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| Status |
Public on Apr 07, 2017 |
| Title |
Transcriptome-wide RNA 5-methylcytosine methylation in shoots of Arabidopsis thaliana |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Methylation profiling by high throughput sequencing
Other
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| Summary |
Here we use bisulfite conversion of rRNA depleted RNA combined with high-throughput Illumina sequencing (RBS-seq) to identify single-nucleotide resolution of m5C sites transcriptome-wide in Arabidopsis thaliana seedlings. m5C sites were also analyzed in Arabidopsis trm4b-1 and trdmt1 T-DNA KO mutants for the RNA methyltransferases TRM4B and TRDMT1.
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| Overall design |
RNA bisulfite sequencing was used to identify candidate m5C sites transcriptome-wide in Arabidopsis thaliana seedlings, using rRNA depleted RNA. Illumina sequencing was performed on a HiSeq platform. The genotypes used are wild type trm4b-1 and trdmt1. All genotypes have two biological replicates with two technical replicates for each biological replicate.
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| Contributor(s) |
David R, Burgess AL, Searle IR |
| Citation missing |
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| Submission date |
Apr 07, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Alice Louise Burgess |
| E-mail(s) |
alice.burgess@adelaide.edu.au
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| Organization name |
University of Adelaide
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| Department |
Genetics and Evolution
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| Lab |
Iain Searle Laboratory
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| Street address |
Frome road
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| City |
Adelaide |
| State/province |
SA |
| ZIP/Postal code |
5005 |
| Country |
Australia |
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| Platforms (1) |
| GPL13222 |
Illumina HiSeq 2000 (Arabidopsis thaliana) |
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| Samples (6)
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| This SubSeries is part of SuperSeries: |
| GSE80054 |
Transcriptome-wide RNA 5-methylcytosine methylation in siliques, shoots and roots and root gene expression profiling of Arabidopsis thaliana |
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| Relations |
| BioProject |
PRJNA317690 |
| SRA |
SRP073005 |
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