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Genome sequence and analysis of the tuber crop potato

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WOS被引频次:708
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成果类型:
期刊论文
作者:
Xu, Xun;Pan, Shengkai;Cheng, Shifeng;Zhang, Bo;Mu, Desheng;Ni, Peixiang;Zhang, Gengyun;Yang, Shuang;Li, Ruiqiang;Wang, Jun;Orjeda, Gisella;Guzman, Frank;Torres, Michael;Lozano, Roberto;Ponce, Olga;Martinez, Diana;De la Cruz, German;Chakrabarti, S K;Patil, Virupaksh U;Skryabin, Konstantin G;Kuznetsov, Boris B;Ravin, Nikolai V;Kolganova, Tatjana V;Beletsky, Alexey V;Mardanov, Andrei V;Di Genova, Alex;Bolser, Daniel M;Martin, David M A;Li, Guangcun;Yang, Yu;Kuang, Hanhui;Hu, Qun;Xiong, Xingyao;Bishop, Gerard J;Sagredo, Boris;Mejia, Nilo;Zagorski, Wlodzimierz;Gromadka, Robert;Gawor, Jan;Szczesny, Pawel;Huang, Sanwen*;Zhang, Zhonghua;Liang, Chunbo;He, Jun;Li, Ying;He, Ying;Xu, Jianfei;Zhang, Youjun;Xie, Binyan;Du, Yongchen;Qu, Dongyu;Bonierbale, Merideth;Ghislain, Marc;Herrera, Maria del Rosario;Giuliano, Giovanni;Pietrella, Marco;Perrotta, Gaetano;Facella, Paolo;O'Brien, Kimberly;Feingold, Sergio E;Barreiro, Leandro E;Massa, Gabriela A;Diambra, Luis;Whitty, Brett R;Vaillancourt, Brieanne;Lin, Haining;Massa, Alicia N;Geoffroy, Michael;Lundback, Steven;DellaPenna, Dean;Buell, C Robin;Sharma, Sanjeev Kumar;Marshall, David F;Waugh, Robbie;Bryan, Glenn J;Destefanis, Marialaura;Nagy, Istvan;Milbourne, Dan;Thomson, Susan J;Fiers, Mark;Jacobs, Jeanne M E;Nielsen, Kare L;Sonderkaer, Mads;Iovene, Marina;Torres, Giovana A;Jiang, Jiming;Veilleux, Richard E;Bachem, Christian W B;de Boer, Jan;Borm, Theo;Kloosterman, Bjorn;van Eck, Herman;Datema, Erwin;Hekkert, Bas te Lintel;Goverse, Aska;van Ham, Roeland C H J;Visser, Richard G F
通讯作者:
Huang, Sanwen
作者机构:
[Torres, Giovana A; Jiang, Jiming; Iovene, Marina] University of Wisconsin-Madison, Department of Horticulture, 1575 Linden Drive, Madison, Wisconsin 53706, USA.
[Nilo Mejía; Sagredo, Boris] Instituto de Investigaciones Agropecuarias, Avda. Salamanca s/n, Km 105 ruta 5 sur, sector Los Choapinos. Rengo, Región del Libertador Bernardo O’Higgins, Código Postal 2940000, Chile.
[Visser, Richard G F; van Ham, Roeland C H J] Centre for BioSystems Genomics, Droevendaalsesteeg 1, 6708PB Wageningen, Netherlands.
[Liang, Chunbo; He, Jun; Zhang, Zhonghua; Li, Ying; Xu, Jianfei; Du, Yongchen; Qu, Dongyu; Zhang, Youjun; He, Ying; Xie, Binyan; Huang, Sanwen] Institute of Vegetables and Flowers, Chinese Academy of Agricultural Sciences, Key Laboratory of Horticultural Crops Genetic Improvement of Ministry of Agriculture, Sino-Dutch Joint Lab of Horticultural Genomics Technology, Beijing 100081, China.
[Orjeda, Gisella; Torres, Michael; Martinez, Diana; Guzman, Frank; Lozano, Roberto; Ponce, Olga; Germán De la Cruz] Cayetano Heredia University, Genomics Research Unit, Av Honorio Delgado 430, Lima 31, Peru and San Cristobal of Huamanga University, Biotechnology and Plant Genetics Laboratory, Ayacucho, Peru.
通讯机构:
[Huang, Sanwen] Chinese Acad Agr Sci, Key Lab Hort Crops Genet Improvement, Sino Dutch Joint Lab Hort Genom, Inst Vegetables & Flowers,Minist Agr, Beijing 100081, Peoples R China.
