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| Status |
Public on Nov 02, 2017 |
| Title |
Deubiquitinating Enzyme OTU5 Contributes to DNA Methylation Patterns and Is Critical for Phosphate Nutrition Signals |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
Methylation profiling by high throughput sequencing
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
Phosphate (Pi) starvation induces a suite of adaptive responses aimed at recalibrating cellular Pi homeostasis. Plants harboring a mutation in OVARIAN TUMOR DOMAIN-CONTAINING DEUBIQUITINATING ENZYME5 (OTU5) showed altered DNA methylation of root hair-related genes and altered Pi-responsive root traits. Unlike the wild type, homozygous otu5 mutants did not respond to Pi starvation by increased lateral root formation and increased root hair length but formed very short root hairs when grown on low-Pi media. Under Pi-replete conditions, otu5 plants developed more root hairs than the wild type due to attenuated primary root growth, a phenotype that resembled that of Pi-deficient plants. Growth of plants on low-Pi media altered both H3K4 and H3K27 trimethylation levels at the transcriptional start site of a subset of genes encoding key players in Pi homeostasis, which was correlated with mRNA abundance changes of these genes. Pi starvation had a minor impact on DNA methylation. Differentially methylated regions were enriched in transposable elements, suggesting that DNA methylation associated with low Pi supply is required for maintaining genome integrity. It is concluded that DNA methylation and histone methylation constitute critical, interdependent regulatory components that orchestrate the activity of a subset of Pi-responsive genes.
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| Overall design |
To understand the role of OTU5 in root development and in the alterations in root developmental programs induced by Pi starvation, we performed a comprehensive assessment of the transcriptional profiles and DNA methylation patterns of the otu5 mutant and its wild type under control and Pi deficient-conditions.
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| Contributor(s) |
Yen M, Hsu F, Suen D, Tsai Y, Fu H, Schmidt W, Chen P |
| Citation(s) |
29061907 |
| Submission date |
May 13, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Pao-Yang Chen |
| Organization name |
Academia Sinica
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| Department |
Institute of Plant and Microbial Biology
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| Lab |
Pao-Yang Chen
|
| Street address |
128 Sec. 2, Academia Rd, Nankang,
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| City |
Taipei |
| ZIP/Postal code |
115 |
| Country |
Taiwan |
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| Platforms (2) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
| GPL17639 |
Illumina HiSeq 2500 (Arabidopsis thaliana) |
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| Samples (36)
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| Relations |
| BioProject |
PRJNA321477 |
| SRA |
SRP075013 |
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