Analysis of Genetic Diversity and Relationships in Waxy Rice (Oryza sativa L.) using AFLP and ISSR Markers |
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Authors: | Jinsong Bao Harold Corke Mei Sun |
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Institution: | (1) Institute of Nuclear Agricultural Sciences, Zhejiang University, Hua Jiachi Campus, Hangzhou, 310029, P.R. China;(2) Department of Botany, University of Hong Kong, Hong Kong SAR, P.R. China;(3) Department of Zoology, University of Hong Kong, Hong Kong SAR, P.R. China |
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Abstract: | Opaque endosperm is the main phenotypic indicator for waxy rice, but other phenotypic and genotypic variation among waxy rice
accessions has largely been ignored. Previous studies showed that wide diversity in starch physiochemical properties exists
in both indica and japonica waxy rices, especially for starch gelatinization temperature (GT) which could be divided into a high- and a low-GT group.
In the present study, amplified fragment length polymorphism (AFLP) and inter-simple sequence repeat (ISSR) molecular markers
were employed to examine genetic diversity and relationships of 56 waxy rice accessions. A total of 358 AFLP fragments were
amplified with five primer combinations, showing a high level of polymorphism (78.3%). A total of 190 ISSR bands were generated
with a single primer and a primer pair, showing a very high level of polymorphism (92.2%). The genetic distance matrices obtained
from the two sets of markers were significantly correlated (r = 0.731, P = 0.004). The dendrogram generated with combined AFLP and ISSR markers could clearly differentiate the indica and japonica groups. Newly released varieties and breeding lines within each subspecies tended to be clustered together, whereas landraces
were more distantly placed in the dendrogram. Only one AFLP band was found specific to the indica type, while no specific bands were found for starch GT. The implications for the conservation and breeding of waxy rice are
discussed. |
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Keywords: | AFLP Genetic diversity ISSR Starch quality Waxy rice |
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