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| Status |
Public on Jun 01, 2012 |
| Title |
RNA-seq-based analysis of the pathogen-induced defense transcriptome in Arabidopsis |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by high throughput sequencing
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| Summary |
Pathogen infection triggers transcriptional reprogramming in host plants, however we still know little about the dynamics of the pathogen-induced defense transcriptome. The goal of this study was to investigate the dynamic reprogramming of the defense transcriptome in response to Fusarium oxysporum infection in Arabidopsis using RNA-seq technology and to provide a comprehensive analysis of genes underlying the innate immune response against the fungal pathogen. Our results suggest that the Arabidopsis transcriptome is reprogrammed to co-ordinately express multiple positive and negative regulators following pathogen infection to modulate defense gene expression and disease resistance. Our study identified a number of novel genes responsive to pathogen infection and provided a rich source of pathogen responsive genes for further functional characterization.
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| Overall design |
Four samples (M1DPI, M6DPI, F1DPI and F6DPI; M=mock treated; F=Fusarium oxysporum infected; DPI=day post inoculation) were sequenced to identify pathogen responsive genes in each time point. Each sample was sequenced once, i.e. without biological replicate.
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| Contributor(s) |
Zhu Q, Wang M, Stephen S |
| Citation(s) |
23107761 |
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| Submission date |
Dec 07, 2011 |
| Last update date |
May 15, 2019 |
| Contact name |
Stuart Stephen |
| E-mail(s) |
stuart.stephen@csiro.au
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| Organization name |
CSIRO
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| Department |
Plant Industry
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| Lab |
Computational Biology
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| Street address |
Black Mountain
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| City |
Canberra |
| State/province |
ACT |
| ZIP/Postal code |
2601 |
| Country |
Australia |
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| Platforms (1) |
| GPL13396 |
AB SOLiD System (Arabidopsis thaliana) |
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| Samples (4)
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| Relations |
| SRA |
SRP009647 |
| BioProject |
PRJNA149771 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE34241_RAW.tar |
72.0 Mb |
(http)(custom) |
TAR (of BED, CSV) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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