Bulked segregant analysis to detect main effect QTL associated with grain quality parameters in Basmati 370/ASD 16 cross in rice Oryza sativa L) using SSR markers |
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Authors: | P Govindaraj S Arumugachamy M Maheswaran |
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Institution: | (1) Centre for Plant Breeding and Genetics, Tamil Nadu Agricultural University, Coimbatore, India;(2) Centre for Plant Molecular Biology, Tamil Nadu Agricultural University, Coimbatore, India;(3) Present address: Sugarcane Breeding Institute, Coimbatore, 641 007, India |
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Abstract: | In the present study a population consisting of 247 F2 individuals from the cross between Basmati 370, a superior quality basmati variety and ASD16, a non-basmati high-yielding
variety was analyzed for their segregation pattern of grain length (GL), grain breadth (GB), cooked grain length (CGL), cooked
grain breadth (CGB), and gelatinization temperature (GT). Except GT, all other traits showed normal distribution indicating
the polygenic control over the traits. The correlation analysis between traits indicated that GT had positive significant
association with GL (0.125), and CGL (0.243). To identify main effect QTL (MQTL) for the above grain quality traits, both
the parents were surveyed with 86 primer pairs of simple sequence repeats (SSR). The parental survey revealed 63.95% polymorphism
between parents. In order to detect the MQTL associated with grain quality traits, a strategy of combining the DNA pooling
from selected segregants and genotyping was adopted. The number of individuals forming the bulk influenced the identification
of putative marker(s) for each of the traits. The association of putative markers identified based on DNA pooling from selected
segregants was established by Single Marker Analysis (SMA). The results of SMA revealed that SSR markers, RM225 on chromosome
#6 and RM247 on chromosome #12 showed significant association with GB and CGB respectively. It is established that molecular
marker analysis involving DNA pooling of phenotypic extremes and selective genotyping helps to detect MQTL for complex traits
involving early segregating generations. The molecular marker analysis involving the DNA pooling of phenotypic extremes could
be a useful strategy to detect the genetic loci with major effects of other complex grain quality traits in rice. |
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Keywords: | quality traits QTL SSR markers rice |
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