Genomics-Assisted Allele Mining and its Integration Into Rice Breeding

  • Toshio Yamamoto
  • Yusaku Uga
  • Masahiro Yano


Understanding the association between nucleotide changes and phenotypic changes is necessary for germplasm enhancement but has been a significant challenge in the molecular genetics and breeding of rice. In this article, we summarize our efforts to develop plant materials such as chromosome segment substitution lines to enhance the genetic analysis of traits of interest. The power of genetic dissection of phenotypic traits by use of novel populations is illustrated by our genetic analysis of heading date. We also present examples of the discovery of useful alleles involved in disease resistance and drought avoidance. Finally, we describe the discovery of genome-wide single-nucleotide polymorphism, which facilitate genetic analysis. This new type of genetic marker has allowed us to uncover the genome architecture of modern cultivars in Japan. These areas of progress will gradually change the landscape of selection in rice breeding.


Quantitative Trait Locus Quantitative Trait Locus Analysis Rice Blast Root Trait Blast Resistance 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.



We thank the Technical Support Section of NIAS for the management of the rice field. This work was supported by grants from the Ministry of Agriculture, Forestry and Fisheries of Japan (Integrated Research Project for Plant, Insect and Animal using Genome Technology QT-1005 and Genomics for Agricultural Innovation NVR-0001 to M. Yano, Genomics for Agricultural Innovation QTL-1002 to T. Yamamoto, and Genomics for Agricultural Innovation QTL-4003 to Y. Uga).


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© Springer Science+Business Media Dordrecht 2014

Authors and Affiliations

  1. 1.National Institute of Agrobiological SciencesTsukubaJapan

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