Volume 7, Issue 1, March 2019, Page: 1-11
RAPD Fingerprinting and Genetic Relationships of Some Wheat Genotypes
Manal Eid, Botany Department, Faculty of Agriculture, Suez Canal University, Ismailia, Egypt
Received: Dec. 14, 2018;       Accepted: Jan. 15, 2019;       Published: Feb. 4, 2019
DOI: 10.11648/j.ijgg.20190701.11      View  381      Downloads  107
Abstract
The genetic variability and relationships among 5 Egyptian wheat genotypes representing Sakha8, Sakha69, Sakha93, Sids1 and Gemmiza7 were analyzed using 8 random amplified polymorphic DNA (RAPD). A total of 77 loci (73 % polymorphic) in all 5 wheat genotypes was amplified and discriminated all the wheat genotypes. PIC, RP, MI, DP values were evaluated and revealed degree of genetic divergence among the cultivars used. A cluster based on UPGMA (Un-weighted Pair-Group Method with Arithmetic Mean) analysis was used to determine genetic similarities. The five wheat genotypes were divided into two main clusters. Cluster 1 was divided into two groups. In subgroup 1 were included genotype 1 and genotype 2. They seemed very close which might depict sharing of the genetic background among the genotypes. In consequence, the close genetic relationships are entirely alarming and may hinder further plant improvement. Genotype 5 was in subgroup 2. The second cluster was included genotype 3 and genotype 4. The same genotypes were also assessed in field conditions for structural analyses, which were carried out based on six yield components. The dendrogram created was comparatively analyzed with the RAPD dendrogram. This study additionally indicates that RAPD markers are useful for distinguishing and characterizing wheat cultivars. The genetic relatedness among these genotypes could provide useful information for conservation and selection of cross parents in breeding.
Keywords
Wheat, RAPD, Polymorphic, Genetic Relatedness, Clusters
To cite this article
Manal Eid, RAPD Fingerprinting and Genetic Relationships of Some Wheat Genotypes, International Journal of Genetics and Genomics. Vol. 7, No. 1, 2019, pp. 1-11. doi: 10.11648/j.ijgg.20190701.11
Copyright
Copyright © 2019 Authors retain the copyright of this article.
This article is an open access article distributed under the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
Reference
[1]
FAO (2015). Production and protection series http: www.fao.org/worldfoodsituation/csdb.
[2]
Rosegrant A. L. (1997). Wheat Demand in Future”, Oxford Economic Papers, Vol. 28, pp. 102-117.
[3]
Briggle, L. W. & Reitz, L. P. (1963). Classification of Triticumspecies and of wheat varieties grown in the United States. Technical Bulletin 1278. United States Department of Agriculture.
[4]
Joshi, C. P., and Nguyen, H. T. (1993). RAPD (random amplied polymorphic DNA) analysis based intervarietal genetic relationships among hexaploid wheat. Plant Science. 93: 95-103.
[5]
The Agricultural Economics and Statistics Department, Ministry of Agriculture, Egypt (2014).
[6]
Bretting PK &Widrlechner MP (1995). Genetic markers and plant genetic resources management. In: Plant breeding reviews (Janick J, ed.). John Wiley and Sons Inc., New York, 11-87.
[7]
Heckenberger, M., Maurer, H. P., Melchinger, A. E., & Frisch, M. (2008). The lab soft database: A comprehensive database management system for intergrating phenotypic and genomic data in academic and commercial plant breeding programs. Euphytica, 161, 173-179.
[8]
Adugna, W., Labuschagne, M. T., &Viljoen, C. D. (2006). The use of morphological and AFLP markers in diversity analysis of linseed. Biodiversity and Conservation, 15, 3193-3205.
[9]
Sultana, T., Ghafoor, A., & Ashraf, M. (2005). Genetic divergence in lentil germplasm for botanical descriptors in relation with geographic origins. Pakistan Journal of Botany, 37, 61-69.
