Draft genome of the peanut A-genome progenitor (Arachis duranensis) provides insights into geocarpy, oil biosynthesis, and allergens

被引：181

作者：

Chen, Xiaoping ^{[1
]}

Li, Hongjie ^{[2
]}

Pandey, Manish K. ^{[3
]}

Yang, Qingli ^{[4
,5
]}

Wang, Xiyin ^{[6
]}

Garg, Vanika ^{[3
]}

Li, Haifen ^{[1
]}

Chi, Xiaoyuan ^{[4
]}

Doddamani, Dadakhalandar ^{[3
]}

Hong, Yanbin ^{[1
]}

Upadhyaya, Hari ^{[3
]}

Guo, Hui ^{[6
]}

Khan, Aamir W. ^{[3
]}

Zhu, Fanghe ^{[1
]}

Zhang, Xiaoyan ^{[2
]}

Pan, Lijuan ^{[4
]}

Pierce, Gary J. ^{[6
]}

Zhou, Guiyuan ^{[1
]}

Krishnamohan, Katta A. V. S. ^{[3
]}

Chen, Mingna ^{[4
]}

Zhong, Ni ^{[1
]}

Agarwal, Gaurav ^{[3
]}

Li, Shuanzhu ^{[2
]}

Chitikineni, Annapurna ^{[3
]}

Zhang, Guo-Qiang ^{[7
,8
]}

Sharma, Shivali ^{[3
]}

Chen, Na ^{[4
]}

Liu, Haiyan ^{[1
]}

Janila, Pasupuleti ^{[3
]}

Li, Shaoxiong ^{[1
]}

Wang, Min ^{[2
]}

Wang, Tong ^{[4
]}

Sun, Jie ^{[4
]}

Li, Xingyu ^{[1
]}

Li, Chunyan ^{[3
]}

Wang, Mian ^{[4
]}

Yu, Lina ^{[4
]}

Wen, Shijie ^{[1
]}

Singh, Sube ^{[3
]}

Yang, Zhen ^{[4
]}

Zhao, Jinming ^{[3
]}

Zhang, Chushu ^{[4
]}

Yu, Yue ^{[9
]}

Bi, Jie ^{[4
]}

Zhang, Xiaojun ^{[5
]}

Liu, Zhong-Jian ^{[7
,8
]}

Paterson, Andrew H. ^{[6
]}

Wang, Shuping ^{[2
]}

Liang, Xuanqiang ^{[1
]}

Varshney, Rajeev K. ^{[3
,10
,11
]}

机构：

[1] Guangdong Acad Agr Sci, Crops Res Inst, Guangdong Key Lab Crops Genet Improvement, South China Peanut Subctr,Natl Ctr Oilseed Crops, Guangzhou 510640, Guangdong, Peoples R China

[2] Shandong Shofine Seed Co, Jiaxiang 272400, Peoples R China

[3] Int Crops Res Inst Semi Arid Trop, Patancheru 502324, Andhra Pradesh, India

[4] Shandong Acad Agr Sci, Shandong Peanut Res Inst, Qingdao 266000, Peoples R China

[5] Qingdao Agr Univ, Coll Food Sci & Engn, Qingdao 266000, Peoples R China

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

[7] Natl Orchid Conservat Ctr China, Shenzhen Key Lab Orchid Conservat & Utilizat, Shenzhen 518000, Peoples R China

[8] Orchid Conservat & Res Ctr Shenzhen, Shenzhen 518000, Peoples R China

[9] Macrogen Millennium Genom Co, Shenzhen 518000, Peoples R China

[10] Univ Western Australia, Sch Plant Biol, Crawley, WA 6009, Australia

[11] Univ Western Australia, Inst Agr, Crawley, WA 6009, Australia

来源：

PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA | 2016年 / 113卷 / 24期

基金：

中国国家自然科学基金;

关键词：

Arachis duranensis; genome sequence; gene models; polyploidizations; gene duplication; SIGNAL-TRANSDUCTION PATHWAY; HYPOGAEA; ARABIDOPSIS; EVOLUTION; SEQUENCE; LIGHT; GENE; GRAVITROPISM; REGULATOR; RESOURCE;

D O I：

10.1073/pnas.1600899113

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：

Peanut or groundnut (Arachis hypogaea L.), a legume of South American origin, has high seed oil content (45-56%) and is a staple crop in semiarid tropical and subtropical regions, partially because of drought tolerance conferred by its geocarpic reproductive strategy. We present a draft genome of the peanut A-genome progenitor, Arachis duranensis, and 50,324 protein-coding gene models. Patterns of gene duplication suggest the peanut lineage has been affected by at least three polyploidizations since the origin of eudicots. Resequencing of synthetic Arachis tetraploids reveals extensive gene conversion in only three seed-to-seed generations since their formation by human hands, indicating that this process begins virtually immediately following polyploid formation. Expansion of some specific gene families suggests roles in the unusual subterranean fructification of Arachis. For example, the S1Fa-like transcription factor family has 126 Arachis members, in contrast to no more than five members in other examined plant species, and is more highly expressed in roots and etiolated seedlings than green leaves. The A. duranensis genome provides a major source of candidate genes for fructification, oil biosynthesis, and allergens, expanding knowledge of understudied areas of plant biology and human health impacts of plants, informing peanut genetic improvement and aiding deeper sequencing of Arachis diversity.

引用

页码：6785 / 6790

页数：6

共 40 条

[1] Arabidopsis AUX1 gene: A permease-like regulator of root gravitropism [J].

