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Genetic diversity and structure of indica rice varieties from two heterotic pools of southern China and IRRI

Published online by Cambridge University Press:  14 October 2012

Fangming Xie ,
Longbiao Guo ,
Guangjun Ren ,
Peisong Hu ,
Feng Wang ,
Jianlong Xu ,
Xinqi Li ,
Fulin Qiu  and
Madonna Angelita dela Paz
Fangming Xie*
Affiliation:
International Rice Research Institute, Metro Manila, DAPO Box 7777, Philippines
Longbiao Guo
Affiliation:
China National Rice Research Institute, Hangzhou310006, People' Republic of China
Guangjun Ren
Affiliation:
Sichuan Academy of Agricultural Sciences, Chengdu610066, People' Republic of China
Peisong Hu
Affiliation:
China National Rice Research Institute, Hangzhou310006, People' Republic of China
Feng Wang
Affiliation:
Rice Research Institute, Guangdong Academy of Agricultural Sciences, Guangzhou510640, People' Republic of China
Jianlong Xu
Affiliation:
Crop Science Institute, Chinese Academy of Agricultural Sciences, Beijing100081, People' Republic of China
Xinqi Li
Affiliation:
China National Hybrid Rice Research and Development Center, Changsha410125, People' Republic of China
Fulin Qiu
Affiliation:
International Rice Research Institute, Metro Manila, DAPO Box 7777, Philippines
Madonna Angelita dela Paz
Affiliation:
International Rice Research Institute, Metro Manila, DAPO Box 7777, Philippines
*
*Corresponding author. E-mail: f.xie@irri.org
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Abstract

Investigation of genetic diversity and the relationships among varieties and breeding lines is of great importance to facilitate parental selection in the development of inbred and hybrid rice varieties and in the construction of heterotic groups. The technology of single nucleotide polymorphism (SNP) is being advanced for the assessment of population diversity and genetic structures. We characterized 215 widely cultivated indica rice varieties developed in southern China and at the International Rice Research Institute (IRRI) using IRRI-developed SNP oligonucleotide pooled assay (OPA) to provide grouping information of rice mega-varieties for further heterotic pool study. The results revealed that the Chinese varieties were more divergent than the IRRI varieties. Two major subpopulations were clustered for the varieties using a model-based grouping method. The IRRI varieties were closely grouped and separated clearly from the majority of the Chinese varieties. The Chinese varieties were subclustered into three subgroups, but there was no clear evidence to separate the Chinese varieties into subgroups geographically, indicating a great degree of genetic integration of alleles and shared ancestries among those high-yielding modern varieties.

Keywords

Chinese varietygenetic diversityhybrid riceIRRI varietysingle nucleotide polymorphism markers
Type
Research Article
Information
Plant Genetic Resources , Volume 10 , Issue 3 , December 2012 , pp. 186 - 193
Copyright
Copyright © NIAB 2012

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