[10]
Fufa, H., Baenziger, P. S., Beecher, B. S., Dweikat, I., Graybosch, R. A., and Eskridge, K. M. (2005). Comparison of phenotypic and molecular marker-based classifications of hard red winter wheat cultivars. Euphytica, 145, 133-146.
[11]
Manifesto, M. M., Schlatter, A. S., Hopp, H. E., Suarez, E. Y., Dubcovky, J., (2001). Quantitative evaluation of genetic diversity germplasm using molecular markers. Crop Science. 41, 682–690.
[12]
Stuber CW, Edwards MD, Wendal JF (1987) Molecular marker Facilite'd investigations of quantitative traits loci in maize 2. Factors influencing yield and its component traits. Crop Science. 27, 639-648.
[13]
O¨zlem Ates¸ So¨nmezog, Begu¨m Terzi. (2018). Characterization of some bread wheat genotypes using molecular markers for drought tolerance. Physiology and Molecular Biology of Plants .24: 159–166.
[14]
Piyusha S& Naveen K S. (2018). SSR Molecular Markers are efficient tools for finding Genetic Diversity in Bread Wheat. International Journal of Current Microbiology and Applied Sciences .1098-1105.
[15]
Tanksley SD, Young ND, Paterson AH, Bonierbale MW (1989) RFLP mapping in plant breeding: new tools for an old science. Biotechnology 7, 257-264.
[16]
Paterson AH, Damon S, Hewitt JD, Zamir D, Rabinowitch HD, Lincoln SE, Lander ES, Tanksley SD (1991) Mendelian factors underlying quantitative traits in tomato: comparison across species, generations and environments. Genetics 127, 181-197.
[17]
Ashraf, J.; Malik, W.; Iqbal, M.; Khan, A.; Qayyum, A.; Noor, E.; Abid, M.; Cheema, H.; Ahmad, M. (2016) Comparative analysis of genetic diversity among bt cotton genotypes using est-ssr, issr and morphological markers. J. Agric. Sci. Technol., 18, 517–531.
[18]
Kara, K. and M. R. Knaouni (2017). Genetic diversity of bread wheat genotypes revealed by revealed by agro-morphological characteristics and microsatellite SSR markers. International Journal of Engineering Research and Technology.6: 176-182.
[19]
Phougat D, I. S. Panwar, M. S. Punia and S. K. Sethi. (2018). Microsatellite markers-based characterization in advance breeding lines and cultivars of bread wheat. Journal of Environmental Biology.39: 339-346.
[20]
Williams, J. G., Kubelik, A. R., Livak, K. J., Rafalski, J. A., and Tingey, S. V. (1990). DNA polymorphisms amplified by arbitrary primers are useful as genetic markers. Nucleic Acids. Research, 18, 6531-6535.
[21]
Ovesna, J., Polakova, K., and Leisova, L. (2002). DNA analyses and their application in plant breeding. Czech Journal of Genetics and Plant Breeding, 38, 29-40.
[22]
Kumar, P., Gupta, V. K., Misra, A. K., Modi, D. R., and Pandey, B. K. (2009). Potential of molecular markers in plant biotechnology. Plant Omics Journal, 2, 141-162.
[23]
Asif, M., Rahman, M., and Zafar, Y. (2005). DNA fingerprint studies of some wheat (Triticum aestivum L.) genotypes using random amplified polymorphic (RAPD) analysis. Pakistan Journal of Botany, 37, 271-277.
[24]
Nimbal, S., R. K. Behl and A. K. Chhabra, (2009). RAPD analysis for genetic polymorphism in bread wheat (Triticum aestivum L. em. Thell) genotypes varying for grain protein content. The South Pacific Journal of Natural Science, 27: 49-56.
[25]
Saleh, B., (2012). Biochemical and Genetic Variation of some Syrian Wheat Varieties using NIR, RAPD and AFLPs Techniques. Journal of Plant Biology Research, 1 (1): 1-11.
[26]
SAS Institute (2003) SAS Users Guide. Version 9.1 reviews. SAS Institute INS Inc, Cary, NC.
