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Protocols in ecological and environmental plant physiology

 

Article << Previous     |     Next >>   Contents Vol 40(10)

Transcriptome analyses and virus induced gene silencing identify genes in the Rpp4-mediated Asian soybean rust resistance pathway

Aguida M. A. P. Morales A , Jamie A. O’Rourke B , Martijn van de Mortel C , Katherine T. Scheider D , Timothy J. Bancroft E , Aluízio Borém A , Rex T. Nelson F , Dan Nettleton E , Thomas J. Baum C , Randy C. Shoemaker F , Reid D. Frederick D , Ricardo V. Abdelnoor G , Kerry F. Pedley D , Steven A. Whitham C and Michelle A. Graham F H I

A Universidade Federal de Viçosa, Departamento de Fitotecnia, 36.570-000, Viçosa, MG, Brazil.
B USDA-Agricultural Research Service, Plant Science Research Unit, Saint Paul, MN 55108, USA.
C Department of Plant Pathology and Microbiology, Iowa State University, Ames, IA 50014, USA.
D USDA- Agricultural Research Service, Foreign Disease-Weed Science Research Unit, Fort Detrick, MA 21702, USA.
E Department of Statistics, Iowa State University, Ames, IA 50014, USA.
F USDA-Agricultural Research Service, Corn Insects and Crop Genetics Research Unit, Ames, IA 50014, USA.
G Laboratório de Biotecnologia Vegetal e Bioinformática, Embrapa Soja, Rod. Carlos João Strass, 86001-970, Londrina – PR, Brazil.
H Department of Agronomy, Iowa State University, Ames, IA 50014, USA.
I Corresponding author. Email: michelle.graham@ars.usda.gov

Functional Plant Biology 40(10) 1029-1047 http://dx.doi.org/10.1071/FP12296
Submitted: 5 October 2012  Accepted: 12 January 2013   Published: 15 July 2013


 
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Abstract

Rpp4 (Resistance to Phakopsora pachyrhizi 4) confers resistance to Phakopsora pachyrhizi Sydow, the causal agent of Asian soybean rust (ASR). By combining expression profiling and virus induced gene silencing (VIGS), we are developing a genetic framework for Rpp4-mediated resistance. We measured gene expression in mock-inoculated and P. pachyrhizi-infected leaves of resistant soybean accession PI459025B (Rpp4) and the susceptible cultivar (Williams 82) across a 12-day time course. Unexpectedly, two biphasic responses were identified. In the incompatible reaction, genes induced at 12 h after infection (hai) were not differentially expressed at 24 hai, but were induced at 72 hai. In contrast, genes repressed at 12 hai were not differentially expressed from 24 to 144 hai, but were repressed 216 hai and later. To differentiate between basal and resistance-gene (R-gene) mediated defence responses, we compared gene expression in Rpp4-silenced and empty vector-treated PI459025B plants 14 days after infection (dai) with P. pachyrhizi. This identified genes, including transcription factors, whose differential expression is dependent upon Rpp4. To identify differentially expressed genes conserved across multiple P. pachyrhizi resistance pathways, Rpp4 expression datasets were compared with microarray data previously generated for Rpp2 and Rpp3-mediated defence responses. Fourteen transcription factors common to all resistant and susceptible responses were identified, as well as fourteen transcription factors unique to R-gene-mediated resistance responses. These genes are targets for future P. pachyrhizi resistance research.

Additional keywords: defence, genomics, resistant genes, Rpp4, soybean.


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