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Current IssueEditorial BoardOnline First ArticlesArchive

volume 47 issue 5 (october 2013) : 431-435

MICROSATELLITE MARKER BASED DIVERSITY ANALYSIS FOR DROUGHT TOLERANCE IN SOME BENGAL LANDRACES OF RICE (ORYZA SATIVA L.)

T
Tirthankar Biswas *and Somnath Bhattacharya
1Department of Genetics, Bidhan Chandra Krishi Viswavidyalaya Mohanpur, Nadia – 741 252, India

  • Submitted|

  • First Online |

  • doi

Cite article:- Bhattacharya Somnath *and Biswas Tirthankar (2025). MICROSATELLITE MARKER BASED DIVERSITY ANALYSIS FOR DROUGHT TOLERANCE IN SOME BENGAL LANDRACES OF RICE (ORYZA SATIVA L.). Indian Journal of Agricultural Research. 47(5): 431-435. doi: .

ABSTRACT

Twenty eight diverse rice genotypes collected from West Bengal, have been studied to assess genetic diversity using eight SSR markers linked with QTL of drought tolerance. All the SSR markers generated two reproducible alleles except RM-300 where three alleles were observed. The percentage of highest frequency allele among the used SSR markers ranging from 57.14 % to 100 %. PIC value was higher in case of RM-231, RM-278 and RM-490 therefore these markers could be used for diversity analysis. For most of the markers rare alleles were detected in Kalonunia, Satika, Shungakalma, Turkibalam, Laldhula and in Asnala. So, these genotypes are suitable for marker assisted breeding with the aim of increasing drought tolerance. Dendogram revealed 5 clusters at 0.65 % similarity coefficient level. Polymorphism identified by 8 SSR markers and resultant diversity analysis of the Bengal landraces may serve in selecting parental combination as well as in marker assisted breeding programme.

REFERENCES

  1. Akagi, H.; Inagaki, Y.A and Fujimura, T. (1997). Highly polymorphic microsatellites of rice consist of AT repeats, and a classification of closely related cultivars with these microsatellite loci. Theor. Appl. Genet., 94: 61-67.
  2. Chattopadhyay, K.; Bhattacharyya, S.; Mandal, N and Sarkar, H. K. (2008). PCR-based characterization of mungbean (Vigna radiata) genotypes from Indian subcontinent at intra-and-inter-specific level. J. Plant Biochem. Biotech., 17: 141–148.
  3. Garland, S.H.; Lewin, L.; Abedinia, M.; Henry, R and Blakeney, A. (1999). The use of microsatellite polymorphisms for the identification of Australian breeding lines of rice (Oryza sativa L.). Euphytica., 108: 53–63.
  4. Lanceras, J. C.; Huang, Z. L.; Naivikul, O.; Vanavichit, A.; Ruanjaichon, V and Tragoonrung, S. (2004). Mapping of genes for cooking and eating qualities in Thai Jasmine rice (KDML105). DNA Research., 7: 93-101.
  5. Nazari, N and Pakniyat, H. (2008). Genetic diversity of wild and cultivated barley genotypes under drought stress using RAPD markers. Biotechnology., 7: 745-750.
  6. Nguyen, T.T.T.; Klueva, N.; Chamareek, V.; Aarti, A.; Magpantay, G.; Millena, A.C.M and Pathan, M. S. (2004). Saturation mapping of QTL regions and identification of putative candidate genes for drought tolerance in rice. Mol. Genet. Genom., 272: 35–46.
  7. Panaud, O.; Chen, X and McCouch, S. R. (1996). Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol. Gen. Genet., 252: 597–607.
  8. Rohlf, F.J. (2000). NTSYS-pc: Numerical taxonomy and multivariate analysis system. Version 2.1. Exeter Publications, New York, USA.
  9. Temnykh, S.; Park, W.D.; Ayres, N.; Cartinhour, S.; Hauck, N and Lipovtiesich, L. (2000). Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor. Applied Genet., 100: 697–2.
  10. Thanh, N. D.; Zheng, H. G.; Dong, N. V.; Trinh, L. N.; Ali, M. L and Nguyen, H. T. (1999). Genetic variation in root morphology and microsatellite DNA loci in upland rice (Oryza sativa L.) from Vietnam. Euphytica., 105: 43–51.
  11. Yang, G. P.; Saghai-Maroof, M. A and Xu, C.G. (1994). Comparative analysis of microsatellite DNA polymorphism in landraces and cultivars of rice. Mol. Gen. Genet., 245: 187–194.
  12. Youseef, M. A.; Mansour, A and Solliman, S. S. (2010). Molecular markers for new promising drought tolerant lines of rice under drought stress via RAPD-PCR and ISSR markers. J. American Science., 6: 355-359.
  13. Zeng, L.; Kwon, T. R.; Liu, T. R.; Wilson, X. C.; Grieve, C. M and Gregorio, G. B. (2004). Genetic diversity analyzed by microsatellite markers among rice (Oryza sativa L.) genotypes with different adaptations to saline soils. Plant Sci., 166: 1275–1285.
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Indian Journal of Agricultural Research
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    volume 47 issue 5 (october 2013) : 431-435

    MICROSATELLITE MARKER BASED DIVERSITY ANALYSIS FOR DROUGHT TOLERANCE IN SOME BENGAL LANDRACES OF RICE (ORYZA SATIVA L.)