语种:
英文
期刊:
Nature
ISSN:
0028-0836
年:
2011
卷:
475
期:
7355
页码:
189-U94
文献类别:
WOS:Article
所属学科:
ESI学科类别:分子生物学&遗传学;WOS学科类别:Multidisciplinary Sciences
入藏号:
WOS:000292690500042;PMID:21743474
基金类别:
EU [APOPHYS EU-QLRT-2001-01849]; US Department of Agriculture National Institute of Food and Agriculture [2008-55300-04757, 2009-85606-05673]; "863'' National High Tech Research Development Program in China [2006AA100107]; "973'' National Key Basic Research Program in China [2006CB101904, 2007CB815703, 2007CB815705, 2009CB119000]; Board of Wageningen University and Research Centre; CAPES Brazilian Ministry of Education; Chinese Academy of Agricultural Sciences; Chinese Ministry of Agriculture; Chinese Ministry of Finance [1251610601001]; Chinese Ministry of Science and Technology [2007DFB30080]; China Postdoctoral Science Foundation [20070420446]; CONICET (Argentina); DAFF Research Stimulus Fund [07-567]; CONICYT-Chile [PBCT-PSD-03]; Danish Council for Strategic Research Programme Commission on Health, Food and Welfare [2101-07-0116]; Danish Council for Strategic Research Programme Commission on Strategic Growth Technologies [2106-07-0021]; FINCyT [099-FINCyT-EQUIP-2009, 076-FINCyT-PIN-2008]; Prestamo BID [1663/OC-PE]; Fund for Economic Structural Support (FES); HarvestPlus Challenge Program; Indian Council of Agricultural Research; INIA-Ministry of Agriculture of Chile; Instituto Nacional de Innovacion Agraria-Ministry of Agriculture of Peru; Instituto Nacional de Tecnologia Agropecuaria (INTA); Italian Ministry of Research (Special Fund for Basic Research); International Potato Center; LBMG of Center for Genome Regulation and Center for Mathematical Modeling; Universidad de Chile [UMI 2807 CNRS]; Ministry of Education and Science of Russia [02.552.11.7073]; National Nature Science Foundation of China [30671319, 30725008, 30890032, 30971995]; Natural Science Foundation of Shandong Province in China [Y2006D21]; Netherlands Technology Foundation (STW); Netherlands Genomics Initiative (NGI); Netherlands Ministries of Economic Affairs (EZ) and Agriculture (LNV); New Zealand Institute for Crop & Food Research Ltd Strategic Science Initiative; Perez Guerrero Fund; Peruvian Ministry of Agriculture-Technical Secretariat of coordination; CGIAR; Peruvian National Council of Science and Technology (CONCYTEC); Polish Ministry of Science and Higher Education [47/PGS/2006/01]; Programa Cooperativo para el Desarrollo Tecnologico Agroalimentario y Agroindustrial del Cono Sur (PROCISUR); Project Programa Bicentenario de Ciencia y Tecnologia - Conicyt; PBCT - Conicyt [PSD-03]; Russian Foundation for Basic Research [09-04-12275]; Secretaria de Ciencia y Tecnologia (SECyT) actual Ministerio de Ciencia y Tecnologia (MINCyT), Argentina; Shenzhen Municipal Government of China [CXB200903110066A, ZYC200903240077A, ZYC200903240076A]; Solexa project [272-07-0196]; Inter-American Council for Integral Development (FEMCIDI); Teagasc; Teagasc Walsh Fellowship Scheme; New Zealand Institute for Plant & Food Research Ltd; Scottish Government Rural and Environment Research and Analysis Directorate (RERAD); Department for Environment, Food and Rural Affairs (DEFRA; Agriculture and Horticulture Development Board - Potato Council; UK Biotechnology and Biological Sciences Research Council [BB/F012640]; US National Science Foundation [DBI-0604907/DBI-0834044]; Virginia Agricultural Experiment Station USDA [135853]; Wellcome Trust [WT 083481]
机构署名:
本校为其他机构
院系归属:
园艺园林学院
摘要:
Potato (Solanum tuberosum L.) is the world's most important non-grain food crop and is central to global food security. It is clonally propagated, highly heterozygous, autotetraploid, and suffers acute inbreeding depression. Here we use a homozygous doubled-monoploid potato clone to sequence and assemble 86% of the 844-megabase genome. We predict 39,031 protein-coding genes and present evidence for at least two genome duplication events indicative of a palaeopolyploid origin. As the first genome sequence of an asterid, the potato genome reveals 2,642 genes specific to this large angiosperm clade. We also sequenced a heterozygous diploid clone and show that gene presence/absence variants and other potentially deleterious mutations occur frequently and are a likely cause of inbreeding depression. Gene family expansion, tissue-specific expression and recruitment of genes to new pathways contributed to the evolution of tuber development. The potato genome sequence provides a platform for genetic improvement of this vital crop.
参考文献:
Hijmans, R. J. Global distribution of the potato crop. Am. J. Potato Res. 78, 403–412 (2001)
Burlingame, B., Mouillé, B. & Charrondiére, R. Nutrients, bioactive non-nutrients and anti-nutrients in potatoes. J. Food Compost. Anal. 22, 494–502 (2009)
Paz, M. M. & Veilleux, R. E. Influence of culture medium and in vitro conditions on shoot regeneration in Solanum phureja monoploids and fertility of regenerated doubled monoploids. Plant Breed. 118, 53–57 (1999)
Li, R. et al. De novo assembly of human genomes with massively parallel short read sequencing. Genome Res. 20, 265–272 (2010)
Arumuganathan, K. & Earle, E. Nuclear DNA content of some important plant species. Plant Mol. Biol. Rep. 9, 208–218 (1991)

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