The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes

被引：868

作者：

Liu, Shengyi ^{[1
]}

Liu, Yumei ^{[2
]}

Yang, Xinhua ^{[3
]}

Tong, Chaobo ^{[1
]}

Edwards, David ^{[4
]}

Parkin, Isobel A. P. ^{[5
]}

Zhao, Meixia ^{[1
,6
]}

Ma, Jianxin ^{[6
]}

Yu, Jingyin ^{[1
]}

Huang, Shunmou ^{[1
]}

Wang, Xiyin ^{[7
,8
,9
]}

Wang, Junyi ^{[3
]}

Lu, Kun ^{[10
]}

Fang, Zhiyuan ^{[2
]}

Bancroft, Ian ^{[11
]}

Yang, Tae-Jin ^{[12
,13
]}

Hu, Qiong ^{[1
]}

Wang, Xinfa ^{[1
]}

Yue, Zhen ^{[3
]}

Li, Haojie ^{[14
]}

Yang, Linfeng ^{[3
]}

Wu, Jian ^{[2
]}

Zhou, Qing ^{[3
]}

Wang, Wanxin ^{[2
]}

King, Graham J. ^{[15
]}

Pires, J. Chris ^{[16
]}

Lu, Changxin ^{[3
]}

Wu, Zhangyan ^{[3
]}

Sampath, Perumal ^{[12
,13
]}

Wang, Zhuo ^{[3
]}

Guo, Hui ^{[7
]}

Pan, Shengkai ^{[3
]}

Yang, Limei ^{[2
]}

Min, Jiumeng ^{[3
]}

Zhang, Dong ^{[7
]}

Jin, Dianchuan ^{[8
,9
]}

Li, Wanshun ^{[3
]}

Belcram, Harry ^{[17
]}

Tu, Jinxing ^{[18
]}

Guan, Mei ^{[19
]}

Qi, Cunkou ^{[20
]}

Du, Dezhi ^{[21
]}

Li, Jiana ^{[10
]}

Jiang, Liangcai ^{[14
]}

Batley, Jacqueline ^{[22
]}

Sharpe, Andrew G. ^{[23
]}

Park, Beom-Seok ^{[24
]}

Ruperao, Pradeep ^{[4
]}

Cheng, Feng ^{[2
]}

Waminal, Nomar Espinosa ^{[12
,13
,25
]}

机构：

[1] Chinese Acad Agr Sci, Oil Crops Res Inst, Key Lab Biol & Genet Improvement Oil Crops, Minist Agr PRC, Wuhan 430062, Peoples R China

[2] Chinese Acad Agr Sci, Inst Vegetables & Flowers, Key Lab Biol & Genet Improvement Hort Crops, Minist Agr, Beijing 10081, Peoples R China

[3] Beijing Genome Inst Shenzhen, Shenzhen 518083, Peoples R China

[4] Univ Queensland, Australian Ctr Plant Funct Genom, Sch Agr & Food Sci, Brisbane, Qld 4072, Australia

[5] Agr & Agri Food Canada, Saskatoon, SK S7N OX2, Canada

[6] Purdue Univ, Dept Agron, W Lafayette, IN 47907 USA

[7] Univ Georgia, Plant Genome Mapping Lab, Athens, GA 30605 USA

[8] Hebei United Univ, Ctr Genom & Computat Biol, Sch Life Sci, Tangshan 063000, Peoples R China

[9] Hebei United Univ, Sch Sci, Tangshan 063000, Peoples R China

[10] Southwest Univ, Coll Agron & Biotechnol, Chongqing 400715, Peoples R China

[11] Univ York, CNAP, Dept Biol, York YO10 5DD, N Yorkshire, England

[12] Seoul Natl Univ, Dept Plant Sci, Plant Genom & Breeding Inst, Seoul 151921, South Korea

[13] Seoul Natl Univ, Res Inst Agr & Life Sci, Coll Agr & Life Sci, Seoul 151921, South Korea

[14] Sichuan Acad Agr Sci, Chengdu 610066, Peoples R China

[15] So Cross Univ, Southern Cross Plant Sci, Lismore, NSW 2480, Australia

[16] Univ Missouri, Bond Life Sci Ctr, Columbia, MO 65211 USA

[17] Univ Evry Val dEssonne, Unite Rech Genom Vegetale, UMR 1165, INRA,CNRS, F-91057 Evry, France

[18] Huazhong Agr Univ, Natl Key Lab Crop Genet Improvement, Wuhan 430070, Peoples R China

[19] Hunan Agr Univ, Coll Agron, Changsha 410128, Hunan, Peoples R China

[20] Jiangsu Acad Agr Sci, Nanjing 210014, Jiangsu, Peoples R China

[21] Qinghai Acad Agr & Forestry Sci, Natl Key Lab Breeding Base Innovat & Utilizat Pla, Xining 810016, Peoples R China

[22] Univ Queensland, Australian Res Council Ctr Excellence Integrat Le, Brisbane, Qld 4072, Australia

[23] Natl Res Council Canada, Saskatoon, SK S7N 0W9, Canada

[24] RDA, Natl Acad Agr Sci, Agr Genome Ctr, Suwon 441707, South Korea

[25] Sahmyook Univ, Inst Plant Biotechnol, Dept Life Sci, Seoul 139742, South Korea

[26] South Cent Univ Nationality, Sch Life Sci, Wuhan 430074, Peoples R China

[27] CEA, Inst Genom, F-91057 Evry, France

[28] Univ Evry, CNRS, UMR 8030, CP5706, F-91057 Evry, France

[29] Univ Copenhagen, Dept Biol, DK-2200 Copenhagen, Denmark

[30] King Abdulaziz Univ, Jeddah 21589, Saudi Arabia

[31] Univ Hong Kong, Dept Med, Hong Kong, Hong Kong, Peoples R China

[32] Univ Hong Kong, State Key Lab Pharmaceut Biotechnol, Hong Kong, Hong Kong, Peoples R China

来源：

NATURE COMMUNICATIONS | 2014年 / 5卷

基金：

中国国家自然科学基金; 英国生物技术与生命科学研究理事会; 美国国家科学基金会; 澳大利亚研究理事会;

关键词：

WHOLE-GENOME; MAXIMUM-LIKELIHOOD; CHROMOSOME-NUMBER; GENE; DUPLICATION; PROGRAM; PLANT; DIVERSIFICATION; IDENTIFICATION; TRIPLICATION;

D O I：

10.1038/ncomms4930

中图分类号：

O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];

学科分类号：

07 ; 0710 ; 09 ;

摘要：

Polyploidization has provided much genetic variation for plant adaptive evolution, but the mechanisms by which the molecular evolution of polyploid genomes establishes genetic architecture underlying species differentiation are unclear. Brassica is an ideal model to increase knowledge of polyploid evolution. Here we describe a draft genome sequence of Brassica oleracea, comparing it with that of its sister species B. rapa to reveal numerous chromosome rearrangements and asymmetrical gene loss in duplicated genomic blocks, asymmetrical amplification of transposable elements, differential gene co-retention for specific pathways and variation in gene expression, including alternative splicing, among a large number of paralogous and orthologous genes. Genes related to the production of anticancer phytochemicals and morphological variations illustrate consequences of genome duplication and gene divergence, imparting biochemical and morphological variation to B. oleracea. This study provides insights into Brassica genome evolution and will underpin research into the many important crops in this genus.

引用

页数：11

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