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Series GSE47666 Query DataSets for GSE47666
Status Public on Aug 01, 2013
Title Convergent transcription induces dynamic DNA methylation at disiRNA loci
Organism Neurospora crassa
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Cytosine methylation of DNA is an important epigenetic gene silencing mechanism in plants, fungi, and animals. In the filamentous fungus Neurospora crassa, nearly all known DNA methylations occur in transposon relics and repetitive sequences, and DNA methylation does not depend on the canonical RNAi pathway. disiRNAs are Dicer-independent small non-coding RNAs that arise from gene-rich part of the Neurospora genome. Here we describe a new type of DNA methylation that is associated with the disiRNA loci. Unlike the known DNA methylation in Neurospora, disiRNA loci DNA methylation (DLDM) is highly dynamic and is regulated by an on/off mechanism. Surprisingly, some of the DLDM is independent of the known DNA methyltransferase. At least in disi47, disiRNA production appears to rely on pol II directed transcription. Importantly, DLDM is triggered by convergent transcription and enriched in promoter regions. Together, our results establish a new mechanism that triggers DNA methylation.
 
Overall design Two small RNA library were generated from Neurospora wild type (FGSC4200) and wc-2 KO mutant
 
Contributor(s) Liu Y, Dang Y
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Submission date Jun 05, 2013
Last update date May 15, 2019
Contact name Yunkun Dang
E-mail(s) ykdang@gmail.com
Phone 214-6456043
Organization name University of Texas Southwestern Medical Center
Department Physiology
Street address 5323 Harry Hines Blvd
City Dallas
State/province TX
ZIP/Postal code 75390-9040
Country USA
 
Platforms (1)
GPL16164 Illumina HiSeq 2000 (Neurospora crassa)
Samples (2)
GSM1154268 wild-type (FGSC4200)
GSM1154269 white collar 2 knockout mutant
Relations
BioProject PRJNA207075
SRA SRP024247

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Supplementary file Size Download File type/resource
GSE47666_RAW.tar 54.3 Mb (http)(custom) TAR (of GFF)
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Raw data are available in SRA
Processed data provided as supplementary file

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