|
| Status |
Public on Jun 01, 2012 |
| Title |
De novo assembly of siRNA immunity in wild plants |
| Organisms |
Betula pendula; Acer pseudoplatanus; Corylus avellana; Fagus sylvatica; Fraxinus excelsior; Quercus robur; Aesculus hippocastanum; Tilia platyphyllos; Ulmus glabra |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
We describe an application of deep sequencing and de novo assembly of short RNA reads to investigate small interfering (si)RNAs mediated immunity in leaf samples from eight tree taxa naturally occurring in Wytham Woods, Oxfordshire, UK. BLAST search for homologues of contigs in the GenBank identified siRNA populations against a number of RNA viruses and a Ty1-copia retrotransposons in these tree species.
|
| |
|
| Overall design |
Small RNA sequencing and de novo assembly
|
| |
|
| Contributor(s) |
Wang H, Cao H |
| Citation missing |
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| |
| Submission date |
Jun 01, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Hong zhi Cao |
| E-mail(s) |
caohongzhi@genomics.cn
|
| Phone |
8675525274032
|
| Organization name |
BGI-SHENZHEN
|
| Department |
Bioinformatics
|
| Street address |
F5, Main Building, Beishan Industrial Zone, Beishan Road, Yantian District
|
| City |
Shenzhen |
| State/province |
Guangdong |
| ZIP/Postal code |
518083 |
| Country |
China |
| |
|
| Platforms (2) |
| GPL10476 |
Illumina Genome Analyzer II (Acer pseudoplatanus; Aesculus hippocastanum; Betula pendula; Fagus sylvatica; Fraxinus excelsior; Quercus robur; Tilia platyphyllos) |
| GPL10477 |
Illumina Genome Analyzer II (Acer pseudoplatanus; Corylus avellana; Fagus sylvatica; Tilia platyphyllos; Ulmus glabra) |
|
| Samples (4)
|
|
| Relations |
| SRA |
SRP002606 |
| BioProject |
PRJNA128925 |
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