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.

Experiment:340
Title:Genome-wide transcriptional analysis of the compatible Arabidopsis thaliana-Pseudomonas syringae pv.
Date:2005-10-06
Description:Pseudomonas syringae pv. tomato DC3000 (Pst) is a virulent pathogen, which causes disease on tomato and Arabidopsis. The type III secretion system (TTSS) plays a key role in pathogenesis by translocating virulence effectors from the bacteria into the plant host cell, while the phytotoxin coronatine (COR) contributes to virulence and disease symptom development. Recent studies suggest that both the TTSS and and COR are involved in the suppression of host basal defenses. However, little is known about the interplay between the host gene expression associated with basal defenses and the virulence activities of the TTSS and COR during infection. The global effects of the TTSS and COR on host gene expression associated with other host cellular processes during bacterial infection are also not well characterized. In this study, we used the Affymetrix full genome chip to determine the Arabidopsis transcriptome associated with basal defense to Pst DC3000 hrp mutants and the human pathogenic bacterium Escherichia coli O157:H7. We then used Pst DC3000 virulence mutants to characterize Arabidopsis transcriptional responses to the action of hrp-regulated virulence factors (e.g., TTSS and COR) during bacterial infection. Additionally, we used bacterial fliC mutants to assess the role of the PAMP flagellin in induction of basal defense-associated transcriptional responses. In total, our global gene expression analysis identified more than 5000 Arabidopsis genes that are reproducibly regulated more than 2-fold in three independent biological replicates of at least one type of comparison. Regulation of these genes provides a molecular signature for Arabidopsis basal defense to plant and human pathogenic bacteria, and illustrates both common and distinct global virulence effects of the TTSS, COR, and possibly other hrp-regulated virulence factors during Pst DC3000 infection.
ftp Link:ftp Link

Slide Information:
Slide IDSlide NameGenetic BackgroundTissueStock CodeCel File
Underwood_1-10_Mock-Inoculum-24h_Rep1_ATH13981Leaves N1644Underwood_1-10_Mock-Inoculum-24h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-11_Mock-Inoculum-24h_Rep2_ATH13982Leaves N1644Underwood_1-11_Mock-Inoculum-24h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-12_Mock-Inoculum-24h_Rep3_ATH13983Leaves N1644Underwood_1-12_Mock-Inoculum-24h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-13_Cor-5x10e7-10h_Rep1_ATH13984Leaves N1644Underwood_1-13_Cor-5x10e7-10h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 Coronatine- bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH13985Leaves N1644Underwood_1-14_Cor-5x10e7-10h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 Coronatine- bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH13986Leaves N1644Underwood_1-15_Cor-5x10e7-10h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 Coronatine- bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-16_Cor-hrpS-5x10e7-10h_Rep1_ATH13987Leaves N1644Underwood_1-16_Cor-hrpS-5x10e7-10h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 COR-hrpS double mutant bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-17_Cor-hrpS-5x10e7-10h_Rep2_ATH13988Leaves N1644Underwood_1-17_Cor-hrpS-5x10e7-10h_Rep2_ATH1.cel
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 COR-hrpS double mutant bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-18_Cor-hrpS-5x10e7-10h_Rep3_ATH13989Leaves N1644Underwood_1-18_Cor-hrpS-5x10e7-10h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3118 COR-hrpS double mutant bacteria at a concentration of 5x10e7 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-19_Mock-Inoculum-10h_Rep1_ATH13990Leaves N1644Underwood_1-19_Mock-Inoculum-10h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 10 hours after inoculation for RNA isolation.
Underwood_1-1_Cor-10e6-24h_Rep1_ATH13972Leaves N1644Underwood_1-1_Cor-10e6-24h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 Coronatine- bacteria at a concentration of 10e6 cfu per ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-20_Mock-Inoculum-10h_Rep2_ATH13991Leaves N1644Underwood_1-20_Mock-Inoculum-10h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 10 hours after inoculation for RNA isolation.
Underwood_1-21_Mock-Inoculum-10h_Rep3_ATH13992Leaves N1644Underwood_1-21_Mock-Inoculum-10h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 10 hours after inoculation for RNA isolation.
