|
| Status |
Public on Oct 26, 2021 |
| Title |
Heat stress (HS) replicate 2 grains |
| Sample type |
SRA |
| |
|
| Source name |
TR2K
|
| Organism |
Triticum turgidum subsp. durum |
| Characteristics |
time: 10 days after flowering
treatment: Heat stress (HS)
replicate: R2
|
| Treatment protocol |
Two thermal treatments were performed: control treatment (to ambient glasshouse temperature) and a heat stress (HS), which consisted of increasing the temperature in a range of moderately high temperatures (20 to 32 ºC). The thermal treatments were set at 10 days after flowering. To perform the thermal increase, chambers of transparent polyethylene (0.15 microns) were build up. Each chamber (1.2 × 1.0 × 1.2 m) was equipped with thermostatically controlled electric heaters as in previous experiments (Lizana and Calderini, 2013: doi:10.1017/S0021859612000639).
|
| Growth protocol |
A glasshouse experiment was carried out at the Austral Farming Experimental Station in Valdivia, Chile (39° 47’ S., 73° 14’ W.). In this experiment tetraploid wheat (Triticum turgidum spp. durum) genotype Queule-INIA was grown under standard glasshouse conditions. Three seeds per pots were sowing and fertilized with 150 kg ha-1 of nitrogen (N) and 300 kg ha-1 P2O5. In addition, 150 kg ha-1 N were applied averaging tillering. Pots were periodically surface irrigated to avoid water shortages. The crop phenophases were followed every five days starting at heading using the decimal code scale (Zadoks et al., 1974). At flowering (Zadok 65), three principal spikes/pot with similar development and size were tagged. Two thermal treatments were performed: control treatment (to ambient glasshouse temperature) and a heat stress (HS), which consisted of increasing the temperature in a range of moderately high temperatures (20 to 32 ºC). The thermal treatments were set at 10 days after flowering. To perform the thermal increase, chambers of transparent polyethylene (0.15 microns) were build up. Each chamber (1.2 × 1.0 × 1.2 m) was equipped with thermostatically controlled electric heaters as in previous experiments (Lizana and Calderini, 2013: doi:10.1017/S0021859612000639). The thermal regime was controlled by thermal sensors placed at the height of the spikes and connected to a temperature regulator (Cavadevices, Buenos Aires, Argentina). The air temperature was recorded both within and outside the chambers using data loggers (Extech Instruments SDL200 FLIR System, Inc.).
|
| Extracted molecule |
total RNA |
| Extraction protocol |
The RNA extraction protocol was based in Yaffe et al., (2012); https://doi.org/10.1186/1756-0500-5-45)), with modifications for wheatgrain, with 100 mg of each sample and using NucleoSpin® Gel and PCR columns
RNA quality analysis, libraries construction and sequencing were performed by by the sequencing service unit of the Faculty of Sciences in the Pontifical Catholic University of Chile (Santiago, Chile), using standard Illumina protocols
|
| |
|
| Library strategy |
RNA-Seq |
| Library source |
transcriptomic |
| Library selection |
cDNA |
| Instrument model |
Illumina HiSeq 2500 |
| |
|
| Description |
TR2K_heat_rep2
|
| Data processing |
Sequenced reads were pseudo-aligned to the publicly available Triticum turgidum transcriptome obtained from Ensembl Plants using kallisto (v0.46)
RNA-seq data was normalized using the R package sleuth
Genome_build: Svevo.v1
Supplementary_files_format_and_content: tab-delimited text file includes tpm values for each sample
|
| |
|
| Submission date |
Oct 23, 2021 |
| Last update date |
Oct 26, 2021 |
| Contact name |
Javier Canales |
| E-mail(s) |
javier.canales@uach.cl
|
| Phone |
+56967660831
|
| Organization name |
Universidad Austral de Chile
|
| Department |
Instituto de Bioquimica y Microbiologia
|
| Lab |
Plant Nutrition and Genomics Lab
|
| Street address |
Campus Isla Teja s/n
|
| City |
Valdivia |
| State/province |
Los Ríos |
| ZIP/Postal code |
5090000 |
| Country |
Chile |
| |
|
| Platform ID |
GPL20257 |
| Series (1) |
| GSE186472 |
Transcriptomic and physiological response of durum wheat grain to short period of heat stress at the early grain-filling stage |
|
| Relations |
| BioSample |
SAMN22547231 |
| SRA |
SRX12752372 |
