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| Status |
Public on Nov 02, 2016 |
| Title |
SAC3B, a central component of the mRNA export complex TREX-2, is required for prevention of epigenetic gene silencing in Arabidopsis |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
Epigenetic regulation is important for organismal development and response to the environment. Alteration in epigenetic status has been known mostly from the perspective of enzymatic actions of DNA methylation and/or histone modifications. In a genetic screen for cellular factors involved in preventing epigenetic silencing, we isolated an Arabidopsis mutant defective in SAC3B, a component of the conserved TREX-2 complex that couples mRNA transcription with nuleo-cytoplasmic export. Arabidopsis SAC3B dysfunction causes gene silencing at transgenic and endogenous loci, accompanied by elevation in the repressive histone mark H3K9me2 and by reduction in RNA polymerase Pol II occupancy. SAC3B dysfunction does not alter promoter DNA methylation level of the transgene d35S::LUC, although the DNA demethylase ROS1 is also required for d35S::LUC anti-silencing. THP1 and NUA were identified as SAC3B-associated proteins whose mutations also caused d35S::LUC silencing. RNA-DNA hybrid exists at the repressed loci but is unrelated to gene suppression by the sac3b mutation. Genomewide analyses demonstrated minor but clear involvement of SAC3B in regulating siRNAs and DNA methylation, particularly at a group of TAS and TAS-like loci. Together our results revealed not only a critical role of mRNA-export factors in transcriptional anti-silencing but also the contribution of SAC3B in shaping plant epigenetic landscapes.
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| Overall design |
MethylC-Seq: 3 samples examined, Col-0, sac3b-7 (SALK 111245), and sac3b-3 (SALK 065672); mRNA-Seq: 2 samples examined and each sample has two replicates, Col-0 and sac3b-7 (SALK 111245); sRNA-Seq: 3 examples examined, Col-0, sac3b-7 (SALK 111245), and sac3b-3 (SALK 065672)
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| Contributor(s) |
Yang Y, La H, Tang K, Yang L, Zhang H, Zhu J |
| Citation(s) |
27672037 |
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| Submission date |
Nov 02, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Jian-Kang Zhu |
| E-mail(s) |
[email protected]
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| Organization name |
Purdue University
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| Department |
Department of Horticulture and Landscape Architecture
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| Street address |
625 Agriculture Mall Dr.
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| City |
West Lafayette |
| State/province |
IN |
| ZIP/Postal code |
47907 |
| Country |
USA |
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| Platforms (1) |
| GPL17639 |
Illumina HiSeq 2500 (Arabidopsis thaliana) |
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| Samples (10)
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| Relations |
| BioProject |
PRJNA352201 |
| SRA |
SRP092447 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE89433_RAW.tar |
613.6 Mb |
(http)(custom) |
TAR (of BEDGRAPH, WIG) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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