Genome-wide identification of NBS resistance genes in Populus trichocarpa
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As the largest class of disease resistance R genes, the genes encoding nucleotide binding site and leucine-rich repeat proteins (“NBS-LRR genes”) play a critical role in defending plants from a multitude of pathogens and pests. The diversity of NBS-LRR genes was examined in the Populus trichocarpa draft genome sequence. The NBS class of genes in this perennial tree is large and diverse, comprised of ∼400 genes, at least twice the complement of Arabidopsis. The NBS family can be divided into multiple subfamilies with distinct domain organizations. It includes 119 Coiled-Coil-NBS-LRR genes, 64 TIR-NBS-LRR genes, 34 BED-finger-NBS-LRR, and both truncated and unusual NBS- and NBS-LRR-containing genes. The transcripts of only 34 NBS-LRR genes were detected in rust-infected and non-infected leaves using a whole-genome oligoarray. None showed an altered expression two days post inoculation.
KeywordsPopulus NBS-LRR Resistance
The Populus genome sequence data was produced by the US Department of Energy Joint Genome Institute (http://www.jgi.doe.gov/). We thank Daniel Rokshar and the other members of the Populus sequencing project at the JGI, and Jerry Tuskan (Oak Ridge National Laboratory) for permission to use the draft genome sequence before publication. Thanks to Uffe Hellsten and Stephen DiFazio for the duplication dataset. Annegret Kohler was supported by Postdoctoral Fellowships from the INRA, the Région Lorraine and the EU POPYOMICS FP6 programme. Cécile Rinaldi was supported by a joint doctoral scholarship from the INRA and the Région Lorraine and Sébastien Duplessis was supported by a junior scientist support grant from the Région Lorraine. Marie Baucher is a Research Associate from the Belgian National Funds for the Scientific Research (FNRS). This work received support from the INRA and the Belgian ‘Fonds de la Recherche Fondamentale Collective’ (No. 2.4524.02). The EST ub48dpf09 containing the NLS region was kindly provided by Dr. Stefan Jansson (Umea Plant Genetic Center, Umeå, Sweden).
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