H3K27me3 level and an increase in the expression of a subset of genes marked with H3K27me3. Overall, these results uncover a role for FEN1 in mediating TGS besides maintaining genome stability in Arabidopsis.
Overall design To characterized the role of FEN1 in epigenetic silencing, we examine histone modification and RNA expression changes by whole-genome RNA sequencing; H3K27me3-, H3K4me3-, H3K9me2-, H3-ChIP-seq in A. thaliana transgenic wild type (TWT) and fen1 mutant
Contributor(s) Zhang J, Xie S, Zhu J, Gong Z
Citation(s) 27231839
Submission date Mar 30, 2016
Last update date May 15, 2019
Contact name Jinkui Cheng
Organization name China Agricultural University
Lab Zhizhong Gong
Street address No.2 Yuanmingyuan West Road
City Beijing
ZIP/Postal code 100193
Country China
Platforms (2)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (14)
GSM2101789 TWT_RNA_rep1
GSM2101790 TWT_RNA_rep2
GSM2101791 fen1_RNA_rep1
BioProject PRJNA316877
SRA SRP072577

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Supplementary file Size Download File type/resource
GSE79738_RAW.tar 194.7 Mb (http)(custom) TAR (of BED, TDF)
GSE79738_RNAseq_wt_fen1_diff.xls.gz 190.8 Kb (ftp)(http) XLS
GSE79738_TWT_RNA.tdf 9.8 Mb (ftp)(http) TDF
GSE79738_fen1_RNA.tdf 9.8 Mb (ftp)(http) TDF
SRA Run SelectorHelp
Processed data are available on Series record
Raw data are available in SRA
Processed data provided as supplementary file

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