|
| Status |
Public on Jul 03, 2012 |
| Title |
Endogenous small RNAs from peach leaf |
| Sample type |
SRA |
| |
|
| Source name |
peach leaf
|
| Organism |
Prunus persica |
| Characteristics |
cultivar: Lovell
tissue: peach leaf
developmental stage: emerging first leaves
|
| Growth protocol |
Peach trees are grown under normal field conditions
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA extraction for different peach tissues was performed using Plant RNA Purification Reagent (Invitrogen, CA). Libraries for peach flower and fruit were constructed according to SOLiD total RNA-seq kit. Libraries for peach root and leaf were constructed according to the standard protocol by Beijing Genomics Institute (BGI). Degradome library was constructed using the standard protocol by BGI.
small RNA sequencing was conducted by BGI, using SOLiD System 4.0 for peach flower and fruit; Illumina HiSeq 2000 for peach root and leaf.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
size fractionation |
| Instrument model |
Illumina HiSeq 2000 |
| |
|
| Data processing |
Adaptors were trimmed with CLC Genomic Workbench, and counted and merged using customized perl scripts.
Genome_build: Peach Genome V1.0 scaffolds (GDR, www.rosaceae.org)
|
| |
|
| Submission date |
Jun 06, 2012 |
| Last update date |
May 15, 2019 |
| Contact name |
HONG ZHU |
| E-mail(s) |
redspider19800915@gmail.com
|
| Organization name |
USDA-AFRS
|
| Street address |
2217 Wiltshire Rd.
|
| City |
Kearneysville |
| State/province |
WV |
| ZIP/Postal code |
25430 |
| Country |
USA |
| |
|
| Platform ID |
GPL15671 |
| Series (1) |
| GSE38535 |
Unique expression, processing regulation, and regulatory network of peach (Prunus persica) miRNAs |
|
| Relations |
| SRA |
SRX151797 |
| BioSample |
SAMN01041064 |
