Assembly of the draft genome of buckwheat and its applications in identifying agronomically useful genes.

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Abstract

世界初となるソバの全ゲノム解読に成功 -ソバの安全性、高品質性、収量安定性の鍵となる遺伝情報の発見-. 京都大学プレスリリース. 2016-04-13.

Buckwheat (Fagopyrum esculentumMoench; 2n= 2x= 16) is a nutritionally dense annual crop widely grown in temperate zones. To accelerate molecular breeding programmes of this important crop, we generated a draft assembly of the buckwheat genome using short reads obtained by next-generation sequencing (NGS), and constructed the Buckwheat Genome DataBase. After assembling short reads, we determined 387, 594 scaffolds as the draft genome sequence (FES_r1.0). The total length of FES_r1.0 was 1, 177, 687, 305 bp, and the N50 of the scaffolds was 25, 109 bp. Gene prediction analysis revealed 286, 768 coding sequences (CDSs; FES_r1.0_cds) including those related to transposable elements. The total length of FES_r1.0_cds was 212, 917, 911 bp, and the N50 was 1, 101 bp. Of these, the functions of 35, 816 CDSs excluding those for transposable elements were annotated by BLAST analysis. To demonstrate the utility of the database, we conducted several test analyses using BLAST and keyword searches. Furthermore, we used the draft genome as a reference sequence for NGS-based markers, and successfully identified novel candidate genes controlling heteromorphic self-incompatibility of buckwheat. The database and draft genome sequence provide a valuable resource that can be used in efforts to develop buckwheat cultivars with superior agronomic traits.

Journal

  • DNA research : an international journal for rapid publication of reports on genes and genomes

    DNA research : an international journal for rapid publication of reports on genes and genomes 23(3), 215-224, 2016-06-01

    Oxford University Press

Codes

  • NII Article ID (NAID)
    120005743643
  • Text Lang
    ENG
  • Article Type
    journal article
  • ISSN
    1756-1663
  • Data Source
    IR 
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