Sequencing and comparative analyses of the genomes of zoysiagrasses

Hidenori Tanaka, Hideki Hirakawa, Shunichi Kosugi, Shinobu Nakayama, Akiko Ono, Akiko Watanabe, Masatsugu Hashiguchi, Takahiro Gondo, Genki Ishigaki, Melody Muguerza, Katsuya Shimizu, Noriko Sawamura, Takayasu Inoue, Yuichi Shigeki, Naoki Ohno, Satoshi Tabata, Ryo Akashi, Shusei Sato

    Research output: Contribution to journalArticle

    21 Citations (Scopus)

    Abstract

    Zoysia is a warm-season turfgrass, which comprises 11 allotetraploid species (2n = 4x = 40), each possessing different morphological and physiological traits. To characterize the genetic systems of Zoysia plants and to analyse their structural and functional differences in individual species and accessions, we sequenced the genomes of Zoysia species using HiSeq and MiSeq platforms. As a reference sequence of Zoysia species, we generated a high-quality draft sequence of the genome of Z. japonica accession 'Nagirizaki' (334 Mb) in which 59,271 protein-coding genes were predicted. In parallel, draft genome sequences of Z. matrella 'Wakaba' and Z. pacifica 'Zanpa' were also generated for comparative analyses. To investigate the genetic diversity among the Zoysia species, genome sequence reads of three additional accessions, Z. japonica 'Kyoto', Z. japonica 'Miyagi' and Z. matrella 'Chiba Fair Green', were accumulated, and aligned against the reference genome of 'Nagirizaki' along with those from 'Wakaba' and 'Zanpa'. As a result, we detected 7,424,163 single-nucleotide polymorphisms and 852,488 short indels among these species. The information obtained in this study will be valuable for basic studies on zoysiagrass evolution and genetics as well as for the breeding of zoysiagrasses, and is made available in the 'Zoysia Genome Database' at http://zoysia.kazusa.or.jp.

    Original languageEnglish
    Pages (from-to)171-180
    Number of pages10
    JournalDNA Research
    Volume23
    Issue number2
    DOIs
    Publication statusPublished - 2016 Apr 1

    Keywords

    • Zoysia
    • comparative analysis
    • gene prediction
    • genome sequencing
    • turfgrass

    ASJC Scopus subject areas

    • Molecular Biology
    • Genetics

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  • Cite this

    Tanaka, H., Hirakawa, H., Kosugi, S., Nakayama, S., Ono, A., Watanabe, A., Hashiguchi, M., Gondo, T., Ishigaki, G., Muguerza, M., Shimizu, K., Sawamura, N., Inoue, T., Shigeki, Y., Ohno, N., Tabata, S., Akashi, R., & Sato, S. (2016). Sequencing and comparative analyses of the genomes of zoysiagrasses. DNA Research, 23(2), 171-180. https://doi.org/10.1093/dnares/dsw006