NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE95301 Query DataSets for GSE95301
Status Public on Jan 04, 2018
Title Chromatin-Bound ARGONAUTE 1 Promotes Gene Transcription in Response to Various Stimuli in Arabidopsis
Organism Arabidopsis thaliana
Experiment type Genome binding/occupancy profiling by high throughput sequencing
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
Summary Conventional RNA interference (RNAi) pathways suppress eukaryotic gene expression at the post-transcriptional or transcriptional level. At the core of RNAi are small RNAs (sRNAs) and effector Argonaute proteins. Arabidopsis AGO1 is known to bind microRNAs (miRNAs) and post-transcriptionally repress target genes via mRNA cleavage and/or translational inhibition in the cytoplasm. Here, we report that AGO1 binds to the chromatin of transcriptionally active genes and promotes their transcription. We show that sRNAs and SWI/SNF are required for AGO1 binding to chromatin and its function in promoting gene transcription. Moreover, we show that various stimuli including plant hormones and stresses specifically trigger AGO1 binding to the stimulus-responsive genes. Finally, we show that AGO1 facilitates the induction of genes in the jasmonate (JA) signaling pathways and the activation of JA responses. Our findings reveal an unsuspected role for AGO1 in facilitating gene transcription in response to plant hormones and stresses.
 
Overall design We conducted AGO1 ChIP-seq with Arabidopsis wild-type (WT, Col-0) and ago1-36 seedlings under normal growth condition or treatment with MeJA, BTH, IAA, Flg22 or cold; RNA-seq with WT and ago1-36 seedlings under normal or MeJA treatment condition; Pol II, Pol II Ser2 and Pol II Ser5 ChIP-seq with WT and ago1-36; GRO-seq with WT and ago1-36; and small RNA-seq of nuclear AGO1-associated small RNAs purified from WT and coi1 under normal or MeJA treatment condition.
5 treatment conditions: Methyl jasmonate (MeJA), indole-3-acetic acid (IAA), Benzothiadiazole (BTH), flagellin22 (Flg22), 4 Centigrade (Cold).
 
Contributor(s) Liu C, Xin Y, Xu L, Qi Y
Citation(s) 29290588
Submission date Feb 23, 2017
Last update date May 15, 2019
Contact name Yijun Qi
E-mail(s) qiyijun@mail.tsinghua.edu.cn
Organization name Tsinghua University
Department School of Life Sciences
Street address NO.1 Qinghuayuan
City Beiing
ZIP/Postal code 100084
Country China
 
Platforms (2)
GPL13222 Illumina HiSeq 2000 (Arabidopsis thaliana)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
Samples (94)
GSM2522193 ChIPseq_AGO1_ago1-36_ChIP_rep1
GSM2522194 ChIPseq_AGO1_ago1-36_ChIP_rep2
GSM2522195 ChIPseq_AGO1_ago1-36_input_rep1
Relations
BioProject PRJNA378128
SRA SRP101403

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
GSE95301_RAW.tar 11.9 Gb (http)(custom) TAR (of BEDGRAPH, BIGWIG, TXT)
GSE95301_RNAseq_WT_JA_control_treat_gene_expression.matrix.gz 973.4 Kb (ftp)(http) MATRIX
GSE95301_RNAseq_WT_ago1-36_gene_expression.matrix.gz 1022.5 Kb (ftp)(http) MATRIX
GSE95301_RNAseq_ago1-36_JA_control_treat_gene_expression.matrix.gz 978.9 Kb (ftp)(http) MATRIX
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file
Processed data are available on Series record

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