Genome sequence and analysis of the tuber crop potato

Xun Xu, Shengkai Pan, Shifeng Cheng, Bo Zhang, Desheng Mu, Peixiang Ni, Gengyun Zhang, Shuang Yang, Ruiqiang Li, Jun Wang, Gisella Orjeda, Frank Guzman, Michael Torres, Roberto Lozano, Olga Ponce, Diana Martinez, Germán De La Cruz, S.K. Chakrabarti, Virupaksh U. Patil, G. SkryabinBoris B. Kuznetsov, Nikolai V. Ravin, Tatjana V. Kolganova, Alexey V. Beletsky, Andrei V. Mardanov, Alex Di Genova, Daniel M. Bolser, David M. A. Martin, Guangcun Li, Yu Yang, Hanhui Kuang, Qun Hu, Xingyao Xiong, Gerard J. Bishop, Boris Sagredo, Nilo Mejía, Wlodzimierz Zagorski, Robert Gromadka, Jan Gawor, Pawel Szczesny, Sanwen Huang, Zhonghua Zhang, Chunbo Liang, Jun He, Ying Li, Ying He, Jianfei Xu, Youjun Zhang, Binyan Xie, Yongchen Du, Dongyu Qu, Merideth Bonierbale, Marc Ghislain, Maria Del Rosario Herrera, Giovanni Giuliano, Marco Pietrella, Gaetano Perrotta, Paolo Facella, Kimberly O'Brien, Sergio E. Feingold, Leandro E. Barreiro, Gabriela A. Massa, Luis Diambra, Brett R. Whitty, Brieanne Vaillancourt, Haining Lin, Alicia N. Massa, Michael Geoffroy, Steven Lundback, Dean DellaPenna, C. Robin Buell, Sanjeev Kumar Sharma, David F. Marshall, Robbie Waugh, Glenn J. Bryan, Marialaura Destefanis, Istvan Nagy, Dan Milbourne, Susan J. Thomson, Mark Fiers, Jeanne M.E. Jacobs, Kare L. Nielsen, Mads Sønderkær, Marina Iovene, Giovana A. Torres, Jiming Jiang, Richard E. Veilleux, Christian W. B. Bachem, Jan De Boer, Theo Borm, Bjorn Kloosterman, Herman Van Eck, Erwin Datema, Baste Lintel Hekkert, Aska Goverse, Roeland C.H.J. Van Ham, Richard G. F. Visser

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Abstract

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. © 2011 Macmillan Publishers Limited. All rights reserved.
Original languageEnglish
Pages (from-to)189 - 195
Number of pages7
JournalNature
Volume475
Issue number7355
DOIs
Publication statusPublished - 14 Jul 2011

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Cite this

Xu, X., Pan, S., Cheng, S., Zhang, B., Mu, D., Ni, P., Zhang, G., Yang, S., Li, R., Wang, J., Orjeda, G., Guzman, F., Torres, M., Lozano, R., Ponce, O., Martinez, D., De La Cruz, G., Chakrabarti, S. K., Patil, V. U., ... Visser, R. G. F. (2011). Genome sequence and analysis of the tuber crop potato. Nature, 475(7355), 189 - 195. https://doi.org/10.1038/nature10158