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Journal Articles Nature Year : 2012

The tomato genome sequence provides insights into fleshy fruit evolution

Shusei Sato (1) , Satoshi Tabata (1) , Hideki Hirakawa (1) , Erika Asamizu (1) , Kenta Shirasawa (1) , Sachiko Isobe (1) , Takakazu Kaneko (1) , Yasukazu Nakamura (1) , Daisuke Shibata (1) , Koh Aoki (1) , Michael Egholm (2) , James Knight (2) , Robert Bogden (3) , Changbao Li (4, 5) , Yang Shuang (6) , Xun Xu (6) , Shengkai Pan (6) , Shifeng Cheng (6) , Xin Liu (6) , Yuanuyan Ren (6) , Jun Wang (6) , Alessandro Albiero (7) , Francesca Dal Pero (7) , Sara Todesco (7) , Joyce van Eck (8) , Robert M. Buels (8) , Aureliano Bombarely (8) , Joseph R. Gosselin (8) , Minyun Huang (8) , Jonathan Leto (8) , Naama Menda (8) , Susan Strickler (8) , Linyong Mao (8) , Shan Gao (8) , Isaak y Tecle (8) , Thomas York (8) , Yi Zheng (8) , Julia T. Vrebalov (8) , Jemin Lee (8) , Silin Zhong (8) , Lukas A. Mueller (8) , Willem J Stiekema (9) , Paolo Ribeca (10) , Tyler Alioto (10) , Wencai Yang (11) , Sanwen Huang (12) , Yongchen Du (12) , Zhonghua Zhang (12) , Jianchang Gao (12) , Yanmei Guo (12) , Xiaosuan Wang (12) , Ying Li (12) , Jun He (12) , Chuanyou Li (12) , Zhukuan Cheng (12) , Jianru Zuo (12) , Jianfeng Ren (12) , Jiuhai Zhao (12) , Liuhua Yan (12) , Hongling Jiang (12) , Bao Wang (12) , Hongshuang Li (12) , Zhenjun Li (12) , Fuyou Fu (12) , Bingtang Chen (12) , Bin Han (5) , Qi Feng (5) , Danlin Fan (5) , Ying Wang (5) , Hongqing Ling (12, 13) , Yongbiao Xue (12) , Doreen Ware (14) , W. Richard Mccombie (14) , Zachary B. Lippmamn (14) , Jer-Ming Chia (14) , Ke Jiang (14) , Shiran Pastermak (14) , Laura Gelley (14) , Melissa Kramer (14) , Lorinda K. Anderson (15) , Song-Bin Chang (16) , Suzanne Royer (15) , Lindsay A. Shearer (15) , Stephen M. Stack (15) , Jocelyn K. C. Rose (17) , Yimin Xu (17) , Nancy Eannetta (17) , Antonio J. Matas (17) , Ryan Mcquinn (17) , Steven D. Tanksley (17) , Francisco Câmara , Mathilde M. Causse (18) , Christophe Rothan (19) , Thomas Schiex (20) , Céline Noirot (20) , Arnaud A. Bellec (21) , Christophe C. Klopp (20) , Helene H. Berges (21) , Jérôme J. Mariette (20) , - Tomato Genome Consortium
Kenta Shirasawa
  • Function : Author
  • PersonId : 1047975
Michael Egholm
  • Function : Author
James Knight
  • Function : Author
Xun Xu
Xin Liu
Sara Todesco
  • Function : Author
Shan Gao
Ying Li
Bin Han
Doreen Ware
  • Function : Author
Jer-Ming Chia
  • Function : Author
Ke Jiang
  • Function : Author
Laura Gelley
  • Function : Author
Francisco Câmara
  • Function : Author
Christophe Rothan
- Tomato Genome Consortium
  • Function : Author

Abstract

Tomato (Solanum lycopersicum) is a major crop plant and a model system for fruit development. Solanum is one of the largest angiosperm genera(1) and includes annual and perennial plants from diverse habitats. Here we present a high-quality genome sequence of domesticated tomato, a draft sequence of its closest wild relative, Solanum pimpinellifolium(2), and compare them to each other and to the potato genome (Solanum tuberosum). The two tomato genomes show only 0.6% nucleotide divergence and signs of recent admixture, but show more than 8% divergence from potato, with nine large and several smaller inversions. In contrast to Arabidopsis, but similar to soybean, tomato and potato small RNAs map predominantly to gene-rich chromosomal regions, including gene promoters. The Solanum lineage has experienced two consecutive genome triplications: one that is ancient and shared with rosids, and a more recent one. These triplications set the stage for the neofunctionalization of genes controlling fruit characteristics, such as colour and fleshiness.

Dates and versions

hal-02651748 , version 1 (29-05-2020)

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Shusei Sato, Satoshi Tabata, Hideki Hirakawa, Erika Asamizu, Kenta Shirasawa, et al.. The tomato genome sequence provides insights into fleshy fruit evolution. Nature, 2012, 485 (7400), pp.635-641. ⟨10.1038/nature11119⟩. ⟨hal-02651748⟩
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