    T
    Tirthankar Biswas *and Somnath Bhattacharya
    1Department of Genetics, Bidhan Chandra Krishi Viswavidyalaya Mohanpur, Nadia – 741 252, India

    • Submitted|

    • First Online |

    • doi

    Cite article:- Bhattacharya Somnath *and Biswas Tirthankar (2025). MICROSATELLITE MARKER BASED DIVERSITY ANALYSIS FOR DROUGHT TOLERANCE IN SOME BENGAL LANDRACES OF RICE (ORYZA SATIVA L.). Indian Journal of Agricultural Research. 47(5): 431-435. doi: .

    ABSTRACT

    Twenty eight diverse rice genotypes collected from West Bengal, have been studied to assess genetic diversity using eight SSR markers linked with QTL of drought tolerance. All the SSR markers generated two reproducible alleles except RM-300 where three alleles were observed. The percentage of highest frequency allele among the used SSR markers ranging from 57.14 % to 100 %. PIC value was higher in case of RM-231, RM-278 and RM-490 therefore these markers could be used for diversity analysis. For most of the markers rare alleles were detected in Kalonunia, Satika, Shungakalma, Turkibalam, Laldhula and in Asnala. So, these genotypes are suitable for marker assisted breeding with the aim of increasing drought tolerance. Dendogram revealed 5 clusters at 0.65 % similarity coefficient level. Polymorphism identified by 8 SSR markers and resultant diversity analysis of the Bengal landraces may serve in selecting parental combination as well as in marker assisted breeding programme.

    REFERENCES

    1. Akagi, H.; Inagaki, Y.A and Fujimura, T. (1997). Highly polymorphic microsatellites of rice consist of AT repeats, and a classification of closely related cultivars with these microsatellite loci. Theor. Appl. Genet., 94: 61-67.
    2. Chattopadhyay, K.; Bhattacharyya, S.; Mandal, N and Sarkar, H. K. (2008). PCR-based characterization of mungbean (Vigna radiata) genotypes from Indian subcontinent at intra-and-inter-specific level. J. Plant Biochem. Biotech., 17: 141–148.
    3. Garland, S.H.; Lewin, L.; Abedinia, M.; Henry, R and Blakeney, A. (1999). The use of microsatellite polymorphisms for the identification of Australian breeding lines of rice (Oryza sativa L.). Euphytica., 108: 53–63.
    4. Lanceras, J. C.; Huang, Z. L.; Naivikul, O.; Vanavichit, A.; Ruanjaichon, V and Tragoonrung, S. (2004). Mapping of genes for cooking and eating qualities in Thai Jasmine rice (KDML105). DNA Research., 7: 93-101.
    5. Nazari, N and Pakniyat, H. (2008). Genetic diversity of wild and cultivated barley genotypes under drought stress using RAPD markers. Biotechnology., 7: 745-750.
    6. Nguyen, T.T.T.; Klueva, N.; Chamareek, V.; Aarti, A.; Magpantay, G.; Millena, A.C.M and Pathan, M. S. (2004). Saturation mapping of QTL regions and identification of putative candidate genes for drought tolerance in rice. Mol. Genet. Genom., 272: 35–46.
    7. Panaud, O.; Chen, X and McCouch, S. R. (1996). Development of microsatellite markers and characterization of simple sequence length polymorphism (SSLP) in rice (Oryza sativa L.). Mol. Gen. Genet., 252: 597–607.
    8. Rohlf, F.J. (2000). NTSYS-pc: Numerical taxonomy and multivariate analysis system. Version 2.1. Exeter Publications, New York, USA.
    9. Temnykh, S.; Park, W.D.; Ayres, N.; Cartinhour, S.; Hauck, N and Lipovtiesich, L. (2000). Mapping and genome organization of microsatellite sequences in rice (Oryza sativa L.). Theor. Applied Genet., 100: 697–2.
    10. Thanh, N. D.; Zheng, H. G.; Dong, N. V.; Trinh, L. N.; Ali, M. L and Nguyen, H. T. (1999). Genetic variation in root morphology and microsatellite DNA loci in upland rice (Oryza sativa L.) from Vietnam. Euphytica., 105: 43–51.
    11. Yang, G. P.; Saghai-Maroof, M. A and Xu, C.G. (1994). Comparative analysis of microsatellite DNA polymorphism in landraces and cultivars of rice. Mol. Gen. Genet., 245: 187–194.
    12. Youseef, M. A.; Mansour, A and Solliman, S. S. (2010). Molecular markers for new promising drought tolerant lines of rice under drought stress via RAPD-PCR and ISSR markers. J. American Science., 6: 355-359.
    13. Zeng, L.; Kwon, T. R.; Liu, T. R.; Wilson, X. C.; Grieve, C. M and Gregorio, G. B. (2004). Genetic diversity analyzed by microsatellite markers among rice (Oryza sativa L.) genotypes with different adaptations to saline soils. Plant Sci., 166: 1275–1285.
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