|
| Status |
Public on Feb 24, 2022 |
| Title |
Col0_0h_B |
| Sample type |
SRA |
| |
|
| Source name |
Col0 no ABA replicate B
|
| Organism |
Arabidopsis thaliana |
| Characteristics |
genotype: wild type
developmental stage: 12 days
tissue: Whole seedling
treatment: NO
|
| Treatment protocol |
seedling were spray with a solution of 10µM of ABA dilluted in water.
|
| Growth protocol |
Media = MS/2, pH 5.8, 1% Surose hygrometry = 33% humidity Temperature = 24°C day/ 21°c night Light = 16 hours day / 8 hours night for 12 days.
|
| Extracted molecule |
total RNA |
| Extraction protocol |
Total RNA was isolated using TRI Reagent (Sigma-Aldrich) and treated with DNase (Fermentas) according to the manufacturer's instructions.
RNA libraries were prepared for sequencing using standard Illumina protocols for TruSeq RNA
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina NextSeq 500 |
| |
|
| Data processing |
Sequenced reads were trimmed using trimmomatic V0.36 to remove adapters and low quality bases. Ribosomal RNA where removed using SortMeRNA (v2.1)
trimmed reads were aligned to the TAIR10 genome using STAR (2.7.2a)
Reads were counted on each Araport11 features using featureCounts from subreads package (v1.6.5) using strand specific mode.
Genome_build: TAIR10
Supplementary_files_format_and_content: tab-delimited text files include raw count values for each Sample
|
| |
|
| Submission date |
Dec 21, 2021 |
| Last update date |
Feb 24, 2022 |
| Contact name |
Thomas Blein |
| E-mail(s) |
thomas.blein@cnrs.fr
|
| Organization name |
CNRS
|
| Lab |
IPS2
|
| Street address |
Avenue des Sciences
|
| City |
Gif-sur-Yvette |
| ZIP/Postal code |
91190 |
| Country |
France |
| |
|
| Platform ID |
GPL19580 |
| Series (1) |
| GSE192382 |
Influence of the downregulation of the MARS lncRNA (AT5G00580) of the response to Abscisic acid (ABA) in Arabidopsis |
|
| Relations |
| BioSample |
SAMN24280644 |
| SRA |
SRX13473098 |
