|
| Status |
Public on Oct 01, 2015 |
| Title |
Conservation of m5C in tRNAs in the kingdom Plantae |
| Organisms |
Ginkgo biloba; Arabidopsis thaliana; Brassica rapa; Triticum turgidum subsp. durum; Nannochloropsis oculata; Caulerpa taxifolia |
| Experiment type |
Other
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
Here we use bisulfite conversion of RNA combined with high-throughput IIlumina sequencing (RBS-seq) to identify single-nucleotide resolution of m5C sites in transfer RNAs of all three sub-cellular transcriptomes across six diverse species that include, the single-celled algae Nannochloropsis oculata, the macro algae Caulerpa taxifolia and multi-cellular higher plants Arabidopsis thaliana, Brassica rapa, Triticum durum and Ginkgo biloba.
|
| |
|
| Overall design |
RNA Bisulfite sequencing was used to identify candidate m5C sites in tRNAs of diverse plant species. RNA-seq was used to examine abundance of tRNAs in Arabidopsis thaliana wild type. Arabidopsis thaliana RNA Bisulfite-Seq libraries were performed in biological triplicate. All other samples had only one biological replicate. Illumina sequencing was performed on a MiSeq platform.
|
| |
|
| Contributor(s) |
Burgess AL, David R, Searle IR |
| Citation(s) |
26268215 |
| |
| Submission date |
Apr 30, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Alice Louise Burgess |
| E-mail(s) |
[email protected]
|
| Organization name |
University of Adelaide
|
| Department |
Genetics and Evolution
|
| Lab |
Iain Searle Laboratory
|
| Street address |
Frome road
|
| City |
Adelaide |
| State/province |
SA |
| ZIP/Postal code |
5005 |
| Country |
Australia |
| |
|
| Platforms (6)
|
| GPL17970 |
Illumina MiSeq (Arabidopsis thaliana) |
| GPL20126 |
Illumina MiSeq (Ginkgo biloba) |
| GPL20127 |
Illumina MiSeq (Brassica rapa) |
| GPL20128 |
Illumina MiSeq (Nannochloropsis oculata) |
| GPL20129 |
Illumina MiSeq (Caulerpa taxifolia) |
| GPL20130 |
Illumina MiSeq (Triticum turgidum subsp. durum) |
|
| Samples (14)
|
|
| Relations |
| BioProject |
PRJNA282747 |
| SRA |
SRP057849 |
Less...
More...