Search   for 
Find Your Gene ·  Publications ·  Tools ·  Gene List Suite ·  Expression Atlases ·  About PLEXdb ·  Feedback
Login ID:
Password:
Plants
Arabidopsis
Barley
Brachypodium
Citrus
Cotton
Grape
Maize
Medicago
Poplar
Rice
Soybean
Sugarcane
Tomato
Wheat
Pathogens & Symbionts
Search Experiments
Download Data
Gene List Suite
Tools
Your Account
Documentation
News
Personnel
Links
 Data Release Policy 
PLEXdb is committed to making expression data publicly available to researchers world-wide...
complete policy
 

Browse SoyPLEX Experiment Data

Choose an experiment:
Gene expression in Phytophthora sojae mycelia, germinating zoospores, and during infection of soybean hypocotyls
Mark Gijzen, Agriculture and Agri-Food Canada, London, Canada (mark.gijzen@agr.gc.ca)
Experiment design (28 hybridizations)
tissue type name
•Germinating zoospores 0h •Germinating zoospores 2h •Germinating zoospores 6h •Mycelia H&Smedia •Mycelia V8media •Infected hypocotyls 6h •Infected hypocotyls 12h •Infected hypocotyls 24h •Infected hypocotyls 48h

This experiment has been imported by PLEXdb from NCBI GEO (GSE15100) Series_summary: Total RNA extracted from Phytophthora sojae (strain P6497...[complete overview]

Experiment     Expression     Hybridizations & Samples     Quality Control     Compare Treatments     Downloads    

Show
Experiment Name: Gene expression in Phytophthora sojae mycelia, germinating zoospores, and during infection of soybean hypocotyls
Accession No: GM27
Microarray: Soybean
Visibility: public
Experiment Type:
Experiment Factor(s):
tissue type name
•Germinating zoospores 0h   •Germinating zoospores 2h   •Germinating zoospores 6h   •Mycelia H&Smedia   •Mycelia V8media   •Infected hypocotyls 6h   •Infected hypocotyls 12h   •Infected hypocotyls 24h   •Infected hypocotyls 48h
Quality Control: biological replicates
Treatment summary:
 tissue type name  # replicates
 Germinating zoospores 0h  2
 Germinating zoospores 2h  3
 Germinating zoospores 6h  3
 Mycelia H&Smedia  3
 Mycelia V8media  3
 Infected hypocotyls 6h  3
 Infected hypocotyls 12h  3
 Infected hypocotyls 24h  3
 Infected hypocotyls 48h  5
Total hybridizations: 28
Description: This experiment has been imported by PLEXdb from NCBI GEO (GSE15100)

Series_summary:
Total RNA extracted from Phytophthora sojae (strain P6497) and infected soybean hypocotyls (cultivar Harosoy) provided template for synthesis of cDNA probes used in the microarray hybridizations. Infected plant hypocotyls were sampled 6 h, 12 h, 24 h, and 48 h after inoculation. Mycelia were grown on synthetic media (H&S) or vegetable juice media (V8). Zoospores were sampled at 0 h, 2 h and 6 h after inducing encystment and germination by agitation.
We used microarrays to characterize gene expression patterns in the root rot pathogen Phytophthora sojae and its host Glycine max.

Keywords: infection time course, zoospore germination time course, media formulation response

Series_overall_design:
28 samples from 9 treatments; 2 to 5 biological replicates per treatment.

PLEXDb Curator's note:
This data set has been normalized with a custom CDF that combined the probe sets from Soybean and Phytophthora, in order to accomodate samples from both the species.
Publication: 'The Phytophthora sojae avirulence locus Avr3c encodes a multi-copy RXLR effector with sequence polymorphisms among pathogen strains.', Dong S, Qutob D, Tedman-Jones J, Kuflu K, Wang Y, Tyler BM, Gijzen M.
PLoS One 2009;4(5):e5556.
pubmed: 19440541
Created: 2011-04-19 13:14:13
Last Update: 2011-06-30 12:51:14
Released: 2011-06-30
GEO Accession GSE15100
Submitter: PLEXdb Curator
Name: Mark Gijzen
Institution: Agriculture and Agri-Food Canada, London, Canada
Head of Laboratory: Mark Gijzen
email(s):
Homepage:

 
Copyright@2001-2013 The PLEXdb Group
All rights reserved.

For problems with the webpages contact PLEXdb webmasters