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Current IssueEditorial BoardOnline First ArticlesArchive

Research Article

volume 35 issue 3 (september 2015) : 195-198,   Doi: 10.5958/0976-0547.2015.00044.0

Application of inter simple sequence repeat markers to analyze molecular relationships in wheat (Triticum aestivum L. em. Thell)

M
Meenu Goyal
R
Richa Gautam
P
Pardeep Kumar
S
Santosh Dhillon
1Department of Molecular Biology, Biotechnology and Bioinformatics, CCS Haryana Agricultural University, Hisar-125 004, India.
Cite article:- Goyal Meenu, Gautam Richa, Kumar Pardeep, Dhillon Santosh (2025). Application of inter simple sequence repeat markers to analyze molecular relationships in wheat (Triticum aestivum L. em. Thell). Agricultural Science Digest. 35(3): 195-198. doi: 10.5958/0976-0547.2015.00044.0.

ABSTRACT

Wheat is one of the most important staple food crop and is cultivated throughout the world. High temperature stress is one of the major constrains to wheat production worldwide. This study was undertaken with the objective to assess polymorphism among 14 genotypes (7 thermo-sensitive and 7 thermo-tolerant) of wheat. Genomic DNA of these wheat genotypes was amplified using 40 ISSR primers. Out of 40 primers screened, 26 ISSR primers which produced reproducible alleles were selected for allele scoring. Using these 26 ISSR primers, 187 amplified products were obtained of which 101 were polymorphic. ISSR analysis generated a moderate level of average polymorphism i.e. 52.97%. Average of amplified and polymorphic alleles per primer was calculated as 7.2 and 3.9, respectively. Overall size of PCR amplified products ranged between 220 bp and 3000 bp. Based on similarity matrix data, the value of similarity coefficient ranged from 0.73 to 0.87 with an average genetic similarity of 0.80. Cluster analysis based on ISSR markers discriminated all the wheat genotypes into two major clusters, one consisted of thermo-sensitive genotypes and other had all thermo-tolerant genotypes along with one thermo-sensitive genotype S1 (WH157). ISSR-24 amplified »2200bp band which was present in all 7 thermo-sensitive genotypes but absent in all thermo-tolerant genotypes. The above identified marker may potentially be used in marker assisted selection to develop thermo-tolerant wheat varieties.

REFERENCES

  1. Abbas, S.J., Shah, S.R.U., Rasool, G. and Iqbal, A. (2008). Analysis of genetic diversity in Pakistani wheat varieties by using randomly amplified polymorphic DNA (RAPD) primers. Am.-Eurasian J. Sustain. Agric. 2: 29-33.
  2. Ben El Maati, F., Jlibene, M. and Moumni, M. (2004). Study of the polymorphism of common wheat using ISSR markers. J. Food Agri. and Env. 2: 121-125.
  3. Blair, M.W., Panaud, O. and McCouch, S.R. (1999). Inter simple sequence repeat (ISSR) amplification for analysis of microsatellite motif frequency and finger printing in rice (Oryza sativa L.). Theor. Appl. Genet. 98: 780-792.
  4. Fatehi, R., Talebi, R. and Fayyaz, F. (2011). Characterization of Iranian landrace wheat accessions by inter simple sequence repeat (ISSR) markers. J. Appl. Environ. Biol. Sci. 1: 432-436.
  5. IPCC. (2007). In: Climate Change (2007): Synthesis Report, Con­tribution of Working Groups I, II and III to the Fourth Assessment Report of the Intergovernmental Panel on Cli­mate Change (eds. R.K. Pachauri, A. Reisinger), World Meteorological Organization, Geneva, Switzerland.
  6. Karaca, M. and Izbirak, A. (2008). Comparative analysis of genetic diversity in Turkish durum wheat cultivars using RAPD and ISSR markers. J. Food Agri. and Env. 6: 219-225.
  7. Lillemo, M., Ginkel, M.V., Trethowan, R.M., Hernandez, E. and Crossa, J. (2005). Differential adaptation of CIMMMYT bread wheat to global high temperature environments. Crop Sci. 45: 2443-2453.
  8. Malik, R., Sareen, S., Kundu, S. and Shoran, J. (2012). The use of SSR and ISSR markers for assessing DNA polymorphism and genetic diversity among Indian bread wheat cultivars. Prog. Agric. 12: 82-89.
  9. Manifesto, M.M., Schlatter, A., Hopp, H.E., Suarez, E.Y. and Dubcovsky, J. (2001). Quantitative evaluation of genetic diversity in wheat germplasm using molecular markers. Crop Sci. 41: 682-690.
  10. Najaphy, A., Parchin, R.A. and Farshadfar, E. (2011). Evaluation of genetic diversity in wheat cultivars and breeding lines using inter simple sequence repeat markers. Biotechnol. Biotechnol. Equip. 25: 2634-2638.
  11. Porch, T.G. and Jahn, M. (2001). Effects of high temperature stress on microsporogenesis in heat-sensitive and heat- tolerant genotypes of Phaseolus vulgaris. Plant Cell Env. 24: 723-731.
  12. Rane, J., Pannu, R.K., Sohu, V.S, Saini, R.S., Mishra, B. et al. (2007). Performance of yield and stability of advanced wheat genotypes under heat stress environments of Indo-Gangetic plains. Crop Sci. 47: 1561-1573.
  13. Rizkalla, S.A., Attia, A., Abd E-Hady, A., Hanna, N.S. and Nasseef, J.E. (2012). Genetic diversity based on ISSR and protein markers associated with earliness trait in wheat. World Appl. Sci. J. 20: 23-33.
  14. Rohlf, F. J. (1998). NTSYS-pc: Numerical Taxonomy and Multivariate Analysis System, Version 2.0, Exeter Software, New York.
  15. Sadigova, S., Sadigov, H., Eshghi, R., Salayeva, S. and Ojaghi, J. (2014). Application of RAPD and ISSR markers to analyses molecular relationships in Azerbaijan wheat accessions (Triticum aestivum L.). Bulg. J. Agric. Sci. 20: 87-95.
  16. Saghai-Maroof, M.A., Soliman, K.M., Jorgensen, R.A. and Allerd, R.W. (1984). Ribosomal spacer length polymorphism in barley: Mendelian inheritance, chromosomal location and population dynamics. Proc. Natl. Acad. Sci. USA 81: 8014-8019.
  17. Sharma, P., Sareen, S., Saini, M., Verma, A., Tyagi, B.S. and Sharma, I. (2014). Assessing genetic variation for heat tolerance in synthetic wheat lines using phenotypic data and molecular markers. Aust. J. Crop Sci. 8: 515-522.
  18. Sofalian, O., Chaparzadeh, N., Javanmard, A. and Hejazi, M.S. (2008). Study of the genetic diversity of wheat landraces from northwest of Iran based on ISSR molecular markers. Int. J. Agric. Biol. 10: 466-468.
  19. Zhu,Y., Hu, J., Han, R., Wang, Y. and Zhu, S. (2011). Fingerprinting and identification of closely related wheat (Triticum aestivum L.) cultivars using ISSR and fluorescence-labeled TP-M13-SSR markers. Aust. J. Crop Sci. 5: 846-850.
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    Research Article

