The complex genome and adaptive evolution of polyploid Chinese pepper (Zanthoxylum armatum and Zanthoxylum bungeanum)
文献类型： 外文期刊
作者： Hu, Lisong 1 ; Xu, Zhongping 1 ; Fan, Rui 1 ; Wang, Guanying 4 ; Wang, Fuqiu 4 ; Qin, Xiaowei 1 ; Yan, Lin 1 ; Ji, Xunzhi 1 ; Meng, Minghui 5 ; Sim, Soonliang 6 ; Chen, Wei 4 ; Hao, Chaoyun 1 ; Wang, Qinghuang 1 ; Zhu, Huaguo 7 ; Zhu, Shu 8 ; Xu, Pan 5 ; Zhao, Hui 9 ; Lindsey, Keith 11 ; Daniell, Henry 12 ; Wendel, Jonathan F. 13 ; Jin, Shuangxia 4 ;
作者机构： 1.Chinese Acad Trop Agr Sci, Spice & Beverage Res Inst, Wanning, Peoples R China
2.Minist Agr Key Lab Genet Resources Utilizat Spice, Wanning, Peoples R China
3.Key Lab Genet Improvement & Qual Regulat Trop Spi, Wanning, Peoples R China
4.Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Wuhan, Peoples R China
5.Lanzhou Univ, Sch Life Sci, State Key Lab Grassland & Agroecosyst, Lanzhou, Peoples R China
6.Acad Sci Malaysia, Kuala Lumpur, Malaysia
7.Huanggang Normal Univ, Coll Biol & Agr Resources, Huanggang, Hubei, Peoples R China
8.Jinjiaohong Agr Technol Grp Corp, Jinjiaohong Spice Res Inst, Nanjing, Peoples R China
9.Hainan Key Lab Biosafety Monitoring & Mol Breedin, Haikou, Hainan, Peoples R China
10.Chinese Acad Trop Agr Sci, Sanya Res Inst, Sanya, Peoples R China
11.Univ Durham, Dept Biosci, Durham, England
12.Univ Penn, Sch Dent Med, Dept Biochem, Philadelphia, PA 19104 USA
13.Iowa State Univ, Dept Ecol Evolut & Organismal Biol, Ames, IA USA
关键词： Chinese pepper (Zanthoxylum armatum and Zanthoxylum bungeanum); polyploid; identified subgenomes; phenotypic innovation; adaptive evolution
期刊名称：PLANT BIOTECHNOLOGY JOURNAL （ 影响因子：13.263； 五年影响因子：11.619 ）
ISSN： 1467-7644
年卷期：
页码：
收录情况： SCI
摘要： Zanthoxylum armatum and Zanthoxylum bungeanum, known as 'Chinese pepper', are distinguished by their extraordinary complex genomes, phenotypic innovation of adaptive evolution and species-special metabolites. Here, we report reference-grade genomes of Z. armatum and Z. bungeanum. Using high coverage sequence data and comprehensive assembly strategies, we derived 66 pseudochromosomes comprising 33 homologous phased groups of two subgenomes, including autotetraploid Z. armatum. The genomic rearrangements and two whole-genome duplications created large (similar to 4.5 Gb) complex genomes with a high ratio of repetitive sequences (>82%) and high chromosome number (2n = 4x = 132). Further analysis of the high-quality genomes shed lights on the genomic basis of involutional reproduction, allomones biosynthesis and adaptive evolution in Chinese pepper, revealing a high consistent relationship between genomic evolution, environmental factors and phenotypic innovation. Our study provides genomic resources and new insights for investigating diversification and phenotypic innovation in Chinese pepper, with broader implications for the protection of plants under severe environmental changes.
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