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KMID : 0578320120330040385
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Molecules and Cells
2012 Volume.33 No. 4 p.385 ~ p.392
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A Genome-Wide Comparison of NB-LRR Type of Resistance Gene Analogs (RGA) in the Plant Kingdom
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Kim Jung-Eun
Lim Chan-Ju
Lee Bong-Woo
Choi Jae-Pil
Oh Sang-Keun
Raza Ahmad
Suk-Yoon Kwon
Ahn Ji-Sook
Hur Cheol-Goo
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Abstract
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Plants express resistance (R) genes to recognize invad-ers and prevent the spread of pathogens. To analyze nucleotide binding site, leucine-rich repeat (NB-LRR) genes, we constructed a fast pipeline to predict and classify the R gene analogs (RGAs) by applying in-house matrices. With predicted ~37,000 RGAs, we can directly compare RGA contents across entire plant lineages, from green algae to flowering plants. We focused on the highly divergent NB-LRRs in land plants following the emergence of mosses. We identified entire loss of Toll/Interleukin-1 receptor, NB-LRR (TNL) in Poaceae family of monocots and interestingly from Mimulus guttatus (a dicot), which leads to the possibility of species-specific TNL loss in other sequen-ced flowering plants. Using RGA maps, we have elucidated a positive correlation between the cluster sizes of NB-LRRs and their numbers. The cluster members were observed to consist of the same class of NB-LRRs or their variants, which were probably generated from a single locus for an R gene. Our website (http://sol.kribb.re.kr/PRGA/), called plant resistance gene analog (PRGA), provides useful infor-mation, such as RGA annotations, tools for predicting RGAs, and analyzing domain profiles. Therefore, PRGA provides new insights into R-gene evolution and is useful in applying RGA as markers in breeding and or systematic studies.
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KEYWORD
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NB-LRR, NB-LRR cluster, plant genome, RGA, RGA map
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