Natural variation, functional divergence, and local adaptation of nucleotide binding site sequences in Rhododendron (Ericaceae)

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題名:	Natural variation, functional divergence, and local adaptation of nucleotide binding site sequences in Rhododendron (Ericaceae)
作者:	Liao, PC (Liao, Pei-Chun) Chung, JD (Chung, Jeng-Der) Chen, CL (Chen, Chia-Ling) Hwang, CJ (Hwang, Chiun-Jr) Sung, YH (Sung, Ya-Hsiu) Chang, YT (Chang, Yung-Ta) Hwang, SY (Hwang, Shih-Ying)
貢獻者:	Grad Inst Biotechnol
關鍵詞:	Functional divergence Local adaptation Nucleotide-binding-site domain Rhododendron Positive selection
日期:	2012-08
上傳時間:	2013-02-20 11:03:00 (UTC+8)
摘要:	To further understand natural variation and local adaptation in the evolution of plant defense, we analyzed polymorphism data of nucleotide-binding site (NBS) sequences of Rhododendron at both the species and population levels. Multiple duplication events were found in NBS sequence evolution in Rhododendron genomes, which resulted in six clades: A-F. Our results of several NBS clade pair comparisons showed significant evolutionary rate changes based on differences in substitution rates between NBS-encoding protein clades (type I functional divergence). Pairwise comparisons of NBS clades further revealed that many amino acids displayed radical biochemical property changes causing a shift in amino acid preferences between NBS-encoding protein clades (type II functional divergence). Such divergent evolution of NBSs is likely a consequence of positive selection related to differentiation of recognition signals in response to different pathogens. Primers specific to clades B and C, which differed in the number of radical amino acid changes causing type II functional divergence and levels of nucleotide diversities, were further used to amplify population clades B and C NBS sequences of Rhododendron formosanum populations. Higher levels of net nucleotide divergences (measured by D (a)) between R. formosanum populations were found based on NBS sequences of population clade B compared to population clade C, suggesting local adaptation of population clade B NBS sequences. Local adaptation can be further inferred for R. formosanum population clade B NBS sequences because of significant I broken vertical bar (ST) based on variation in nonsynonymous substitutions. Furthermore, local adaptation was also suggested by no significant correlation of population pairwise F (ST) between population clades B and C in R. formosanum.
關聯:	TREE GENETICS & GENOMES 卷: 8 期: 4 頁數: 879-893
顯示於類別:	[生物科技研究所 ] 期刊論文

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