|
| Status |
Public on Dec 25, 2019 |
| Title |
B6c |
| Sample type |
SRA |
| |
|
| Source name |
11-06-25
|
| Organism |
Vitis vinifera |
| Characteristics |
treatment: 7 days after veraison for '11-06-25'
organ: berries
|
| Treatment protocol |
Three-year-old ‘Sanbenti’ and its bud sport ‘11-06-25’ grape berries was sampled every 7 days from veraison (S5) to berry ripening (S10)
|
| Growth protocol |
Three-year-old ‘Sanbenti’ and its bud sport ‘11-06-25’ grape berries growing in Longcong village of Huzhou city in the Zhejiang province, China
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The berries of ‘Sanbenti’ and its bud sport ‘11-06-25’ were used for RNA isolation. Total RNAs were extracted using TaKaRa MiniBEST plant RNA extraction kit (TaKaRa Bio Inc., Japan).
For RNA-Seq, the cDNA libraries were constructed using the TruSeqTM RNA Sample Preparation Kit (Illumina, Inc.) according to the manufacturer’s instructions, with three replicates for each sample.
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
HiSeq X Ten |
| |
|
| Data processing |
Illumina HiSeq X-ten used for basecalling.
Clean reads were obtained by removing contaminating reads, adapter sequences, poly-A tails and other artifacts.
The clean reads were mapped to the reference Vitis vinifera genome (http://www.genoscope.cns.fr/externe/Download/Projets/Projet_ML/data/)
The fragments per kilobase of exon per million reads (FPKM) values of gene expression were calculated using Cuffdiff program
Genome_build: Vitis vinifera 12X
Supplementary_files_format_and_content: The tab-delimited text files files include genes read count for each sample (.txt)
|
| |
|
| Submission date |
Dec 18, 2019 |
| Last update date |
Dec 25, 2019 |
| Contact name |
Li Wang |
| E-mail(s) |
liwang@yzu.edu.cn
|
| Organization name |
Yangzhou University
|
| Lab |
Wang Lab
|
| Street address |
Wenhui east road no. 48
|
| City |
Yangzhou |
| ZIP/Postal code |
225009 |
| Country |
China |
| |
|
| Platform ID |
GPL25271 |
| Series (1) |
| GSE142313 |
Comparative transcriptomic analysis between ‘Sanbenti’ and its bud sport ‘11-06-25’ during grape berry development stages |
|
| Relations |
| BioSample |
SAMN13630691 |
| SRA |
SRX7411685 |
