Draft genome sequence of eggplant (Solanum melongena L.): the representative solanum species indigenous to the old world

Unlike other important Solanaceae crops such as tomato, potato, chili pepper, and tobacco, all of which originated in South America and are cultivated worldwide, eggplant (Solanum melongena L.) is indigenous to the Old World and in this respect it is phylogenetically unique. To broaden our knowledge...

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Bibliographic Details
Published in:DNA research 2014-12, Vol.21 (6), p.649-660
Main Authors: Hirakawa, Hideki, Shirasawa, Kenta, Miyatake, Koji, Nunome, Tsukasa, Negoro, Satomi, Ohyama, Akio, Yamaguchi, Hirotaka, Sato, Shusei, Isobe, Sachiko, Tabata, Satoshi, Fukuoka, Hiroyuki
Format: Article
Language:English
Subjects:
Arabidopsis - genetics
Arabidopsis thaliana
Genes, Plant - physiology
Lycopersicon esculentum
Solanaceae
Solanum
Solanum lycopersicum - genetics
Solanum melongena
Solanum melongena - genetics
Solanum tuberosum
Species Specificity
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Summary:Unlike other important Solanaceae crops such as tomato, potato, chili pepper, and tobacco, all of which originated in South America and are cultivated worldwide, eggplant (Solanum melongena L.) is indigenous to the Old World and in this respect it is phylogenetically unique. To broaden our knowledge of the genomic nature of solanaceous plants further, we dissected the eggplant genome and built a draft genome dataset with 33,873 scaffolds termed SME_r2.5.1 that covers 833.1 Mb, ca. 74% of the eggplant genome. Approximately 90% of the gene space was estimated to be covered by SME_r2.5.1 and 85,446 genes were predicted in the genome. Clustering analysis of the predicted genes of eggplant along with the genes of three other solanaceous plants as well as Arabidopsis thaliana revealed that, of the 35,000 clusters generated, 4,018 were exclusively composed of eggplant genes that would perhaps confer eggplant-specific traits. Between eggplant and tomato, 16,573 pairs of genes were deduced to be orthologous, and 9,489 eggplant scaffolds could be mapped onto the tomato genome. Furthermore, 56 conserved synteny blocks were identified between the two species. The detailed comparative analysis of the eggplant and tomato genomes will facilitate our understanding of the genomic architecture of solanaceous plants, which will contribute to cultivation and further utilization of these crops.
ISSN:1340-2838
1756-1663
DOI:10.1093/dnares/dsu027