|
| Status |
Public on Jul 13, 2024 |
| Title |
Auricularia auricula-judae Non treated group |
| Sample type |
SRA |
| |
|
| Source name |
Fruit body of mushroom
|
| Organism |
Auricularia auricula-judae |
| Characteristics |
tissue: Fruit body of mushroom
treatment: Non treated
|
| Treatment protocol |
200 Gray gamma radation
|
| Growth protocol |
Auricula auricula-judae is cultured in PDA at 25°C for 14 days, exposed to gamma radiation or not, and then inoculated into a sawdust medium mixed with sawdust and rice bran in an 8:2 (w/w) ratio. After growing the mycelium at 25°C for 30 days, the fruit body is grown by adjusting the temperature to 18°C and humidity to 90%.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
RNA was extracted from the homogenized fruit bodies using the Ribospin II RNA purification kit (GeneAll Biotechnology, Seoul, Korea). 1,000 ng of total RNA was used of the construction of sequencing libraries.
cDNA was synthesized using the cDNA synthesis kit (BIOFACT, RT PRE-MIX, Daejeon, Korea).
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NovaSeq 6000 |
| |
|
| Description |
Sample c-2
|
| Data processing |
Assembly was performed using the Trinity v2.15.1 program
CDS prediction was performed using the TransDecoder v5.7.1 program
To predict the functions of the assembled unigenes and the predicted CDS, NCBI Blast 2.2.28+ with the NCBI Non-redundant (nr) database (2013-07-17) and InterProScan v5 were utilized
Assembly: Trinity v2.15.1 program
Supplementary files format and content: tab-delimited text file includes FPKM values for each Sample
|
| |
|
| Submission date |
Jul 13, 2024 |
| Last update date |
Jul 13, 2024 |
| Contact name |
Jeong Heon Kim |
| E-mail(s) |
zxcb21212@gmail.com
|
| Organization name |
Kongju national university
|
| Street address |
54-46 Daehak-ro, Yesan-eup, Yesan-gun, Chungcheongnam-do
|
| City |
Yesan |
| ZIP/Postal code |
32439 |
| Country |
South Korea |
| |
|
| Platform ID |
GPL34701 |
| Series (1) |
| GSE272180 |
Transcriptome analysis of Auricularia auricula-judae in response to gamma radiation |
|
| Relations |
| BioSample |
SAMN42483688 |
| SRA |
SRX25317615 |