[27]
Dellaporta, S. L., Wood, J., Hicks, J. B. (1983) A plant DNA minipreparation: Version II. Plant Molecular Biology Reporter, 1 (4). pp. 19-21. ISSN 07359640 (ISSN).
[28]
Porebski, S., Bailey, L. G. and Baum, B. R. (1997) Modification of a CTAB DNA Extraction Protocol for Plants Containing High Polysaccharide and Polyphenol Components. Plant Molecular Biology Reporter, 15, 8-15.
[29]
Liu K & Muse SV. (2005). Power Marker: an integrated analysis environment for genetic marker analysis. Bioinformatics. 21: 2128–2129.
[30]
Shannon, C. E. & Weaver, W. (1949). The mathematical theory of communication. University of Illinois Press, Urbana, USA.
[31]
Powell W, Morgante M, Andre C, Hanafey M, Vogel J, Tingey S, Rafalski A. (1996) The comparison of RFLP, RAPD, AFLP and SSR (Microsatellite) markers for germplasm analysis. Molecular Breeding. 2,225–238.
[32]
Prevost, A. & Wilkinson, M. J. (1999) A New System of Comparing PCR Primers Applied to ISSR Fingerprinting of Potato Cultivars. Theoretical and Applied Genetics, 98, 107-112.
[33]
Tessier, R., J. David, P. This, J. M. Boursiquot, and A. Charrier. (1999). Optimization of the choice of molecular markers for varietal identification in Vitis vinifera L. Theoretical and Applied Genetics .98: 171–177.
[34]
Smith, J. S. C &Smith O. S. (1992): Fingerprinting crop varieties. Advances in Agronomy. 47: 85-140.
[35]
Salem KFM, El-Zanaty AM, Esmail RM (2008) Assessing wheat (Triticum Aestivum L.) genetic diversity using morphological characters and microsatellite markers. World Journal of Agricultural Sciences 4: 538-544.
[36]
Pagnotta MA, Mondini L, Codianni P, Fares C (2009). Agronomical, quality, and molecular characterization of twenty Italian emmer wheat (Triticum dicoccon) accessions. Genetic Resources and Crop Evolution 56: 299-310.
[37]
Zarkti H, Ouabbou H, Hilali A, Udupa SM (2010). Detection of genetic diversity in Moroccan durum wheat accessions using agro-morphological traits and microsatellite markers. African journal of agricultural research, 5: 1837-1844.
[38]
Ahmed NCM &Khaliq IMM (2007). The inheritance of yield and yield components of five wheat hybrid populations under drought conditions. Indonesian J. Agric. Sci., 8 (2): 53-59.
[39]
Songsri P, Joglloy S, Kesmala T, Vorasoot N, Akkasaeng CPA, Holbrook C (2008). Heritability of drought resistance traits and correlation of drought resistance and agronomic traits in peanut. Crop Science., 48: 2245-2253.
[40]
Abou-Deif. M. H, M. A. Rashed, M. A. A. Sallam, E. A. H. Mostafa and W. A. Ramadan. (2015). Response of Twenty Wheat Varieties to Drought Stress Based on Some Agronomic Traits and Molecular Analysis. Asian Journal of Plant Sciences 14 (1): 1-10.
[41]
Snape JW, Butterworth K, Whitechurch E, Worland AJ. (2001). Waiting for fine times: genetics of flowering time in wheat. Euphytica. ; 119: 185–90.
[42]
Seki M, Chono M, Matsunaka H, Fujita M, Oda S, Kubo K (2011). Distribution of photoperiod-insensitive alleles Ppd-B1a and Ppd-D1a and their effect on heading time in Japanese wheat cultivars. Breed Sci.; 61: 405–12.
[43]
Abdelsalam N R & Reham MA (2013). Genetic diversity of domesticated wheat and wild wheat. Egypt. J. Genet. Cytol., 42: 21-36.
[44]
Al-Naggar AM, Sobieh ES, Atta MM & Al-Azab KF (2013). Unique SSR markers for drought tolerance in newly-developed bread wheat. World Research Journal of Agronomy. 1.-015-025.
