2008
DOI: 10.1007/s10658-008-9271-8
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How can we exploit functional genomics approaches for understanding the nature of plant defences? Barley as a case study

Abstract: The concept 'functional genomics' refers to the methods used for the functional characterisation of genomes. The methods utilised provide new opportunities for studying the nature and role of defence mechanisms in plants. Unlike Arabidopsis, poplar and rice, the full genomic sequence of barley is not available. In this case, the analysis of barley gene expression data plays a pivotal role for obtaining insight into the functional characterisation of individual gene products. Many genes are activated transcript… Show more

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Cited by 10 publications
(7 citation statements)
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“…Whereas a number of defence genes were activated in response to Ph -infection, none was found to be a promising candidate for Rphq 2 or Rphq 3. Our results support the notion that components of the general defence response have incremental, rather than deterministic, roles in the outcome of an interaction between a plant and a pathogen [ 39 ]. Many attempts to identify genes for disease resistance have highlighted those involved in signal transduction [ 40 , 41 ] or physiological and cellular functions [ 42 , 43 ] rather than defence per se [ 44 , 45 ].…”
Section: Discussionsupporting
confidence: 86%
“…Whereas a number of defence genes were activated in response to Ph -infection, none was found to be a promising candidate for Rphq 2 or Rphq 3. Our results support the notion that components of the general defence response have incremental, rather than deterministic, roles in the outcome of an interaction between a plant and a pathogen [ 39 ]. Many attempts to identify genes for disease resistance have highlighted those involved in signal transduction [ 40 , 41 ] or physiological and cellular functions [ 42 , 43 ] rather than defence per se [ 44 , 45 ].…”
Section: Discussionsupporting
confidence: 86%
“…As the threshold we adopted for detection of Ph -responsive genes was stringent (fold change>2, FDR<0.05), it is likely that we would mostly detect highly differentially regulated genes involved in general defense responses. Individual components of the general defense response most often have incremental, rather than determinative, roles in the outcome of an interaction with a pathogen [58] . The observation that none of the eQTL hotspots overlapped with pQTL suggests that genes responsible for natural variation in partial resistance to Ph in this population are not trans- eQTL that control general defense responses.…”
Section: Discussionmentioning
confidence: 99%
“…hordei (Bgh) is one of the wellstudied examples of PTI as well as ETI, with several key loci and genes that mediate either response being known or cloned (Azevedo et al, 2002;Buschges et al, 1997;Shen et al, 2007;Shirasu et al, 1999;Zhou et al, 2001). The knowledge of the barleypowdery mildew interaction ranges from well-defined cytological interaction phenotypes including re-orientation of the cytoskeleton, membrane modifications, cell-wall appositions over a large number of race-specific major powdery mildew resistance (R) genes to the localization of a considerable number of QTL for race-nonspecific resistance to Bgh (Collinge et al, 2008;ThordalChristensen et al, 2000). The best studied major R gene is Mla (for Mildew resistance locus a) encoding a coiled-coil, nucleotidebinding-site, leucine-rich-repeat (CC-NBS-LRR) protein, of which over 30 alleles have been described until present (Wei et al, 2002).…”
Section: Introductionmentioning
confidence: 99%