Suitability of mapped sequence tagged microsatellite site markers for establishing distinctness, uniformity and stability in aromatic rice |
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| Authors: | RK Singh RK Sharma AK Singh VP Singh NK Singh SP Tiwari T Mohapatra |
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| Institution: | (1) National Research Center on Plant Biotechnology, Indian Agricultural Research Institute, New Delhi, 110 012, India;(2) Present address: National Research Centre for Soybean, Indore, India;(3) Division of Genetics, Indian Agricultural Research Institute, New Delhi, 110 012, India;(4) Indian Council of Agricultural Research, Krishi Bhavan, New Delhi, 110 001, India |
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| Abstract: | At present, testing for distinctness, uniformity and stability (DUS) of crop varieties relies on a set of morphological characters.
These characters suffer fromthe limitations of number, interaction with the environment in which the variety grows and subjectivity
in decision-making. The potential of DNA-based markers such as sequence tagged microsatellite site (STMS), for establishing
DUS merits investigation. In the present study, a set of 55 mapped STMS markers, selected from 12 linkage groups of rice genome,
was used to examine distinctness of 23 aromatic rice genotypes including the commercially important Basmati varieties. Forty-one
of these markers (74.5%) showed polymorphism between the varieties. The number of alleles per locus ranged from 2–4 with an
average of 2.3. The polymorphism information content (PIC) of the markers varied from 0.083 to 0.665 with an average of 0.338.
All the varieties could be differentiated from each other at a low probability (0.07×10-13) of identical match by chance. The marker-based clustering of the varieties corresponded with the known phenotypic classification,
thereby providing confidence in the distinctness established by the mapped STMS markers. The utility of these markers to study
uniformity and stability was analysed using a commercially important crossbred Basmati rice variety Pusa Basmati 1(IET-10364)
that contributes about 40–50% of Basmati rice export from India. Genotyping of twenty individual plants, grown from the nucleus,
breeder, foundation, certified and farmer's saved seed samples using all the 55 markers revealed no variation among the plants.
These observations suggested that the set of mapped markers employed in this study could be further used for establishing
distinctness of aromatic rice varieties and for studying DUS of the important commercial variety Pusa Basmati 1.
This revised version was published online in July 2006 with corrections to the Cover Date. |
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| Keywords: | Basmati rice cluster analysis DUS fingerprinting STMS |
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