Bennett, MJ ;

Marchant, A ;

Green, HG ;

May, ST ;

Ward, SP ;

Millner, PA ;

Walker, AR ;

Schulz, B ;

Feldmann, KA .

SCIENCE, 1996, 273 (5277) :948-950

[2]

Burow MD, 2009, GENOME, V52, P107, DOI [10.1139/G08-094, 10.1139/g08-094]

[3] GRAVITROPISM IN A STARCHLESS MUTANT OF ARABIDOPSIS - IMPLICATIONS FOR THE STARCH-STATOLITH THEORY OF GRAVITY SENSING [J].

CASPAR, T ;

PICKARD, BG .

PLANTA, 1989, 177 (02) :185-197

[4] Early allopolyploid evolution in the post-Neolithic Brassica napus oilseed genome [J].

Chalhoub, Boulos ;

Denoeud, France ;

Liu, Shengyi ;

Parkin, Isobel A. P. ;

Tang, Haibao ;

Wang, Xiyin ;

Chiquet, Julien ;

Belcram, Harry ;

Tong, Chaobo ;

Samans, Birgit ;

Correa, Margot ;

Da Silva, Corinne ;

Just, Jeremy ;

Falentin, Cyril ;

Koh, Chu Shin ;

Le Clainche, Isabelle ;

Bernard, Maria ;

Bento, Pascal ;

Noel, Benjamin ;

Labadie, Karine ;

Alberti, Adriana ;

Charles, Mathieu ;

Arnaud, Dominique ;

Guo, Hui ;

Daviaud, Christian ;

Alamery, Salman ;

Jabbari, Kamel ;

Zhao, Meixia ;

Edger, Patrick P. ;

Chelaifa, Houda ;

Tack, David ;

Lassalle, Gilles ;

Mestiri, Imen ;

Schnel, Nicolas ;

Le Paslier, Marie-Christine ;

Fan, Guangyi ;

Renault, Victor ;

Bayer, Philippe E. ;

Golicz, Agnieszka A. ;

Manoli, Sahana ;

Lee, Tae-Ho ;

Vinh Ha Dinh Thi ;

Chalabi, Smahane ;

Hu, Qiong ;

Fan, Chuchuan ;

Tollenaere, Reece ;

Lu, Yunhai ;

Battail, Christophe ;

Shen, Jinxiong ;

Sidebottom, Christine H. D. .

SCIENCE, 2014, 345 (6199) :950-953

[5] Draft genome sequence of the oilseed species Ricinus communis [J].

Chan, Agnes P. ;

Crabtree, Jonathan ;

Zhao, Qi ;

Lorenzi, Hernan ;

Orvis, Joshua ;

Puiu, Daniela ;

Melake-Berhan, Admasu ;

Jones, Kristine M. ;

Redman, Julia ;

Chen, Grace ;

Cahoon, Edgar B. ;

Gedil, Melaku ;

Stanke, Mario ;

Haas, Brian J. ;

Wortman, Jennifer R. ;

Fraser-Liggett, Claire M. ;

Ravel, Jacques ;

Rabinowicz, Pablo D. .

NATURE BIOTECHNOLOGY, 2010, 28 (09) :951-U3

[6]

Feng Q. L., 1995, Peanut Science, V22, P129, DOI 10.3146/i0095-3679-22-2-11

[7] The ARG1-LIKE2 gene of Arabidopsis functions in a gravity signal transduction pathway that is genetically distinct from the PGM pathway [J].

Guan, CH ;

Rosen, ES ;

Boonsirichai, K ;

Poff, KL ;

Masson, PH .

PLANT PHYSIOLOGY, 2003, 133 (01) :100-112

[8] ARL2, ARG1 and PIN3 define a gravity signal transduction pathway in root statocytes [J].

Harrison, Benjamin R. ;

Masson, Patrick H. .

PLANT JOURNAL, 2008, 53 (02) :380-392

[9] Analysis of the genome sequence of the flowering plant Arabidopsis thaliana [J].

Kaul, S ;

Koo, HL ;

Jenkins, J ;

Rizzo, M ;

Rooney, T ;

Tallon, LJ ;

Feldblyum, T ;

Nierman, W ;

Benito, MI ;

Lin, XY ;

Town, CD ;

Venter, JC ;

Fraser, CM ;

Tabata, S ;

Nakamura, Y ;

Kaneko, T ;

Sato, S ;

Asamizu, E ;

Kato, T ;

Kotani, H ;

Sasamoto, S ;

Ecker, JR ;

Theologis, A ;

Federspiel, NA ;

Palm, CJ ;

Osborne, BI ;

Shinn, P ;

Conway, AB ;

Vysotskaia, VS ;

Dewar, K ;

Conn, L ;

Lenz, CA ;

Kim, CJ ;

Hansen, NF ;

Liu, SX ;

Buehler, E ;

Altafi, H ;

Sakano, H ;

Dunn, P ;

Lam, B ;

Pham, PK ;

Chao, Q ;

Nguyen, M ;

Yu, GX ;

Chen, HM ;

Southwick, A ;

Lee, JM ;

Miranda, M ;

Toriumi, MJ ;

Davis, RW .

NATURE, 2000, 408 (6814) :796-815

[10] RFLP and cytogenetic evidence on the origin and evolution of allotetraploid domesticated peanut, Arachis hypogaea (Leguminosae) [J].

Kochert, G ;

Stalker, HT ;

Gimenes, M ;

Galgaro, L ;

Lopes, CR ;

Moore, K .

AMERICAN JOURNAL OF BOTANY, 1996, 83 (10) :1282-1291

← 1 2 3 4 →