Whole genome sequencing to identify genes and QTL in rice

Ryohei Terauchi, Akira Abe, Hiroki Takagi, Muluneh Tamiru, Rym Fekih, Satoshi Natsume, Hiroki Yaegashi, Shunichi Kosugi, Hiroyuki Kanzaki, Hideo Matsumura, Hiromasa Saitoh, Kentaro Yoshida, Liliana Cano, Sophien Kamoun

Research output: Chapter in Book/Report/Conference proceedingChapter

8 Citations (Scopus)


The recent accumulation of whole genome sequences (WGS) in a large number of plant species creates new opportunities to use this information for identifying genes/quantitative trait loci (QTL) and to accelerate crop improvement. To this end, we recently developed the MutMap method (Abe et al., Nat Biotechnol 30:174-178, 2012) and its derivatives MutMap+ (Fekih et al., PLoS One 8(7):e68529, 2013) and MutMap-Gap (Takagi et al., New Phytol 200(1):276–283, 2013a), which take full advantage of WGS to efficiently identify mutant genes from EMS mutagenized plant populations. We also reported QTL-seq (Takagi et al., Plant J 74:174-183, 2013b), a WGS-based method for identification of QTL. We applied these methods to rice for rapid identification and discovery of genes of agronomic importance. In this chapter, we introduce these WGS-based methods, MutMap family and QTL-seq, and provide an overview of the genetic analyses that we expect to accelerate crop improvement in rice and other crop species of economic importance

Original languageEnglish
Title of host publicationAdvances in the Understanding of Biological Sciences Using Next Generation Sequencing (NGS) Approaches
Number of pages10
ISBN (Print)9783319171579, 9783319171562
Publication statusPublished - 1 Jan 2015


  • Crop
  • Mutation
  • Mutmap
  • Ngs
  • Qtl
  • Qtl-seq
  • Rice
  • Snp-index
  • Wgs

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