    volume 35 issue 3 (september 2015) : 195-198,   Doi: 10.5958/0976-0547.2015.00044.0

    Application of inter simple sequence repeat markers to analyze molecular relationships in wheat (Triticum aestivum L. em. Thell)

    M
    Meenu Goyal
    R
    Richa Gautam
    P
    Pardeep Kumar
    S
    Santosh Dhillon
    1Department of Molecular Biology, Biotechnology and Bioinformatics, CCS Haryana Agricultural University, Hisar-125 004, India.
    Cite article:- Goyal Meenu, Gautam Richa, Kumar Pardeep, Dhillon Santosh (2025). Application of inter simple sequence repeat markers to analyze molecular relationships in wheat (Triticum aestivum L. em. Thell). Agricultural Science Digest. 35(3): 195-198. doi: 10.5958/0976-0547.2015.00044.0.

    ABSTRACT

    Wheat is one of the most important staple food crop and is cultivated throughout the world. High temperature stress is one of the major constrains to wheat production worldwide. This study was undertaken with the objective to assess polymorphism among 14 genotypes (7 thermo-sensitive and 7 thermo-tolerant) of wheat. Genomic DNA of these wheat genotypes was amplified using 40 ISSR primers. Out of 40 primers screened, 26 ISSR primers which produced reproducible alleles were selected for allele scoring. Using these 26 ISSR primers, 187 amplified products were obtained of which 101 were polymorphic. ISSR analysis generated a moderate level of average polymorphism i.e. 52.97%. Average of amplified and polymorphic alleles per primer was calculated as 7.2 and 3.9, respectively. Overall size of PCR amplified products ranged between 220 bp and 3000 bp. Based on similarity matrix data, the value of similarity coefficient ranged from 0.73 to 0.87 with an average genetic similarity of 0.80. Cluster analysis based on ISSR markers discriminated all the wheat genotypes into two major clusters, one consisted of thermo-sensitive genotypes and other had all thermo-tolerant genotypes along with one thermo-sensitive genotype S1 (WH157). ISSR-24 amplified »2200bp band which was present in all 7 thermo-sensitive genotypes but absent in all thermo-tolerant genotypes. The above identified marker may potentially be used in marker assisted selection to develop thermo-tolerant wheat varieties.

