NCBI Logo
GEO Logo
   NCBI > GEO > Accession DisplayHelp Not logged in | LoginHelp
GEO help: Mouse over screen elements for information.
          Go
Series GSE106383 Query DataSets for GSE106383
Status Public on Apr 24, 2018
Title Characterization of DCL4 missense alleles provides novel insights into its ability to process distinct classes of dsRNA substrates
Organism Arabidopsis thaliana
Experiment type Expression profiling by high throughput sequencing
Summary In the model plant Arabidopsis thaliana, four Dicer-like proteins (DCL1-4) mediate the production of various classes of small RNAs (sRNAs). Among these four proteins, DCL4 is by far the most versatile RNaseIII-like enzyme and previously identified dcl4 missense alleles were shown to uncouple the production of the various classes of DCL4-dependent sRNAs. Yet, little is known about the molecular mechanism pertaining this uncoupled production. Here, by studying the subcellular localization, interactome and binding to the sRNA precursors of three distinct dcl4 missense alleles, we simultaneously highlight the absolute requirement of its helicase domain for efficient production of all DCL4-dependent sRNAs, and identify an important determinant of DCL4 versatility within its PAZ domain that is mandatory for efficient processing of intramolecular foldback dsRNA precursors but dispensable for the production of siRNAs from RDR-dependent dsRNA susbtrates. This study not only provides novel insights into DCL4 mode of action in plants but also delineates interesting tools to further study the complexity of plant RNA silencing pathways.
 
Overall design RNA library of immunoprecipitated RNA from Col-0 (WT), pDCL4-DCL4-6:FHA/dcl4-2 and pDCL4-DCL4-8:FHA/dcl4-2 Arabidopsis flowers or seedlings were generated by deep sequencing, using Illumina HiSeq 2500 v4.
 
Contributor(s) Montavon T, Kwon Y, Zimmermann A, Hammann P, Vincent T, Cognat V, Marc B, Michel F, Dunoyer P
Citation(s) 29682831
Submission date Oct 31, 2017
Last update date May 15, 2019
Contact name Patrice Dunoyer
E-mail(s) patrice.dunoyer@ibmp-cnrs.unistra.fr
Organization name CNRS
Department Ibmp
Lab Dunoyer
Street address 12 rue du général Zimmer
City Strasbourg
State/province Alsace
ZIP/Postal code 67000
Country France
 
Platforms (1)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
Samples (6)
GSM2836958 GGD49 DCL4-6:FHA
GSM2836959 GGD50 DCL4-8:FHA
GSM2836960 GGD51 DCL4-6:FHA
Relations
BioProject PRJNA416658
SRA SRP123229

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
GSE106383_IR2039_flowers_RPM.txt.gz 10.6 Kb (ftp)(http) TXT
GSE106383_IR2039_seeds_RPM.txt.gz 9.7 Kb (ftp)(http) TXT
GSE106383_IR71_flowers_RPM.txt.gz 34.2 Kb (ftp)(http) TXT
GSE106383_IR71_seeds_RPM.txt.gz 30.1 Kb (ftp)(http) TXT
GSE106383_TAS1a_flowers_RPM.txt.gz 5.6 Kb (ftp)(http) TXT
GSE106383_TAS1a_seeds_RPM.txt.gz 6.1 Kb (ftp)(http) TXT
GSE106383_TAS1b_flowers_RPM.txt.gz 4.6 Kb (ftp)(http) TXT
GSE106383_TAS1b_seeds_RPM.txt.gz 4.3 Kb (ftp)(http) TXT
GSE106383_TAS1c_flowers_RPM.txt.gz 5.8 Kb (ftp)(http) TXT
GSE106383_TAS1c_seeds_RPM.txt.gz 5.5 Kb (ftp)(http) TXT
GSE106383_TAS2_flowers_RPM.txt.gz 6.8 Kb (ftp)(http) TXT
GSE106383_TAS2_seeds_RPM.txt.gz 7.0 Kb (ftp)(http) TXT
GSE106383_TAS3a_flowers_RPM.txt.gz 5.2 Kb (ftp)(http) TXT
GSE106383_TAS3a_seeds_RPM.txt.gz 4.6 Kb (ftp)(http) TXT
GSE106383_TAS3b_flowers_RPM.txt.gz 3.0 Kb (ftp)(http) TXT
GSE106383_TAS3b_seeds_RPM.txt.gz 1.8 Kb (ftp)(http) TXT
GSE106383_TAS4_flowers_RPM.txt.gz 2.8 Kb (ftp)(http) TXT
GSE106383_TAS4_seeds_RPM.txt.gz 2.8 Kb (ftp)(http) TXT
GSE106383_miR822_flowers_RPM.txt.gz 2.3 Kb (ftp)(http) TXT
GSE106383_miR822_seeds_RPM.txt.gz 2.9 Kb (ftp)(http) TXT
SRA Run SelectorHelp
Raw data are available in SRA
Processed data are available on Series record

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