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Expression patterns in time and space during P.sojae infection of soybean cultivars differing in quantitative resistance
Brett Tyler, virginia Bioinformatics Institute (bmtyler@vt.edu)
Experiment design (160 hybridizations)
genotype
•V71-370 •CONRAD •SLOAN •VP-RIL9
treated or untreated
•P.sojae inoculated •mock inoculated
infection site
•above and below infection •above infection •below infection
time
•24 hai •48 hai •72 hai •120 hai

Four selected soybean genotypes with varying degrees of quantitative resistance that were well-characterized were selected for this study. These in...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

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Experiment Name: Expression patterns in time and space during P.sojae infection of soybean cultivars differing in quantitative resistance
Accession No: GM3
Microarray: Soybean
Visibility: public
Experiment Type:
Experiment Factor(s):
genotype
•V71-370   •CONRAD  •SLOAN  •VP-RIL9
treated or untreated
•P.sojae inoculated   •mock inoculated
infection site
•above and below infection   •above infection   •below infection
time
•24 hai  •48 hai  •72 hai  •120 hai
Quality Control: biological replicates,technical replicates
Treatment summary:
 genotype  treated or untreated  infection site  time  # replicates
 V71-370  P.sojae inoculated  above and below infection  24 hai  4
 V71-370  P.sojae inoculated  above and below infection  48 hai  4
 V71-370  P.sojae inoculated  above and below infection  72 hai  0
 V71-370  P.sojae inoculated  above and below infection  120 hai  0
 V71-370  P.sojae inoculated  above infection  24 hai  0
 V71-370  P.sojae inoculated  above infection  48 hai  0
 V71-370  P.sojae inoculated  above infection  72 hai  4
 V71-370  P.sojae inoculated  above infection  120 hai  4
 V71-370  P.sojae inoculated  below infection  24 hai  0
 V71-370  P.sojae inoculated  below infection  48 hai  0
 V71-370  P.sojae inoculated  below infection  72 hai  4
 V71-370  P.sojae inoculated  below infection  120 hai  4
 V71-370  mock inoculated  above and below infection  24 hai  4
 V71-370  mock inoculated  above and below infection  48 hai  4
 V71-370  mock inoculated  above and below infection  72 hai  4
 V71-370  mock inoculated  above and below infection  120 hai  4
 V71-370  mock inoculated  above infection  24 hai  0
 V71-370  mock inoculated  above infection  48 hai  0
 V71-370  mock inoculated  above infection  72 hai  0
 V71-370  mock inoculated  above infection  120 hai  0
 V71-370  mock inoculated  below infection  24 hai  0
 V71-370  mock inoculated  below infection  48 hai  0
 V71-370  mock inoculated  below infection  72 hai  0
 V71-370  mock inoculated  below infection  120 hai  0
 Conrad  P.sojae inoculated  above and below infection  24 hai  4
 Conrad  P.sojae inoculated  above and below infection  48 hai  4
 Conrad  P.sojae inoculated  above and below infection  72 hai  0
 Conrad  P.sojae inoculated  above and below infection  120 hai  0
 Conrad  P.sojae inoculated  above infection  24 hai  0
 Conrad  P.sojae inoculated  above infection  48 hai  0
 Conrad  P.sojae inoculated  above infection  72 hai  4
 Conrad  P.sojae inoculated  above infection  120 hai  4
 Conrad  P.sojae inoculated  below infection  24 hai  0
 Conrad  P.sojae inoculated  below infection  48 hai  0
 Conrad  P.sojae inoculated  below infection  72 hai  4
 Conrad  P.sojae inoculated  below infection  120 hai  4
 Conrad  mock inoculated  above and below infection  24 hai  4
 Conrad  mock inoculated  above and below infection  48 hai  4
 Conrad  mock inoculated  above and below infection  72 hai  4
 Conrad  mock inoculated  above and below infection  120 hai  4
 Conrad  mock inoculated  above infection  24 hai  0
 Conrad  mock inoculated  above infection  48 hai  0
 Conrad  mock inoculated  above infection  72 hai  0
 Conrad  mock inoculated  above infection  120 hai  0
 Conrad  mock inoculated  below infection  24 hai  0
 Conrad  mock inoculated  below infection  48 hai  0
 Conrad  mock inoculated  below infection  72 hai  0
 Conrad  mock inoculated  below infection  120 hai  0
 Sloan  P.sojae inoculated  above and below infection  24 hai  4
 Sloan  P.sojae inoculated  above and below infection  48 hai  4
 Sloan  P.sojae inoculated  above and below infection  72 hai  0
 Sloan  P.sojae inoculated  above and below infection  120 hai  0
 Sloan  P.sojae inoculated  above infection  24 hai  0
 Sloan  P.sojae inoculated  above infection  48 hai  0
 Sloan  P.sojae inoculated  above infection  72 hai  4
 Sloan  P.sojae inoculated  above infection  120 hai  4
 Sloan  P.sojae inoculated  below infection  24 hai  0
 Sloan  P.sojae inoculated  below infection  48 hai  0
 Sloan  P.sojae inoculated  below infection  72 hai  4
 Sloan  P.sojae inoculated  below infection  120 hai  4
 Sloan  mock inoculated  above and below infection  24 hai  4
 Sloan  mock inoculated  above and below infection  48 hai  4
 Sloan  mock inoculated  above and below infection  72 hai  4
 Sloan  mock inoculated  above and below infection  120 hai  4
 Sloan  mock inoculated  above infection  24 hai  0
 Sloan  mock inoculated  above infection  48 hai  0
 Sloan  mock inoculated  above infection  72 hai  0
 Sloan  mock inoculated  above infection  120 hai  0
 Sloan  mock inoculated  below infection  24 hai  0
 Sloan  mock inoculated  below infection  48 hai  0
 Sloan  mock inoculated  below infection  72 hai  0
 Sloan  mock inoculated  below infection  120 hai  0
 VP-RIL9  P.sojae inoculated  above and below infection  24 hai  4
 VP-RIL9  P.sojae inoculated  above and below infection  48 hai  4
 VP-RIL9  P.sojae inoculated  above and below infection  72 hai  0
 VP-RIL9  P.sojae inoculated  above and below infection  120 hai  0
 VP-RIL9  P.sojae inoculated  above infection  24 hai  0
 VP-RIL9  P.sojae inoculated  above infection  48 hai  0
 VP-RIL9  P.sojae inoculated  above infection  72 hai  4
 VP-RIL9  P.sojae inoculated  above infection  120 hai  4
 VP-RIL9  P.sojae inoculated  below infection  24 hai  0
 VP-RIL9  P.sojae inoculated  below infection  48 hai  0
 VP-RIL9  P.sojae inoculated  below infection  72 hai  4
 VP-RIL9  P.sojae inoculated  below infection  120 hai  4
 VP-RIL9  mock inoculated  above and below infection  24 hai  4
 VP-RIL9  mock inoculated  above and below infection  48 hai  4
 VP-RIL9  mock inoculated  above and below infection  72 hai  4
 VP-RIL9  mock inoculated  above and below infection  120 hai  4
 VP-RIL9  mock inoculated  above infection  24 hai  0
 VP-RIL9  mock inoculated  above infection  48 hai  0
 VP-RIL9  mock inoculated  above infection  72 hai  0
 VP-RIL9  mock inoculated  above infection  120 hai  0
 VP-RIL9  mock inoculated  below infection  24 hai  0
 VP-RIL9  mock inoculated  below infection  48 hai  0
 VP-RIL9  mock inoculated  below infection  72 hai  0
 VP-RIL9  mock inoculated  below infection  120 hai  0
Total hybridizations: 160
Description: Four selected soybean genotypes with varying degrees of quantitative resistance that were well-characterized were selected for this study. These included two resistant genotypes (V71-370, Conrad), and two susceptible genotypes (Sloan, and VP-RIL9). A P. sojae isolate, PT2004C2.S1 , which is virulent to the soybean genotypes carrying Rps1a, Rps1b, Rps1k, Rps2, Rps3a, Rps3c, Rps4, Rps5, Rps6, or Rps7, was used in this study.