    REFERENCES

    1. Abbas, S.J., Shah, S.R.U., Rasool, G. and Iqbal, A. (2008). Analysis of genetic diversity in Pakistani wheat varieties by using randomly amplified polymorphic DNA (RAPD) primers. Am.-Eurasian J. Sustain. Agric. 2: 29-33.
    2. Ben El Maati, F., Jlibene, M. and Moumni, M. (2004). Study of the polymorphism of common wheat using ISSR markers. J. Food Agri. and Env. 2: 121-125.
    3. Blair, M.W., Panaud, O. and McCouch, S.R. (1999). Inter simple sequence repeat (ISSR) amplification for analysis of microsatellite motif frequency and finger printing in rice (Oryza sativa L.). Theor. Appl. Genet. 98: 780-792.
    4. Fatehi, R., Talebi, R. and Fayyaz, F. (2011). Characterization of Iranian landrace wheat accessions by inter simple sequence repeat (ISSR) markers. J. Appl. Environ. Biol. Sci. 1: 432-436.
    5. IPCC. (2007). In: Climate Change (2007): Synthesis Report, Con­tribution of Working Groups I, II and III to the Fourth Assessment Report of the Intergovernmental Panel on Cli­mate Change (eds. R.K. Pachauri, A. Reisinger), World Meteorological Organization, Geneva, Switzerland.
    6. Karaca, M. and Izbirak, A. (2008). Comparative analysis of genetic diversity in Turkish durum wheat cultivars using RAPD and ISSR markers. J. Food Agri. and Env. 6: 219-225.
    7. Lillemo, M., Ginkel, M.V., Trethowan, R.M., Hernandez, E. and Crossa, J. (2005). Differential adaptation of CIMMMYT bread wheat to global high temperature environments. Crop Sci. 45: 2443-2453.
    8. Malik, R., Sareen, S., Kundu, S. and Shoran, J. (2012). The use of SSR and ISSR markers for assessing DNA polymorphism and genetic diversity among Indian bread wheat cultivars. Prog. Agric. 12: 82-89.
    9. Manifesto, M.M., Schlatter, A., Hopp, H.E., Suarez, E.Y. and Dubcovsky, J. (2001). Quantitative evaluation of genetic diversity in wheat germplasm using molecular markers. Crop Sci. 41: 682-690.
    10. Najaphy, A., Parchin, R.A. and Farshadfar, E. (2011). Evaluation of genetic diversity in wheat cultivars and breeding lines using inter simple sequence repeat markers. Biotechnol. Biotechnol. Equip. 25: 2634-2638.
    11. Porch, T.G. and Jahn, M. (2001). Effects of high temperature stress on microsporogenesis in heat-sensitive and heat- tolerant genotypes of Phaseolus vulgaris. Plant Cell Env. 24: 723-731.
    12. Rane, J., Pannu, R.K., Sohu, V.S, Saini, R.S., Mishra, B. et al. (2007). Performance of yield and stability of advanced wheat genotypes under heat stress environments of Indo-Gangetic plains. Crop Sci. 47: 1561-1573.
    13. Rizkalla, S.A., Attia, A., Abd E-Hady, A., Hanna, N.S. and Nasseef, J.E. (2012). Genetic diversity based on ISSR and protein markers associated with earliness trait in wheat. World Appl. Sci. J. 20: 23-33.
    14. Rohlf, F. J. (1998). NTSYS-pc: Numerical Taxonomy and Multivariate Analysis System, Version 2.0, Exeter Software, New York.
    15. Sadigova, S., Sadigov, H., Eshghi, R., Salayeva, S. and Ojaghi, J. (2014). Application of RAPD and ISSR markers to analyses molecular relationships in Azerbaijan wheat accessions (Triticum aestivum L.). Bulg. J. Agric. Sci. 20: 87-95.
    16. Saghai-Maroof, M.A., Soliman, K.M., Jorgensen, R.A. and Allerd, R.W. (1984). Ribosomal spacer length polymorphism in barley: Mendelian inheritance, chromosomal location and population dynamics. Proc. Natl. Acad. Sci. USA 81: 8014-8019.
    17. Sharma, P., Sareen, S., Saini, M., Verma, A., Tyagi, B.S. and Sharma, I. (2014). Assessing genetic variation for heat tolerance in synthetic wheat lines using phenotypic data and molecular markers. Aust. J. Crop Sci. 8: 515-522.
    18. Sofalian, O., Chaparzadeh, N., Javanmard, A. and Hejazi, M.S. (2008). Study of the genetic diversity of wheat landraces from northwest of Iran based on ISSR molecular markers. Int. J. Agric. Biol. 10: 466-468.
    19. Zhu,Y., Hu, J., Han, R., Wang, Y. and Zhu, S. (2011). Fingerprinting and identification of closely related wheat (Triticum aestivum L.) cultivars using ISSR and fluorescence-labeled TP-M13-SSR markers. Aust. J. Crop Sci. 5: 846-850.
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