|
| Status |
Public on May 06, 2022 |
| Title |
T6S_2_C_3 apple rootstock (M9T337) root with 6S-2 spore suspension inoculum first and then inoculated with MR5 (TaFp3) |
| Sample type |
SRA |
| |
|
| Source name |
apple rootstock (M9T337) roots
|
| Organism |
Malus domestica |
| Characteristics |
tissue: apple rootstock (M9T337) roots
treatment: apple rootstock (M9T337) root with 6S-2 spore suspension inoculum first and then inoculated with MR5 (TaFp)
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was extracted using the TRIzol reagent according to the manufacturer’s protocol.
The libraries were constructed using TruSeq Stranded mRNA LT Sample Prep Kit (Illumina, San Diego, CA, USA) according to the manufacturer’s instructions
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
T6S_2_C_3
|
| Data processing |
Raw data (raw reads) were processed using Trimmomatic
The reads containing ploy-N and the low quality reads were removed to obtain the clean reads.
Then the clean reads were mapped to reference genome using hisat2
Assembly: GDDH13_v1.1
Supplementary files format and content: tab-delimited text files include RPKM values for each Sample
|
| |
|
| Submission date |
May 03, 2022 |
| Last update date |
May 06, 2022 |
| Contact name |
Haiyan Wang |
| E-mail(s) |
[email protected]
|
| Phone |
+8618706387318
|
| Organization name |
Shandong Agricultural University
|
| Street address |
61 Daizong Street
|
| City |
Tai，an |
| State/province |
Shandong |
| ZIP/Postal code |
271018 |
| Country |
China |
| |
|
| Platform ID |
GPL29987 |
| Series (1) |
| GSE202091 |
Transcriptome changes associated with M9T337 root defense response after 6S-2 colonization and MR5 infection |
|
| Relations |
| BioSample |
SAMN28054032 |
| SRA |
SRX15121837 |
