caa a22 4500 445845333 CHVBK 20180317145357.0 cr unu---uuuuu 170323e20111001xx s 000 0 eng 10.1007/s10709-011-9624-7 doi (NATIONALLICENCE)springer-10.1007/s10709-011-9624-7 Molecular evolution of a family of resistance gene analogs of nucleotide-binding site sequences in Solanum lycopersicum [Elektronische Daten] [Pei-Chun Liao, Kuan-Hung Lin, Chin-Ling Ko, Shih-Ying Hwang] Nucleotide-binding site-leucine-rich repeats (NBS-LRR) gene families are one of the major plant resistance genes. Genomic NBS evolution was studied in many plant species for diverse arrays of NBS gene families. In this study, we focused on one family of NBS sequences in an attempt to understand how closely related NBS sequences evolved in the light of selection in domesticated plant species. A phylogenetic analysis revealed five major clades (A-E) and five subclades (A1-A5) within clade A of cloned NBS sequences. Positive selection was only detected in newly evolved NBS lineages in subclades of clade A. Positively selected codon sites were found among NBS sequences of clade A. A sliding-window analysis revealed that regions with Ka/Ks ratios of >1 were in the inter-motifs when paired clades were compared, but regions with Ka/Ks ratios of >1 were found across NBS sequences when subclades of clade A were compared. Our results based on a family of closely related NBS sequences showed that positive selection was first exerted on specific lineages across all NBS sequences after selective constraints. Subsequently, sequences with mutations in commonly conserved motifs were scrutinized by purifying selection. In the long term, conserved high frequency alleles in commonly conserved motifs and changes in inter-motifs were maintained in the investigated family of NBS sequences. Moreover, codons identified to be under positive selection in the inter-motifs were mainly located in regions involved in functions of ATP binding or hydrolysis. Springer Science+Business Media B.V., 2011 NBS sequences nationallicence Positive selection nationallicence Resistance gene analogs nationallicence Solanum lycopersicum nationallicence Liao Pei-Chun Department of Biological Science and Technology, Pingtung University of Science and Technology, 91201, Pingtung, Taiwan, ROC aut Lin Kuan-Hung Graduate Institute of Biotechnology, Chinese Culture University, 11114, Taipei, Taiwan, ROC aut Ko Chin-Ling Graduate Institute of Biotechnology, Chinese Culture University, 11114, Taipei, Taiwan, ROC aut Hwang Shih-Ying Department of Life Science, National Taiwan Normal University, 11677, Taipei, Taiwan, ROC aut Genetica Springer Netherlands 139/10(2011-10-01), 1229-1240 0016-6707 139:10<1229 2011 139 10709 https://doi.org/10.1007/s10709-011-9624-7 text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s10709-011-9624-7 text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Liao Pei-Chun Department of Biological Science and Technology, Pingtung University of Science and Technology, 91201, Pingtung, Taiwan, ROC aut NATIONALLICENCE 700 1- Lin Kuan-Hung Graduate Institute of Biotechnology, Chinese Culture University, 11114, Taipei, Taiwan, ROC aut NATIONALLICENCE 700 1- Ko Chin-Ling Graduate Institute of Biotechnology, Chinese Culture University, 11114, Taipei, Taiwan, ROC aut NATIONALLICENCE 700 1- Hwang Shih-Ying Department of Life Science, National Taiwan Normal University, 11677, Taipei, Taiwan, ROC aut NATIONALLICENCE 773 0- Genetica Springer Netherlands 139/10(2011-10-01), 1229-1240 0016-6707 139:10<1229 2011 139 10709 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer