The impact of tandem duplication on gene evolution in Solanaceae species  

作　　者：HUANG Yi-le ZHANG Ling-kui ZHANG Kang CHEN Shu-min HU Jian-bin CHENG Feng 

机构地区：[1]College of Horticulture,Henan Agricultural University,Zhengzhou 450002,P.R.China [2]Institute of Vegetables and Flowers,Chinese Academy of Agricultural Sciences,Beijing 100097,P.R.China

出　　处：《Journal of Integrative Agriculture》2022年第4期1004-1014,共11页农业科学学报（英文版）

基　　金：supported by the National Natural Science Foundation of China(NSFC,31972411 and 31722048);the Program for Scientific and Technological Innovative Talents in Universities of Henan Province,China(20HASTIT035);the Science and Technology Innovation Program of the Chinese Academy of Agricultural Sciences;the Key Laboratory of Biology and Genetic Improvement of Horticultural Crops,Ministry of Agriculture and Rural Affairs,China。

摘　　要：Whole genome duplication(WGD) and tandem duplication(TD) are important modes of gene amplification and functional innovation, and they are common in plant genome evolution. We analyzed the genomes of three Solanaceae species(Solanum lycopersicum, Capsicum annuum, and Petunia inflata), which share a common distant ancestor with Vitis vinifera, Theobroma cacao, and Coffea canephora but have undergone an extra whole genome triplication(WGT) event. The analysis was used to investigate the phenomenon of tandem gene evolution with(S. lycopersicum) or without WGT(V. vinifera). Among the tandem gene arrays in these genomes, we found that V. vinifera, which has not experienced the WGT event, retained relatively more and larger tandem duplicated gene(TDG) clusters than the Solanaceae species that experienced the WGT event. Larger TDG clusters tend to be derived from older TD events, so this indicates that continuous TDGs(absolute dosage) accumulated during long-term evolution. In addition, WGD and TD show a significant bias in the functional categories of the genes retained. WGD tends to retain dose-sensitive genes related to biological processes, including DNA-binding and transcription factor activity, while TD tends to retain genes involved in stress resistance. WGD and TD also provide more possibilities for gene functional innovation through gene fusion and fission. The TDG cluster containing the tomato fusarium wilt resistance gene I3 contains 15 genes, and one of these genes, Solyc07g055560, has undergone a fusion event after the duplication events. These data provide evidence that helps explain the new functionalization of TDGs in adapting to environmental changes.

关 键 词：tandem duplication whole genome duplication Solanaceae species gene retention gene fusion 

分 类 号：Q943[生物学—植物学]