The tomato genome sequence provides insights into fleshy fruit evolution
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Abstract
This paper reports the genome sequence of domesticated tomato, a major crop plant, and a draft sequence for its closest wild relative; comparative genomics reveal very little divergence between the two genomes but some important differences with the potato genome, another important food crop in the genus Solanum. Tomato (Solanum lycopersicum) is a major crop plant and a model system for fruit development. Solanum is one of the largest angiosperm genera1 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 pimpinellifolium2, 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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The record
- Venue
- Nature
- Topic
- Plant Pathogens and Resistance
- Field
- Agricultural and Biological Sciences
- Canadian institutions
- —
- Funders
- Institute of GeneticsBiotechnology and Biological Sciences Research CouncilHeilongjiang Academy of Agricultural SciencesMax-Planck-GesellschaftHebrew University of JerusalemConsejo Nacional de Investigaciones Científicas y TécnicasInstitute of Genetics and Developmental Biology, Chinese Academy of SciencesUniversiteit GentChinese Academy of SciencesBeijing Academy of Agricultural and Forestry SciencesChina Agricultural UniversityChinese Academy of Agricultural SciencesEuropean CommissionDepartment for Environment, Food and Rural Affairs, UK GovernmentColorado State UniversityAgricultural Research ServiceAgence Nationale de la RechercheIndian Council of Agricultural ResearchU.S. Department of AgricultureKorea Research Institute of Bioscience and BiotechnologyNational Science Foundation
- Keywords
- SolanumBiologySolanum tuberosumGenomeLineage (genetic)GeneSolanaceaeDomesticationGeneticsBotany
- Has abstract in OpenAlex
- yes