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SRX2481026: GSM2452000: nrpe1 Δ1426-1976 rep2; Arabidopsis thaliana; Bisulfite-Seq
1 ILLUMINA (NextSeq 500) run: 44.6M spots, 7.1G bases, 2.5Gb downloads

Submitted by: NCBI (GEO)
Study: Functional analysis of the Arabidopsis thaliana Pol V largest subunit, NRPE1, carboxy-terminal domain by whole genome bisulfite sequencing
show Abstracthide Abstract
RNA Polymerase V transcription recruits siRNA-Argonaute protein complexes to chromatin, thereby specifying sites of RNA-directed DNA methylation (RdDM) and transcriptional gene silencing in plants. The Pol V largest subunit, NRPE1, has an extensive carboxyl-terminal domain (CTD) that is dispensable for catalytic activity in vitro, yet essential in vivo. A CTD subdomain, DeCL, named for its similarity to a chloroplast protein, DEFECTIVE CHLOROPLASTS AND LEAVES, is required for Pol V function at virtually all loci, similar to mutants defective for Pol V recruitment. Deletions removing three other CTD subdomains affect overlapping subsets of loci, similar to mutants lacking proteins that bind Pol V or its transcripts. A yeast two-hybrid screen for CTD-interactors identified the 3-prime -> 5-prime exoribonuclease, RRP6L1 as an interactor with the DeCL subdomain and the adjacent QS subdomain, named for its numerous glutamine-serine (QS) repeats. These RRP6L1-binding subdomains immediately follow the Argonaute-binding subdomain. Experimental evidence indicates that RRP6L1 trims the 3-prime ends of Pol V transcripts sliced by ARGONAUTE 4 (AGO4), suggesting a model whereby the adjacent CTD subdomains enable the spatial and temporal coordination of AGO4 and RRP6L1 RNA processing activities. Overall design: NRPE1 constructs with targeted carboxy-terminal domain deletions were assessed for their ability to complement nrpe1-11 mutants. Controls include Col-0 wild-type plants, nrpe1-11 mutant plants, and nrpe1-11 mutants expressing a full length NRPE1 transgene.
Sample: nrpe1 Δ1426-1976 rep2
SAMN06214635 • SRS1912639 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: Bisulfite-Seq
Source: GENOMIC
Selection: RANDOM
Layout: PAIRED
Construction protocol: CTAB extraction of genomic DNA from 2.5 week above ground tissues Illumina TruSeq DNA methylation Kit (product number: EGMK81312)
Experiment attributes:
GEO Accession: GSM2452000
Links:
Runs: 1 run, 44.6M spots, 7.1G bases, 2.5Gb
Run# of Spots# of BasesSizePublished
SRR516393244,592,3527.1G2.5Gb2017-02-27

ID:
3595963

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