Experimental Design

The experiment was repeated four times.
Factors assayed included:

Genotype: 4 genotypes (V71-370, Conrad, Sloan, and VP-RIL9)
Treatment: pathogen-inoculated vs. mock-inoculated
Sampling time: 1, 2, 3 and 5dpi
Sampling sites: Upper section and Lower section (for 3dpi and 5dpi pathogen-inoculated samples only) vs whole section (for all the mock-inoculated samples at all time points, and the inoculated samples at 1and 2dpi).

Inoculation Assay

Inoculation assays were performed using the slant board technique (Olah and Schmitthenner, 1985). Briefly, 7-day-old soybean seedlings were thoroughly rinsed under tap water and placed in an inoculation tray (10 plants per tray, 3 trays per inoculation replication). The plants were wounded at 2 cm below the beginning of the root zone by scraping the epidermis with a scalpel and then inoculated with a mycelial slurry from a 7-day-old culture or agar alone. Samples of root tissues were collected from 7.5 mm below (for lower sections) and above (for upper sections) the lesion margin from each seedling with characteristic lesions. For the mock-inoculated plants, tissue sections were taken 7.5 mm below and above (for whole sections) the position corresponding to the average lesion length measured from the inoculated samples.
For each experimental replication, 2 replicates of 30 seedlings per condition were inoculated and harvested separately. All the plants for an experiment were grown in the same environmental growth chamber (Chagrin Falls, Ohio; Model M-48 with TC2 microcontroller unit) with day and night temperatures settings of 27C and 21C and relative humidity averaging 75 to 90%.
Publication: none
Created: 2007-11-26 09:00:21
Last Update: 2008-01-21 13:51:51
GEO Accession GSE9687
Submitter: Sucheta Tripathy
Name: Brett Tyler
Institution: virginia Bioinformatics Institute
Head of Laboratory: Bruno Sobral
email(s):
Homepage:

 
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