NASCArrays Information at The BAR

Welcome to NASCArrays information at the BAR. This page hosts meta-information from the NASCArrays service (2002-2013). This information was parsed from text files available on the NASCArrays site. NASCArrays data is on iPlant server. To download experiment data from iPlant, please click on the experiment number. To download the CEL files, please click on the ftp link.

Title:Impact of Type III effectors on plant defense responses
Description:Our interest lies in how plants respond to bacterial pathogens. Over the past three years we have identified and documented reproducible, landmark biochemical and molecular events following the challenge of Arabidopsis with the phytopathogenic enterobacteria P. syringae. Significantly, our studies revealed 60% of cDNA-AFLP differentials not present on the 8,200 feature GeneChips and 20% absent from public EST databases (de Torres in press). We now seek to exploit this background using carefully defined time-points to analyse global changes in the Arabidopsis transcriptome using challenges selected to define gene targets implicated in (i) expression of basal immunity (ii) the establishment of successful parasitism (resistance) by a virulent pathogen (host). The results will provide a rationale for future functional assays of the identified pathways using transgenic knockouts and mutant analyses. Additionally, data will provide underpinning support for comparative proteomics of the defense response currently in progress with GARNet support using the same experimental parameters (BBSRC 32/P14635). We propose the following treatments:(i) Mock vs. DC3000hrpA @ 60 min: 60 minutes is subsequent to host immediate-early stress responses and will catalogue the innate responses induced by pathogen associated molecular patterns. The hrpA lesion will ensure no type III effectors influence transcriptional responses. Gene products induced at this time are predicted to potentiate latter host responses (2 treatments X 3 biological replicates = 6 chips). (ii) Mock vs. DC3000 vs. DC3000hrpA vs. DC3000::avrRpm1 @ 4 hours: A key time point previously defined where no macroscopic symptoms are visible but significant differences exist between compatible and incompatible interactions at the molecular and physiological levels. These treatments will serve to define the earliest genes induced by the complement of DC3000 type III effector and will specifically define genes/pathways suppressed by virulence factors in addition to those implicated in orchestration of the hypersensitive cell death. We will also include an incompatible interaction on a transgenic line expressing an RPM1 interacting protein, which fails to mount an HR but exhibits hyper-resistance. We predict this challenge will separate the resistance response (pathogen restriction) from that associated with hypersensitive cell death (5 treatments X 3 biological replicates = 15 chips).(iii) Mock vs. DC3000 vs. DC3000hrpA @ 14 hours: At 10 h before phenotypes are apparent in the DC3000 background, Type III effector delivery is well advanced and impact on host transcription maximal (3 treatments X 3 biological replicates = 9 chips).
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Slide Information:
Slide IDSlide NameGenetic BackgroundTissueStock CodeCel File
A-1-Torres-MgCl2_2hr_Rep1468Whole leaf N1688A-1-Torres-MgCl2_2hr_Rep1.cel
A-10-Torres-Hrp_4hr_Rep1543Whole leaf N1688A-10-Torres-Hrp_4hr_Rep1.cel
A-11-Torres-Hrp_4hr_Rep2544Whole leaf N1688A-11-Torres-Hrp_4hr_Rep2.cel
A-12-Torres-Hrp_4hr_Rep3545Whole leaf N1688A-12-Torres-Hrp_4hr_Rep3.cel
A-13-Torres-DC3000_4hr_Rep1546Whole leaf N1688A-13-Torres-DC3000_4hr_Rep1.cel
A-14-Torres-DC3000_4hr_Rep2547Whole leaf N1688A-14-Torres-DC3000_4hr_Rep2.cel
A-15-Torres-DC3000_4hr_Rep3548Whole leaf N1688A-15-Torres-DC3000_4hr_Rep3.cel
A-16-Torres-AvrRpm1_4hr_Rep1549Whole leaf N1688A-16-Torres-AvrRpm1_4hr_Rep1.cel
A-17-Torres-AvrRpm1_4hr_Rep2550Whole leaf N1688A-17-Torres-AvrRpm1_4hr_Rep2.cel
A-18-Torres-AvrRpm1_4hr_Rep3551Whole leaf N1688A-18-Torres-AvrRpm1_4hr_Rep3.cel
A-2-Torres-MgCl2_2hr_Rep2469Whole leaf N1688A-2-Torres-MgCl2_2hr_Rep2.cel
A-22-Torres-MgCl2_12hr_Rep1553Whole leaf N1688A-22-Torres-MgCl2_12hr_Rep1.cel
A-23-Torres-MgCl2_12hr_Rep2554Whole leaf N1688A-23-Torres-MgCl2_12hr_Rep2.cel
A-24-Torres-MgCl2_12hr_Rep3555Whole leaf N1688A-24-Torres-MgCl2_12hr_Rep3.cel
A-25-Torres-DC3000_12hr_Rep1556Whole leaf N1688A-25-Torres-DC3000_12hr_Rep1.cel
A-26-Torres-DC3000_12hr_Rep2557Whole leaf N1688A-26-Torres-DC3000_12hr_Rep2.cel
A-27-Torres-DC3000_12hr_Rep3558Whole leaf N1688A-27-Torres-DC3000_12hr_Rep3.cel
A-28-Torres-Hrp_12hr_Rep1559Whole leaf N1688A-28-Torres-Hrp_12hr_Rep1.cel
A-29-Torres-Hrp_12hr_Rep2560Whole leaf N1688A-29-Torres-Hrp_12hr_Rep2.cel
A-3-Torres-MgCl2_2hr_Rep3470Whole leaf N1688A-3-Torres-MgCl2_2hr_Rep3.cel
A-30-Torres-Hrp_12hr_Rep3561Whole leaf N1688A-30-Torres-Hrp_12hr_Rep3.cel
A-4-Torres-Hrp_2hr_Rep1471Whole leaf N1688A-4-Torres-Hrp_2hr_Rep1.cel
A-5-Torres-Hrp_2hr_Rep2472Whole leaf N1688A-5-Torres-Hrp_2hr_Rep2.cel
A-6-Torres-Hrp_2hr_Rep3473Whole leaf N1688A-6-Torres-Hrp_2hr_Rep3.cel
A-7-Torres-MgCl2_4hr_Rep1474Whole leaf N1688A-7-Torres-MgCl2_4hr_Rep1.cel
A-8-Torres-MgCl2_4hr_Rep2475Whole leaf N1688A-8-Torres-MgCl2_4hr_Rep2.cel
A-9-Torres-MgCl2_4hr_Rep3476Whole leaf N1688A-9-Torres-MgCl2_4hr_Rep3.cel