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J Integr Plant Biol, 2016, 58 (2): 165-177, Research Article
Uncovering the dynamic evolution of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes in Brassicaceae
Yan-Mei Zhang1,2†, Zhu-Qing Shao1†, Qiang Wang1, Yue-Yu Hang2, Jia-Yu Xue2, Bin Wang1* and Jian-Qun Chen1*
1State Key Laboratory of Pharmaceutical Biotechnology, Center of Plant Genetics and Molecular Evolution, School of Life Sciences, Nanjing University, Nanjing 210023, China
2Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China
These authors contributed equally to this work.
**Correspondences: E-mail: chenjq@nju.edu.cn; binwang@nju.edu.cn
doi: 10.1111/jipb.12365
Abstract

Plant genomes harbor dozens to hundreds of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes; however, the long-term evolutionary history of these resistance genes has not been fully understood. This study focuses on five Brassicaceae genomes and the Carica papaya genome to explore changes in NBS-LRR genes that have taken place in this Rosid II lineage during the past 72 million years. Various numbers of NBS-LRR genes were identified from Arabidopsis lyrata (198), A. thaliana (165), Brassica rapa (204), Capsella rubella (127), Thellungiella salsuginea (88), and C. papaya (51). In each genome, the identified NBS-LRR genes were found to be unevenly distributed among chromosomes and most of them were clustered together. Phylogenetic analysis revealed that, before and after Brassicaceae speciation events, both toll/interleukin-1 receptor-NBS-LRR (TNL) genes and non-toll/interleukin-1 receptor-NBS-LRR (nTNL) genes exhibited a pattern of first expansion and then contraction, suggesting that both subclasses of NBS-LRR genes were responding to pathogen pressures synchronically. Further, by examining the gain/loss of TNL and nTNL genes at different evolutionary nodes, this study revealed that both events often occurred more drastically in TNL genes. Finally, the phylogeny of nTNL genes suggested that this NBS-LRR subclass is composed of two separate ancient gene types: RPW8-NBS-LRR and Coiled-coil-NBS-LRR.

 

Zhang YM, Shao ZQ, Wang Q, Hang YY, Xue JY, Wang B, Chen JQ (2016) Uncovering the dynamic evolution of nucleotide-binding site-leucine-rich repeat (NBS-LRR) genes in Brassicaceae. J Integr Plant Biol 58: 165–177 doi: 10.1111/jipb.12365

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Received: 31 March 2015      Accepted:    Online on:
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