文献类型： 外文期刊

作者： Li, Lingfei ¹ ; Chen, Xiaoli ² ; Fang, Dongming ² ; Dong, Shanshan ¹ ; Guo, Xing ² ; Li, Na ¹ ; Campos-Dominguez, Lucia ³ ; Wang, Wenguang ⁵ ; Liu, Yang ¹ ; Lang, Xiaoan ¹ ; Peng, Yang ¹ ; Tian, Daike ⁷ ; Thomas, Daniel C. ⁸ ; Mu, Weixue ² ; Liu, Min ² ; Wu, Chenyu ² ; Yang, Ting ² ; Zhang, Suzhou ¹ ; Yang, Leilei ¹ ; Yang, Jianfen ¹ ; Liu, Zhong-Jian ⁹ ; Zhang, Liangsheng ⁹ ; Zhang, Xingtan ⁹ ; Chen, Fei ¹⁰ ; Jiao, Yuannian ¹¹ ; Guo, Yalong ¹¹ ; Hughes, Mark ³ ; Wang, Wei ¹¹ ; Liu, Xiaofei ¹³ ; Zhong, Chunmei ¹⁴ ; Li, Airong ¹⁵ ; Sahu, Sunil Kumar ² ; Yang, Huanming ² ; Wu, Ernest ¹⁶ ; Sharbrough, Joel ¹⁷ ; Lisby, Michael ¹⁸ ; Liu, Xin ² ; Xu, Xun ² ; Soltis, Douglas E. ²¹ ; Van de Peer, Yves ¹⁰ ; Kidner, Catherine ³ ; Zhang, Shouzhou ¹ ; Liu, Huan ² ;

作者机构： 1.Shenzhen & Chinese Acad Sci, Key Lab Southern Subtrop Plant Divers, Fairy Lake Bot Garden, Shenzhen 518004, Peoples R China

2.BGI Shenzhen, State Key Lab Agr Genom, Shenzhen 518083, Peoples R China

3.Univ Edinburgh, Inst Mol Plant Sci, Daniel Rutherford Bldg Max Born Crescent, Edinburgh EH9 3BF, Midlothian, Scotland

4.Royal Bot Garden Edinburgh, 20a Inverleith Row, Edinburgh EH3 5LR, Midlothian, Scotland

5.Chinese Acad Sci, Xishuangbanna Trop Bot Garden, Mengla 666303, Yunnan, Peoples R China

6.Nanning Bot Garden, Nanning 530021, Peoples R China

7.Chinese Acad Sci, Shanghai Chenshan Bot Garden, Shanghai Chenshan Plant Sci Res Ctr, Shanghai 201602, Peoples R China

8.Singapore Bot Gardens, Singapore 259569, Singapore

9.Fujian Agr & Forestry Univ, Key Lab Natl Forestry & Grassland Adm Orchid Cons, Fuzhou 350002, Peoples R China

10.Nanjing Agr Univ, Acad Adv Interdisciplinary Studies, Coll Hort, Nanjing 210095, Peoples R China

11.Univ Chinese Acad Sci, Beijing 100049, Peoples R China

12.Chinese Acad Sci, Inst Bot, State Key Lab Systemat & Evolutionary Bot, Beijing 100093, Peoples R China

13.Guangdong Acad Agr Sci, Environm Hort Res Inst, Guangzhou 510640, Peoples R China

14.South China Agr Univ, Coll Forestry & Landscape Architecture, Key Lab Energy Plants Resource & Utilizat, Minist Agr, Guangzhou 510642, Peoples R China

15.Chinese Acad Sci, Kunming Inst Bot, CAS Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Yunnan, Peoples R China

16.Univ British Columbia, Dept Biol, Vancouver, BC V6T 1Z4, Canada

17.New Mexico Inst Min & Technol, Biol Dept, Socorro, NM 87801 USA

18.Univ Copenhagen, Dept Biol, DK-2100 Copenhagen, Denmark

19.BGI Shenzhen, BGI Fuyang, Fuyang 236009, Peoples R China

20.BGI Shenzhen, Guangdong Prov Key Lab Genome Read & Write, Shenzhen 518083, Peoples R China

21.Univ Florida, Florida Museum Nat Hist, Gainesville, FL 32611 USA

22.Univ Ghent, Dept Plant Biotechnol & Bioinformat, B-9052 Ghent, Belgium

23.Ctr Plant Syst Biol VIB, B-9052 Ghent, Belgium

24.Univ Pretoria, Ctr Microbial Ecol & Genom CMEG, Dept Biochem Genet & Microbiol, ZA-0028 Hatfield, South Africa

关键词： Begonia; evolution; genomes; introgression; shade adaptation; whole-genome duplication

期刊名称：NEW PHYTOLOGIST （ 影响因子：10.323； 五年影响因子：10.768 ）

ISSN： 0028-646X

年卷期： 2022 年 234 卷 1 期

页码：

收录情况： SCI

摘要： Clarifying the evolutionary processes underlying species diversification and adaptation is a key focus of evolutionary biology. Begonia (Begoniaceae) is one of the most species-rich angiosperm genera with c. 2000 species, most of which are shade-adapted. Here, we present chromosome-scale genome assemblies for four species of Begonia (B. loranthoides, B. masoniana, B. darthvaderiana and B. peltatifolia), and whole genome shotgun data for an additional 74 Begonia representatives to investigate lineage evolution and shade adaptation of the genus. The four genome assemblies range in size from 331.75 Mb (B. peltatifolia) to 799.83 Mb (B. masoniana), and harbor 22 059-23 444 protein-coding genes. Synteny analysis revealed a lineage-specific whole-genome duplication (WGD) that occurred just before the diversification of Begonia. Functional enrichment of gene families retained after WGD highlights the significance of modified carbohydrate metabolism and photosynthesis possibly linked to shade adaptation in the genus, which is further supported by expansions of gene families involved in light perception and harvesting. Phylogenomic reconstructions and genomics studies indicate that genomic introgression has also played a role in the evolution of Begonia. Overall, this study provides valuable genomic resources for Begonia and suggests potential drivers underlying the diversity and adaptive evolution of this mega-diverse clade.