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

Hideki Hirakawa, Kenta Shirasawa, Koji Miyatake, Tsukasa Nunome, Satomi Negoro, Akio Ohyama, Hirotaka Yamaguchi, Shusei Sato, Sachiko Isobe, Satoshi Tabata, Hiroyuki Fukuoka

    Research output: Contribution to journalArticle

    119 Citations (Scopus)

    Abstract

    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.

    Original languageEnglish
    Pages (from-to)649-660
    Number of pages12
    JournalDNA Research
    Volume21
    Issue number6
    DOIs
    Publication statusPublished - 2014 Dec 1

    Keywords

    • Comparative analysis
    • Eggplant
    • Gene prediction
    • Genome sequencing
    • Solanum melongena L.

    ASJC Scopus subject areas

    • Molecular Biology
    • Genetics

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  • Cite this

    Hirakawa, H., Shirasawa, K., Miyatake, K., Nunome, T., Negoro, S., Ohyama, A., Yamaguchi, H., Sato, S., Isobe, S., Tabata, S., & Fukuoka, H. (2014). Draft genome sequence of eggplant (solanum melongena L.): The representative solanum species indigenous to the old world. DNA Research, 21(6), 649-660. https://doi.org/10.1093/dnares/dsu027