GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
Series GSE149654 Query DataSets for GSE149654
Status Public on Apr 20, 2021
Title Effect of flg22 peptide over transcriptome and nucleosome landscape of Arabidopsis on Col-0 and chromatin remodelling ATPase EDA16 mutants
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
Summary Activation of plant immunity by bacterial MAMPs such as flg22 affects nucleosome positioning over thousands of loci and is correlated with the transcription of immune-related genes. Data for chromatin remodelling ATPase EDA16 truncated and over-expressor mutants as well as Col-0 (control) are provided.
Overall design 2-week-old seedlings were treated with 100 nM flg22 or mock-treated for 2 hours. Material was frozen and ground in liquid nitrogen splitting sample into 2 batches; one for RNA-seq and one for MNase-seq. Col-0, eda16-OE (SAIL_40_F09) and eda16-∆Hc (SAIL_735_G06) seedlings were used. This experiment was carried out in duplicate with 24 samples in total (12 samples for RNA-seq and 12 samples MNase-seq). Samples single-end sequenced with NextSeq 500 Illumina sequencer
Contributor(s) Pardal AJ, Piquerez SJ, Concia L, Benhamed M, Ntoukakis V
Citation(s) 34015058
Submission date Apr 30, 2020
Last update date Jun 28, 2021
Contact name Lorenzo Concia
Phone 769929568
Organization name École Normale Supérieure
Department Institut de Biologie
Lab Plant and Algal Genomics Lab
Street address 46 Rue d'Ulm
City Paris
ZIP/Postal code 75020
Country France
Platforms (1)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
Samples (24)
GSM4506674 RNAseq_Col-0_flg22_rep1
GSM4506675 RNAseq_Col-0_flg22_rep2
GSM4506676 RNAseq_Col-0_mock_rep1
BioProject PRJNA629545
SRA SRP259350

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
GSE149654_RAW.tar 581.4 Mb (http)(custom) TAR (of BIGWIG, TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

| NLM | NIH | GEO Help | Disclaimer | Accessibility |
NCBI Home NCBI Search NCBI SiteMap