Underwood_1-22_hrpAfliC-10e8-7h_Rep1_ATH13993Leaves N1644Underwood_1-22_hrpAfliC-10e8-7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpAfliC double mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-23_hrpAfliC-10e8-7h_Rep2_ATH13994Leaves N1644Underwood_1-23_hrpAfliC-10e8-7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpAfliC double mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-24_hrpAfliC-10e8-7h_Rep3_ATH13995Leaves N1644Underwood_1-24_hrpAfliC-10e8-7h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpAfliC double mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-25_hrpA-10e8-7h_Rep1_ATH13996Leaves N1644Underwood_1-25_hrpA-10e8-7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpA mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-26_hrpA-10e8-7h_Rep2_ATH13997Leaves N1644Underwood_1-26_hrpA-10e8-7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpA mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-27_hrpA-10e8-7h_Rep3_ATH13998Leaves N1644Underwood_1-27_hrpA-10e8-7h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 hrpA mutant bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-28_DC3000-10e8-7h_Rep1_ATH13999Leaves N1644Underwood_1-28_DC3000-10e8-7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-29_DC3000-10e8-7h_Rep2_ATH14000Leaves N1644Underwood_1-29_DC3000-10e8-7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-2_Cor-10e6-24h_Rep2_ATH13973Leaves N1644Underwood_1-2_Cor-10e6-24h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 Coronatine- bacteria at a concentration of 10e6 cfu per ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-30_DC3000-10e8-7h_Rep3_ATH14001Leaves N1644Underwood_1-30_DC3000_10e8-7h_Rep3_ATH1.cel
Treatment: Plants were inoculated by vacuum infiltration with a suspension of Pseudomonas syringae pv. tomato DC3000 bacteria at 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-31_Mock-Inoculum-7h_Rep1_ATH14002Leaves N1644Underwood_1-31_Mock-Inoculum-7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-32_Mock-Inoculum-7h_Rep2_ATH14003Leaves N1644Underwood_1-32_Mock-Inoculum-7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-33_Mock-Inoculum-7h_Rep3_ATH14004Leaves N1644Underwood_1-33_Mock-Inoculum-7h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-34_Mock-Inoculum-7h_Rep4_ATH14005Leaves N1644Underwood_1-34_Mock-Inoculum-7h_Rep4_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a mock inoculum of distilled/deionized water. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-35_E.coli-0157-H7-10e8-7h_Rep1_ATH14006Leaves N1644Underwood_1-35_E.coli-0157-H7-10e8-7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli O157:H7 bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-36_E.coli-0157-H7-10e8-7h_Rep2_ATH14007Leaves N1644Underwood_1-36_E.coli-0157-H7-10e8-7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli O157:H7 bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-37_E.coli-0157-H7-10e8-7h_Rep3_ATH14008Leaves N1644Underwood_1-37_E.coli-0157-H7-10e8-7h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli O157:H7 bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-38_E.coli-TUV86-2-fliC-10e8-7h_Rep1_ATH14009Leaves N1644Underwood_1-38_E.coli-TUV86-2 fliC-10e8 7h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli TUV86-2 fliC mutant bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-39_E.coli-TUV86-2-fliC-10e8-7h_Rep2_ATH14010Leaves N1644Underwood_1-39_E.coli-TUV86-2 fliC-10e8 7h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli TUV86-2 fliC mutant bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-3_Cor-10e6-24h_Rep3_ATH13974Leaves N1644Underwood_1-3_Cor-10e6-24h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 Coronatine- bacteria at a concentration of 10e6 cfu per ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-40_E.coli-TUV86-2-fliC-10e8-7h_Rep3_ATH14011Leaves N1644Underwood_1-40_E.coli-TUV86-2 fliC-10e8 7h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with a suspension of E. coli TUV86-2 fliC mutant bacteria at a concentration of 10e8 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected 7 hours after inoculation for RNA isolation.
Underwood_1-4_Cor-hrpS-10e6-24h_Rep1_ATH13975Leaves N1644Underwood_1-4_Cor-hrpS-10e6-24h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 COR-hrpS double mutant bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-5_Cor-hrpS-10e6-24h_Rep2_ATH13976Leaves N1644Underwood_1-5_Cor-hrpS-10e6-24h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 COR-hrpS double mutant bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-6_Cor-hrpS-10e6-24h_Rep3_ATH13977Leaves N1644Underwood_1-6_Cor-hrpS-10e6-24h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae DC3118 COR-hrpS double mutant bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-7_DC3000-10e6-24h_Rep1_ATH13978Leaves N1644Underwood_1-7_DC3000-10e6-24h_Rep1_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae pv. tomato strain DC3000 bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-8_DC3000-10e6-24h_Rep2_ATH13979Leaves N1644Underwood_1-8_DC3000-10e6-24h_Rep2_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae pv. tomato strain DC3000 bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.
Underwood_1-9_DC3000-10e6-24h_Rep3_ATH13980Leaves N1644Underwood_1-9_DC3000-10e6-24h_Rep3_ATH1.CEL
Treatment: Plants were inoculated by vacuum infiltration with Pseudomonas syringae pv. tomato strain DC3000 bacteria at a concentration of 10e6 cfu/ml. Inoculated leaf tissue from at least 15 plants was collected for RNA isolation.