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Series GSE18165 Query DataSets for GSE18165
Status Public on Oct 02, 2009
Title High-throughput pyrosequencing of endogenous small RNAs from CSR-1 IP complexes and csr-1(tm892) and ego-1(om97) mutants
Organism Caenorhabditis elegans
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary High-throughput pyrosequencing of endogenous small RNAs from CSR-1 IP complexes and csr-1(tm892) and ego-1(om97) mutants with corresponding controls.
RNAi-related pathways regulate diverse processes, from developmental timing to transposon silencing. Here, we show that in C. elegans the Argonaute CSR-1, the RNA-dependent RNA polymerase EGO-1, the Dicer-related helicase DRH-3, and the Tudor-domain protein EKL-1 localize to chromosomes and are required for proper chromosome segregation. In the absence of these factors chromosomes fail to align at the metaphase plate and kinetochores do not orient to opposing spindle poles. Surprisingly, the CSR-1 interacting small RNAs (22G-RNAs) are antisense to thousands of germline-expressed protein-coding genes. Nematodes assemble holocentric chromosomes in which continuous kinetochores must span the expressed domains of the genome. We show that CSR-1 interacts with chromatin at target loci, but does not down-regulate target mRNA or protein levels. Instead, our findings support a model in which CSR-1 complexes target protein-coding domains to promote their proper organization within the holocentric chromosomes of C. elegans.
 
Overall design 5 samples examined. Small RNAs that co-immunopercipitate with CSR-1 protein and input sample. Small RNAs from csr-1(tm892) and ego-1(om97) mutants and corresponding congenic wild type strain.
 
Contributor(s) Claycomb JM, Mello CC
Citation(s) 19804758
Submission date Sep 18, 2009
Last update date May 15, 2019
Contact name Julie M. Claycomb
Organization name University of Massachusetts Medical School
Department Program in Molecular Medicine
Lab Craig Mello
Street address 373 Plantation Street Biotech2 Suite 219
City Worcester
State/province MA
ZIP/Postal code 01605
Country USA
 
Platforms (1)
GPL9269 Illumina Genome Analyzer II (Caenorhabditis elegans)
Samples (5)
GSM454000 small RNAs that co-immunopercepitate with the argonaute CSR-1
GSM454001 small RNAs from wild type worms input control for the IP experiment
GSM454002 small RNAs from csr-1 mutant animals
This SubSeries is part of SuperSeries:
GSE18167 Gene expression in csr-1 mutants and sequencing of sRNAs from CSR-1 IP complexes and csr-1 and ego-1 mutants
Relations
SRA SRP001450
BioProject PRJNA123485

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
GSE18165_RAW.tar 248.4 Mb (http)(custom) TAR (of TAR, TXT)
SRA Run SelectorHelp
Processed data provided as supplementary file
Raw data are available in SRA

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