Cluster Analysis on Japonica Rice (<em>Oryza sativa</em> L.) with Good Eating Quality Based on SSR Markers and Phenotypic Traits

ZHANG Chun-hong, LI Jin-zhou, ZHU Zhen, ZHANG Ya-dong, ZHAO Ling, WANG Cai-lin

doi:10.1016/S1672-6308(08)60113-4

2010 , Vol. 17 >Issue 2: 111 - 121

DOI: https://doi.org/10.1016/S1672-6308(08)60113-4

Research Paper

Cluster Analysis on Japonica Rice (Oryza sativa L.) with Good Eating Quality Based on SSR Markers and Phenotypic Traits

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1)Institute of Food Crops/Jiangsu High Quality Rice R & D Center/Nanjing Branch of Chinese National Center for Rice Improvement, Jiangsu Academy of Agricultural Sciences, Nanjing 210014, China; 2)College of Agriculture, Nanjing Agricultural University, Nanjing 210095, China

Received date: 2009-11-11

Revised date: 1900-01-01

Online published: 2010-06-28

Supported by

the National Science and Technology Support Program (Grant No. 2006BAD01A01-5); the Key Program of the Development of Variety of Genetically Modified Organisms (Grant No. 2008ZX 08001-006); Special Program for Rice Scientific Research, Ministry of Agriculture, China (Grant No. nyhyzx 07-001-006); the Key Support Program of Jiangsu Science and Technology (Grant No. BE2008354) and Jiangsu Self-innovation Fund for Agricultural Science and Technology, China (Grant No. CX [08] 603).

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Abstract

Diversity of 60 conventional japonica rice accessions with good eating quality at home and abroad was analyzed using SSR molecular markers, agronomic traits and taste characteristics. A total of 290 alleles were detected in the 60 accessions at 72 SSR loci with the high similarity coefficients varying between 0.600 and 0.924. The loci on chromosome 5 showed the greatest value in average allele number. Additionally, most of the SSR loci could detect 3 to 4 alleles. An UPGMA dendrogram based on the cluster analysis of the genetic similarity coefficients showed that the grouping trend of part of the rice accessions was geographic-related and most of the rice accessions in Jiangsu Province, China were clustered together. Furthermore, many domestic accessions from south and north origins in China were close to the foreign japonica rice varieties, as proved by their pedigree origin from the foreign high-quality sources. For taste characteristics, part of the accessions with excellent taste were clearly clustered into one category though they came from different geographical regions, which indicates that taste characteristics of some varieties were mainly genetically determined. In addition, the agronomic traits of japonica rice with good taste might be closely related with their geographical origins, but the relationship between superior taste characteristics and agronomic traits should be further clarified.

Key words： japonica rice; simple sequence repeat marker; cluster analysis; phenotypic traits; taste characteristics; genetic diversity

Cite this article

ZHANG Chun-hong, LI Jin-zhou, ZHU Zhen, ZHANG Ya-dong, ZHAO Ling, WANG Cai-lin . Cluster Analysis on Japonica Rice (Oryza sativa L.) with Good Eating Quality Based on SSR Markers and Phenotypic Traits[J]. Rice Science, 2010 , 17(2) : 111 -121 . DOI: 10.1016/S1672-6308(08)60113-4

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