[45]
Kiseleva Antonina A., Andrey B. Shcherban, Irina N. Leonova, Zeev Frenkel and Elena A. Salina. (2016.) Identification of new heading date determinants in wheat 5B chromosome. BMC Plant Biology.35-81.
[46]
Ahmadizadeh M., Shahbazi H., Valizadeh M., Zaefizadeh M. (2011). Genetic diversity of durum wheat landraces using multivariate analysis under normal irrigation and drought stress conditions. Afr. J. Agric. Res. 6: 2294–2302.
[47]
Talebi R., Fayyaz F. (2012). Quantitative evaluation of genetic diversity in Iranian modern cultivars of wheat (Triticum aestivum L.) using morphological and amplified fragment length polymorphism (AFLP) markers. Biharean Biologist, 6: 14–18.
[48]
Shashikala S. K. (2006). Analysis of genetic diversity in wheat. MSc. University of Agricultural Sciences, Dharwad.
[49]
Nimbalkar, C. A., NavaleP. A.& Biradar, A. B. (2002). genetic diversity in wheat. Journal of Maharashtra Agricultural Universities, 27 (1): 43-45.
[50]
Moioli, B., A. Georgoudis, F. Napolitano, G. Catillo, E. Giubilei, C. Ligda and M. Hassanane. (2001). Genetic Diversity between Italian, Greek and Egyptian buffalo populations. Livestock Production Science. 70: 203-211.
[51]
Ramiz T A, Mehraj A. & Alamdar C M. (2007). Genetic Identification of Diploid and Tetraploid Wheat Species with RAPD Markers. Turk J Biol 31: 173-180.
[52]
Qadir S A, Mohammed Q. K,&Fahrul Z H. (2017). Drought Tolerance and Genetic Diversity among Selected Wheat Cultivars. ZANCO Journal of Pure and Applied Sciences. 29 (3): 110-117.
[53]
Ajibade, S., Weeden, N. & Chite, S. (2000). Inter simple sequence repeat analysis of genetic relations in genus Vigna. Euphytica. 111: 47-55.
[54]
Ghalmi, N., Malice. M., Ounan, S and Baudoin, J. (2010). Morphological and molecular diversity within Algerian Cowpea (Vigna Unguiculata L) landraces. Genetic Resources and Crop Evolution 57: 371-386.
[55]
Hurtado, A., & Rodríguez-Valera, F. (1999). Accessory DNA in the genomes of representatives of the Escherichia coli reference collection. Journal of bacteriology, 181 (8), 2548-2554.
[56]
Crespan, M R. Botta, N. Milani, (1999) Molecular characterization of twenty seeded and seedless table grape cultivars grape (Vitisvinifera L.), Vitis. 38: 87–92.
[57]
Novoselovi´c D, Bentley AR, Šimek R, Dvojkovi´ cK, Sorrells ME, Gosman N, Horsnell R, Drezner G and Šatovi´ cZ (2016) Characterizing Croatian Wheat Germplasm Diversity and Structure in a European Context by DArT Markers. Front. Plant Sci. 7: 184. doi: 10.3389/fpls.2016.00184.
[58]
Najaphy A., R. Ashrafi Parchin, and E. Farshadfar (2011). Evaluation of genetic diversity in wheat cultivars and breeding lines using inter simple sequence repeat markers. Biotechnology & Biotechnological Equipment. 4: 2634-2638.
[59]
Dalamu T., K. Behera, A. B. Gaikwad, S. Saxena, C. Bharadwaj, and A. D. Munshi (2012). Morphological and molecular analyses define the genetic diversity of Asian bitter gourd (Momordica charantia L.). Australian Journal of Crop Science 6: 261.
[60]
Sadeghi A. and K. Cheghamirza (2012). Efficiency of RAPD and ISSR marker systems for studying genetic diversity in common bean (Phaseolus vulgaris L.) cultivars. Annals of Biological Research. 3: 3267-3273.
