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The tomato genome sequence provides insights into fleshy fruit evolution

(2012) NATURE. 485(7400). p.635-641
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Bioinformatics: from nucleotids to networks (N2N)
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.
Keywords
GENE, HISTORY, DIVERSIFICATION, LYCOPERSICON-ESCULENTUM, ARABIDOPSIS, ORTHOLOG, PATTERNS, SORGHUM, POTATO

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Chicago
Sato, Shusei, Satoshi Tabata, Hideki Hirakawa, Erika Asamizu, Kenta Shirasawa, Sachiko Isobe, Takakazu Kaneko, et al. 2012. “The Tomato Genome Sequence Provides Insights into Fleshy Fruit Evolution.” Nature 485 (7400): 635–641.
APA
Sato, S., Tabata, S., Hirakawa, H., Asamizu, E., Shirasawa, K., Isobe, S., Kaneko, T., et al. (2012). The tomato genome sequence provides insights into fleshy fruit evolution. NATURE, 485(7400), 635–641.
Vancouver
1.
Sato S, Tabata S, Hirakawa H, Asamizu E, Shirasawa K, Isobe S, et al. The tomato genome sequence provides insights into fleshy fruit evolution. NATURE. 2012;485(7400):635–41.
MLA
Sato, Shusei, Satoshi Tabata, Hideki Hirakawa, et al. “The Tomato Genome Sequence Provides Insights into Fleshy Fruit Evolution.” NATURE 485.7400 (2012): 635–641. Print.
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  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.},
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  issn         = {0028-0836},
  journal      = {NATURE},
  keyword      = {GENE,HISTORY,DIVERSIFICATION,LYCOPERSICON-ESCULENTUM,ARABIDOPSIS,ORTHOLOG,PATTERNS,SORGHUM,POTATO},
  language     = {eng},
  number       = {7400},
  pages        = {635--641},
  title        = {The tomato genome sequence provides insights into fleshy fruit evolution},
  url          = {http://dx.doi.org/10.1038/nature11119},
  volume       = {485},
  year         = {2012},
}

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