Population structure in Japanese rice population

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Abstract

It is essential to elucidate genetic diversity and relationships among even related individuals and populations for plant breeding and genetic analysis. Since Japanese rice breeding has improved agronomic traits such as yield and eating quality, modern Japanese rice cultivars originated from narrow genetic resource and closely related. To resolve the population structure and genetic diversity in Japanese rice population, we used a total of 706 alleles detected by 134 simple sequence repeat markers in a total of 114 cultivars composed of 94 improved varieties and 20 landraces, which are representative and important for Japanese rice breeding. The landraces exhibit greater gene diversity than improved lines, suggesting that landraces can provide additional genetic diversity for future breeding. Model-based Bayesian clustering analysis revealed six subgroups and admixture situation in the cultivars, showing good agreement with pedigree information. This method could be superior to phylogenetic method in classifying a related population. The leading Japanese rice cultivar, Koshihikari is unique due to the specific genome constitution. We defined Japanese rice diverse sets that capture the maximum number of alleles for given sample sizes. These sets are useful for a variety of genetic application in Japanese rice cultivars.

Journal

  • Breeding Science

    Breeding Science 63(1), 49-57, 2013-03-01

    Japanese Society of Breeding

References:  37

Codes

  • NII Article ID (NAID)
    10031151524
  • NII NACSIS-CAT ID (NCID)
    AA11353132
  • Text Lang
    ENG
  • Article Type
    ART
  • ISSN
    13447610
  • NDL Article ID
    024359814
  • NDL Call No.
    Z54-J372
  • Data Source
    CJP  NDL  IR  J-STAGE 
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