TY - JOUR T1 - The power of single molecule real-time sequencing technology in the de <em>novo</em> assembly of a eukaryotic genome JF - bioRxiv DO - 10.1101/021634 SP - 021634 AU - Hiroaki Sakai AU - Ken Naito AU - Eri Ogiso-Tanaka AU - Yu Takahashi AU - Kohtaro Iseki AU - Chiaki Muto AU - Kazuhito Satou AU - Kuniko Teruya AU - Akino Shiroma AU - Makiko Shimoji AU - Takashi Hirano AU - Takeshi Itoh AU - Akito Kaga AU - Norihiko Tomooka Y1 - 2015/01/01 UR - http://biorxiv.org/content/early/2015/07/27/021634.abstract N2 - Second-generation sequencers (SGS) have been game-changing, achieving cost-effective whole genome sequencing in many non-model organisms. However, a large portion of the genomes still remains unassembled. We reconstructed azuki bean (Vigna angularis) genome using single molecule real-time (SMRT) sequencing technology and achieved the best contiguity and coverage among currently assembled legume crops. The SMRT-based assembly produced 100 times longer contigs with 100 times smaller amount of gaps compared to the SGS-based assemblies. A detailed comparison between the assemblies revealed that the SMRT-based assembly enabled a more comprehensive gene annotation than the SGS-based assemblies where thousands of genes were missing or fragmented. A chromosome-scale assembly was generated based on the high-density genetic map, covering 86% of the azuki bean genome. We demonstrated that SMRT technology, though still needed support of SGS data, achieved a near-complete assembly of a eukaryotic genome. ER -