[61]
Safari S., A. A. Mehrabi, and Z. Safari (2013). Efficiency of RAPD and ISSR markers in assessment of genetic diversity in Brassica napus genotypes. International Journal of Agriculture and Crop Sciences 5: 273-279.
[62]
Botstein, D., R. L. White, M. Skolnick and R. W. Davis. (1980). Construction of a genetic linkage map in man using restriction fragment length polymorphism. The American Journal of Human Genetics. 32: 314- 331.
[63]
Bibi S, Imtiaz A., Khan M., Abdullah K &Nighat S. (2012). Estimation of genetic variability among elite wheat genotypes using RAPD analysis. Pak. J. Bot., 44 (6): 2033-2040.
[64]
Al-Kaab, Dhafir H.; Hamdalla, Majid Sh.; Dweikat, Ismail M.; and Al-Saedi, Noora J., (2016). "Estimation of the Degree of Diversity for SomeIraqi Wheat Varieties through ISSR, SRAP and RAPD Markers. American Journal of Experimental Agriculture .11 (3): 1-11.
[65]
Besnard, G., Breton, C., Baradat, P., Khadari, B. and Bervillé, A.(2001). Cultivar identification in olive based on RAPD markers. J. Am. Soc. Hort. Sci. 126: 668-675.
[66]
Nagaich D & A Chandra. (2009). Assessment of Genetic Diversity and Identification of Informative Molecular Markers for Germplasm Characterization in CaribbeanStylo (Stylosanthes hamata). J. Plant Biochemistry & Biotechnology Vol. 18 (2), 257-260,
[67]
Sabbour, A. M. Elham F. Gomaa, 2R. A. Sallam and Shimaa A. Shaaban. (2015). Genetic Diversity among Some Wheat (Triticum aestivum L.) Genotypes as Revealed by RAPD and SSR Analyses. American-Eurasian J. Agric. & Environ. Sci., 15 (10): 2069-2075
[68]
ALiYEV R, Mehraj A, Alamdar C. (2007). Genetic Identification of Diploid and Tetraploid Wheat Species with RAPD Markers. Turkish Journal of Biology 31: 173-180.
[69]
Al-Doss. A, Khaled. A, Eid. A and Mohamed, B. (2009). Assessment of genetic diversity in Saudi wheat genotypes under heat stress using molecular markers and agronomic traits. International journal of plant breeding. 3 (20): 103-110.
[70]
Olgun M., Gözde A, Metin T, Onur K and Engin T. (2015). Identification of Genetic Divergence in Some Bread Wheat Varieties by Rapd and Issr Analyses. Süleyman Demirel Üniversitesi Ziraat Fakültesi Dergisi 10 (2): 94-101.
[71]
AL-Tamimi, A. J. T. (2014). Genetic Diversity of Some Tomato Genotypes Using RAPD and SSR markers in Iraq. PhD thesis. Faculty of science. University of kufa. p 183.
[72]
Bell, K. L., Rangan, H., Kull, C. A., Murphy, D. J., Botanic, R., & Victoria, G. (2015). The history of introduction of the African baobab Malvaceae : Bombacoideae ) in the Indian subcontinent.: Royal Society Open science. 2: 150370. http://dx.doi.org/10.1098/rsos.150370.
[73]
Belaj, A.; Satovic, Z.; Cipriani, G.; Baldoni, L.; Testolin, L.; Rallo, L. (2003). Comparative study of the discriminating capacity of RAPD, AFLP and SSR markers and of their effectiveness in establishing genetic relationships in olive. Theoretical and Applied Genetics. 107: 736.
[74]
Rajora, O. and Rahman, M. (2003). Microsatellite DNA and RAPD fingerprinting, identification and genetic relationships of hybrid poplar (Populus x canadensis) cultivars. Theoretical and Applied Genetics. 106: 470-477.
[75]
Gorji, A. H.; Darvish, F.; Esmaeil zadehadam, M. and Aziz F. (2010). Application RAPD technique for recognition genotypes tolerant to drought in some of bread wheat. Asian Journal of Biotechnology.2 (3): 159-168.
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