Dramatic improvement in genome assembly achieved using doubled-haploid genomes

Hong Zhang, Engkong Tan, Yutaka Suzuki, Yusuke Hirose, Shigeharu Kinoshita, Hideyuki Okano, Jun Kudoh, Atsushi Shimizu, Kazuyoshi Saito, Shugo Watabe, Shuichi Asakawa

Research output: Contribution to journalArticlepeer-review

21 Citations (Scopus)


Improvement in de novo assembly of large genomes is still to be desired. Here, we improved draft genome sequence quality by employing doubled-haploid individuals. We sequenced wildtype and doubled-haploid Takifugu rubripes genomes, under the same conditions, using the Illumina platform and assembled contigs with SOAPdenovo2. We observed 5.4-fold and 2.6-fold improvement in the sizes of the N50 contig and scaffold of doubled-haploid individuals, respectively, compared to the wildtype, indicating that the use of a doubled-haploid genome aids in accurate genome analysis.

Original languageEnglish
Article number6780
JournalScientific reports
Publication statusPublished - 2014 Oct 27

ASJC Scopus subject areas

  • General


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