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| Status |
Public on May 23, 2022 |
| Title |
Robust transcriptional indicators of plant immune cell death revealed by spatio-temporal transcriptome analyses |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
We aim to monitor global transcriptomic changes during the HR in Arabidopsis Col-0 leaf upon localized infiltration of Pst DC3000 (avrRpm1) (5*107cfu/mL) and mock (10 Mm MgCl2) in a spatio-temporal manner. The infiltrated cells were harvested in parallel with the immediately adjacent uninfected cells. Samples were collected at 0,1,2,4,6 post-inoculation in three biological replicates.
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| Overall design |
Leaf tissue was separately collected from the IN and OUT area of infiltration at 5 different time points: 0, 1, 2, 4 and 6 hours by making use of a sterile scalpel Leaf tissue was stored in 2 mL Eppendorf tubes and snapped-frozen in liquid nitrogen until the time of RNA extraction. Each sample collected consisted of tissue from six leaves derived from three different plants. For generation of three biological replicates from each condition (area, treatment and time), three independent experiments were performed. total sum of 60 samples -2 treatments (mock/infected), 5 time points (0, 1, 2, 4 and 6 hpi), 2 areas (IN/OUT) and 3 biological replicates- were used for RNA-sequencing.
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| Contributor(s) |
Salguero-Linares J, Serrano I, Ruiz-Solani N, Salas-Gómez M, Phukan UJ, González VM, Bernardo-Faura M, Valls M, Rengel D, Coll NS |
| Citation(s) |
35502144 |
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| Submission date |
Mar 07, 2022 |
| Last update date |
May 23, 2022 |
| Contact name |
Jose Salguero Linares |
| E-mail(s) |
[email protected]
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| Organization name |
Centre for Research in Agricultural Genomics
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| Lab |
Bacterial plant diseases and plant cell death
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| Street address |
Carrer de la Vall Moronta s/n
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| City |
Bellaterra |
| State/province |
Barcelona |
| ZIP/Postal code |
08193 |
| Country |
Spain |
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| Platforms (1) |
| GPL21179 |
Illumina HiSeq 3000 (Arabidopsis thaliana) |
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| Samples (60)
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| Relations |
| BioProject |
PRJNA813448 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE198022_counts_dds_norm.csv.gz |
6.6 Mb |
(ftp)(http) |
CSV |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data are available on Series record |
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