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| Status |
Public on Aug 18, 2006 |
| Title |
Evaluation of the performance of the Arabidopsis Pathoarray 464_001: an example of detailed analysis of mutants |
| Organism |
Arabidopsis thaliana |
| Experiment type |
Expression profiling by array
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| Summary |
The Arabidopsis Pathoarray 464_001 (GPL3638) was used to compare response of wild-type, rps2-101C (Bent et al., 1994; Mindorinos et al., 1994) and ndr1-1 (Century et al., 1995) to Pseudomonas syringae strain expressing avrRpt2. The two mutants are compromised in RPS2-mediated resistance but distinct difference between them has not been described. The results suggested that ndr1-1 affects a defense signaling pathway(s) in addition to the RPS2-dependent pathway, and indicate that the microarray is a powerful tool for systems analysis of the Arabidopsis disease signaling network.
Keywords: Evaluation of the Arabidopsis Pathoarray 464_001 performance
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| Overall design |
This experiment consists of two biological replicates of four samples (Col-0, rps2-101C, ndr1-1 and ndr1-1blind. The ndr1-1blind was included as a fourth genotype whose identity was unknown to the experimenter and identified as ndr1-1 by genotyping.) The profiles of the two ndr1-1 were used to set false discovery rate empirically in significant analysis of microarray (Tusher et al., 2001). A more conservative FDR than the FDR determined empirically using two ndr1-1 was used to analyze other pairwise comparisons. For each genotype, two leaves per plant were pooled from three pots to prepare total RNA.
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| Contributor(s) |
Sato M, Katagiri F |
| Citation(s) |
17181774 |
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| Submission date |
Jul 13, 2006 |
| Last update date |
Mar 16, 2012 |
| Contact name |
Masanao Sato |
| Phone |
+81-564-59-5876
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| Organization name |
National Institute for Basic Biology
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| Lab |
Developmental Genetics
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| Street address |
5-1 Higashiyama, Myodaiji
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| City |
Okazaki |
| State/province |
Aichi |
| ZIP/Postal code |
444-8787 |
| Country |
Japan |
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| Platforms (1) |
| GPL3638 |
The miniarray (Arabidopsis Pathoarray) 464_001 |
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| Samples (8)
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| Relations |
| BioProject |
PRJNA96315 |
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