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| Status |
Public on Aug 14, 2018 |
| Title |
ASH-1-catalyzed H3K36 methylation drives gene repression and marks H3K27me2/3-competent chromatin |
| Organism |
Neurospora crassa |
| Experiment type |
Expression profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
ASH-1 orthologs are H3K36-specific methyltransferases that are conserved from fungi to humans but are poorly understood, in part because they are typically essential for viability. Here we examine the H3K36 methylation pathway of Neurospora crassa, which we find has just two H3K36 methyltransferases, ASH-1 and RNA polymerase II-associated SET-2. Our investigation of the interplay between SET-2 and ASH-1 uncovered a regulatory mechanism connecting ASH-1-catalyzed H3K36 methylation to repression of poorly transcribed genes. Our findings provide new insight into ASH-1 function, H3K27me2/3 establishment, and repression at facultative heterochromatin.
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| Overall design |
RNA-seq: We analyzed gene expression changes in Neurospora crassa by poly-A+ mRNA-sequencing performed in duplicate. A wild type strain (N3752) serves as the reference strain (deposited in GSE82222).
ChIP-seq: We analyzed the distribution of histone H3 lysine 27 methylation (H3K27me2/3), H3K36me2/3, and H3K27ac in Neurospora crassa by chromatin immunoprecipitation. Strains were grown, crosslinked, lysed, modified nucleosomes were immunopurified, and associated DNA was sequenced.
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| Contributor(s) |
Bicocca VT, Ormsby T, Adhvaryu KK, Honda S, Selker EU |
| Citation(s) |
30468429 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| F32 CA180468 |
Characterization of SET-3 and its role in DNA methylation |
UNIVERSITY OF OREGON |
VINCENT T. BICOCCA |
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| Submission date |
Aug 13, 2018 |
| Last update date |
Nov 26, 2018 |
| Contact name |
Vincent T Bicocca |
| E-mail(s) |
bicocca@uoregon.edu
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| Organization name |
University of Oregon
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| Department |
Biology
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| Lab |
Selker
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| Street address |
1229 University of Oregon
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| City |
Eugene |
| State/province |
OR |
| ZIP/Postal code |
97403 |
| Country |
USA |
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| Platforms (3) |
| GPL20660 |
Illumina NextSeq 500 (Neurospora crassa) |
| GPL20705 |
Illumina HiSeq 2500 (Neurospora crassa) |
| GPL23150 |
Illumina HiSeq 4000 (Neurospora crassa) |
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| Samples (18)
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| Relations |
| BioProject |
PRJNA485801 |
| SRA |
SRP157801 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE118495_RAW.tar |
293.2 Mb |
(http)(custom) |
TAR (of BED, BIGWIG, CSV, TDF, TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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