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Microarray analysis of med14, med16, npr1, and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

ABSTRACT: The goal of the microarray experiment was to identify genes that are differentially expressed among the Arabidopsis mutant med14, med16, npr1, and wild type in response to infection of the avirulent bacterial pathogen Pst DC3000/avrRpt2. Results indicated that the induction of a large group of defense genes was suppressed in the med14 mutant compared with both med16 and the wild type. Three biological replicates with leaves from 8 plants per sample were collected at 0 and 4 hours after inoculation with the avirulent bacterial pathogen Pst DC3000/avrRpt2. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Each replicate was used as one sample for microarray analysis.

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Jin Yao

PROVIDER: E-GEOD-45214 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Microarray analysis of At-med16-1 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

Project description:The goal of the microarray experiment was to identify defense genes that were differentially expressed in the Arabidopsis mutant At-med16-1 and wild type in response to infection of the avirulent bacterial pathogen Pst DC3000/avrRpt2. Results indicated that, compared with the wild type, several positive regulators of SAR (systemic acquired resistance) were downregulated and a group of SAR negative regulators were upregulated in At-med16-1. Three biological replicates with leaves from 8 plants per sample were collected at 0, 4, 8, and 24 hours after inoculation with the avirulent bacterial pathogen Pst DC3000/avrRpt2. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Equal amount of RNA from the 3 biological replicates were pooled as one sample for microarray analysis.

2012-06-29 | E-GEOD-38999 | biostudies-arrayexpress

Microarray analysis of med14 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

Project description:The goal of the microarray experiment was to determine the induction kinetics of transcriptome changes and to identify differentially expressed genes in the Arabidopsis mutant med14 and wild type in response to infection of the avirulent bacterial pathogen Pst DC3000/avrRpt2. Results indicated that med14 exhibited slower kinetcis of transcriptional changes than the wild type after Pst DC3000/avrRpt2 infection, and the induction of a large group of defense genes was suppressed in the med14 mutant. Three biological replicates with leaves from 8 plants per sample were collected at 0, 4, 8, and 12 hours after inoculation with the avirulent bacterial pathogen Pst DC3000/avrRpt2. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Each replicate was used as one sample for microarray analysis.

2013-05-18 | E-GEOD-45212 | biostudies-arrayexpress

Microarray analysis of Atelp2, npr1 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

Project description:The goal of the microarray experiment was to determine the induction kinetics of transcriptome changes in the Arabidopsis mutant Atelp2, npr1 and wild type in response to infection of the avirulent bacterial pathogen Pst DC3000/avrRpt2. Results indicated that Atelp2 exhibited slower kinetcis of transcriptional changes than the wild type after Pst DC3000/avrRpt2 infection, whereas npr1 did not show significant alteration in the induction kinetics. Three biological replicates with leaves from 8 plants per sample were collected at 0, 4, 8, and 12 hours after inoculation with the avirulent bacterial pathogen Pst DC3000/avrRpt2. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Each replicate was used as one sample for microarray analysis.

2012-06-29 | E-GEOD-38986 | biostudies-arrayexpress

Microarray analysis of med14, med16, npr1, and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

Project description:The goal of the microarray experiment was to identify genes that are differentially expressed among the Arabidopsis mutant med14, med16, npr1, and wild type in response to infection of the avirulent bacterial pathogen Pst DC3000/avrRpt2. Results indicated that the induction of a large group of defense genes was suppressed in the med14 mutant compared with both med16 and the wild type.

2013-05-18 | GSE45214 | GEO

Microarray analysis of At-med16-1 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

2012-06-30 | GSE38999 | GEO

Microarray analysis of Atelp2, npr1 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

2012-06-30 | GSE38986 | GEO

Microarray analysis of med14 and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

2013-05-18 | GSE45212 | GEO

Microarray analysis of med16, med8, elp2, and wild type (Col-0) infected with the necrotrophic fungal pathogen Sclerotinia sclerotiorum

Project description:The goal of the microarray experiment was to identify defense genes that were differentially expressed in the Arabidopsis mutants med16, med8, elp2, wild type in response to infection of the necrotrophic fungal pathogen Sclerotinia sclerotiorum. Results indicated that, compared with the wild type, the jasmonic acid (JA) biosynthesis genes LOX3, AOC3, and OPR3, ethylene (ET) biosynthesis genes ACS2 and ACS8, as well as salicylic acid (SA) biosynthesis genes ICS1 and EDS5 were up-regulated in med16 in local tissues at 1 day post-inoculation (dpi) and/or systemic tissues at 4 dpi. Surprisingly, however, while a number of SA pathway genes (EDS1, PAD4, NPR1, WRKY18, WRKY38, WRKY53, PR1, and PR2) and several JA-regulated wound-responsive genes (MYC2, JAR1, VSP1, and VSP2) were up-regulated in med16, a group of JA/ET-regulated defense genes (ORA59, ERF1, ERF14, PDF1.2, PDF1.2b, PDF1.2c, PDF1.3, PR4, and ChiB) and PR5 were down-regulated. On the other hand, only a few of these genes were differentially expressed between med8 or elp2 and the wild type. Three biological replicates with leaves from 8-12 plants per sample were collected at 0, 1, 2, and 4 days post-inoculation (dpi) after inoculation with the necrotrophic fungal pathogen Sclerotinia sclerotiorum. Leaf tissues were collected as controls at 0 dpi, the inoculated leaves were collected as local tissues at 1 dpi, and the upper uninoculated leaves were collected as systemic tissues at 2 and 4 dpi. After extraction, RNA concentration was determined on a NanoDrop Spectrophotometer (Thermofisher Scientific, Waltham, MA) and sample quality was assessed using the 2100 Bioanalyzer (Agilent Technologies, Santa Clara, CA). Equal amount of RNA from the 3 biological replicates were used for microarray analysis.

2015-01-22 | E-GEOD-65165 | biostudies-arrayexpress

Transcription profiling of Arabidopsis wild type Columbia-0 and mutant gh3.5-1D in response to pathogen Pst DC3000(avrRpt2)

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Arabidopsis thaliana

Project description:Microarray analysis of med14, med16, npr1, and wild type (Col-0) infected with the avirulent bacterial pathogen Pst DC3000/avrRpt2

| PRJNA193215 | ENA

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