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Assessment of genetic diversity of Saltol QTL among the rice (Oryza sativa L.) genotypes

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Abstract

Eight Saltol quantitative trait locus (QTL) linked simple sequence repeat (SSR) markers of rice (Oryza sativa L.) were used to study the polymorphism of this QTL in 142 diverse rice genotypes that comprised salt tolerant as well as sensitive genotypes. The SSR profiles of the eight markers generated 99 alleles including 20rare alleles and 16 null alleles. RM8094 showed the highest number (13) of alleles followed by RM3412 (12), RM562 (11), RM493 (9) and RM1287 (8) while as, RM10764 and RM10745 showed the lowest number (6) of alleles. Based on the highest number of alleles and PIC value (0.991), we identified RM8094 as suitable marker for discerning salt tolerant genotypes from the sensitive ones. Based upon the haplotype analysis using FL478 as a reference (salt tolerant genotypes containing Saltol QTL), we short listed 68 rice genotypes that may have at least one allele of FL478 haplotype. Further study may confirm that some of these genotypes might have Saltol QTL and can be used as alternative donors in salt tolerant rice breeding programmes.

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Acknowledgements

The authors are thankful to Dr. K. V. Bhat, Head, Division of Genomic Resources, ICARNBPGRfor his support and advice to carry out this work. Showkat Ahmad Ganie is also grateful to the Department of Biotechnology, Govt of India for the fellowship. Authors are also grateful to Director, Prof K.C. Bansal, ICAR-NBPGR for funding this work through in-house project (code:IXX10476).

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Authors and Affiliations

  1. Division of Genomic Resources, ICAR-National Bureau of Plant Genetic Resources, Pusa, New Delhi, 110012, India

    Showkat Ahmad Ganie, Mrinmoi Jyoti Borgohain, Kashyap Kritika & Tapan Kumar Mondal

  2. Division of Genetics, ICAR-Indian Agricultural Research Institute, Pusa, New Delhi, 110012, India

    Akshay Talukdar

  3. NBPGR Base Centre, ICAR-NRRI Campus, Cuttack, Orissa, India

    Dipti Ranjan Pani

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  1. Showkat Ahmad Ganie
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  2. Mrinmoi Jyoti Borgohain
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  3. Kashyap Kritika
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  6. Tapan Kumar Mondal
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Correspondence to Tapan Kumar Mondal.

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Ganie, S.A., Borgohain, M.J., Kritika, K. et al. Assessment of genetic diversity of Saltol QTL among the rice (Oryza sativa L.) genotypes. Physiol Mol Biol Plants 22, 107–114 (2016). https://doi.org/10.1007/s12298-016-0342-6

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