Determination of genetic variation of Rhanterium epapposum in Kuwait desert using RAPD and SRAP DNA-based markers

F. Al-SALAMEEN, S. Al-AMAD, H. Al-HASHASH

Abstract


Rhanterium epapposum (R. epapposum) Olive is a perennial shrub found in the northern part of Kuwait with unique climate and land conditions such as drought and salt tolerance. Due to several reasons, this species is on the verge of extinction. R. epapposum is one of the desert forage plants upon which camel and sheep graze. Bedouins also use R. epapposum as a source of fuel. Thus, it is necessary to evaluate the genetic diversity within and among population of germplasm to determine and understand the extent of genetic variation that exists in the species. This evaluation was performed in an effort to reduce or stop the genetic erosion. Twenty-four Random Amplified Polymorphic DNA (RAPD) and 23 Sequence Related Amplified Polymorphisms (SRAPs) markers were used to amplify DNA fragments from 18 different samples collected from five major locations in Kuwait. Results indicated that there were 64 alleles produced by RAPD, while 129 alleles were produced by SRAP. With slightly different samples in each cluster, the cultivars were grouped into four distinct clusters by coefficients of similarity that were generated with RAPD, SRAP, and the combined data of both. With the absence of any pedigree information, this study indicated that these DNA-based markers could be used to obtain efficient, accurate, and high throughput fingerprinting, revealing significant variation among the existing locations that can be explored in order to preserve the species.


Keywords


Genetic diversity; RAPD; Rhanterium epapposum; SRAP

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References


Abou, El-Nil, M., Sudhersan, C., Hussain, J. Al-Melhem, S. 2000. Mass propagation of native desert plants Phase II: development of tissue culture technique. Final report, rep. No. 5937, KISR Kuwait

Almanza-Pinzon, M. I., Khairallah, M., Fox, P. N. Warburton, M. L. 2003. Comparison of molecular markers and coefficients of parentage for the analysis among spring bread wheat accessions. Euphytica, 130: 77-86.

Anderson, J. A., Churchill, G. A., Autrique, J. E., Sorells, M. E. Tanksley, S. D. 1993. Optimizing parental selection for genetic linkage maps. Genome 36: 181186.

Brown, G. Al-Mazrooei, S. 2003. Rapid vegetation regeneration in a seriously degraded Rhanterium epapposum community in northern Kuwait after 4 years of protection. Journal of Environmental Management 68: 387-395.

Budak, H., Shearman, R., Parmaksiz Dweikat, I. 2004. Application of sequence-related amplified polymorphism (SRAP) markers for characterization of cool and warm season turfgrass species. Horticultural Science 39: 955-958.

Cox, L. H. Fagan, J. T., Greenberg, B. Hemmig, R. 1986. Research at the census bureauinto disclosure avoidance techniques for tabular data. proceedings of the section onsurvey research methods, american statistical association, alexandria, VA, pp. 388-393.

Engles, J. M. M., Rao, V. R., Brown, A. H. D Jackson, M. T. 2002. Managing Plant Genetic Diversity, p. 487. CABI Publishing, UK.

FAO, 1998. The States of the Worlds Plant Genetic Resources for Food and Agriculture, p. 510. FAO, Rome, Italy.

Ferriol, M., Pico, B. Nuez, F. 2003. Genetic diversity of a germplasm collection of Cucurbita pepo using SRAP and AFLP markers. Theoritical and Applied Genetic 107: 271-282.

Ferriol, M., Pico, B., de Cordova, P. F. Nuez, F. 2004. Molecular diversity of a germplasm collection of squash (Cucurbita moschata) determined by SRAP and AFLP markers. Crop Science. 44: 653-664.

Halwagy, R. Halwagy, M. 1974. Ecological studies on the desert of Kuwait. II. The Vegetation. Journal of the University of Kuwait. 1: 87-95.

Halwagy, R., Moustafa, A. F. Kamel, S. M. 1982. On the ecology of the desert vegetation in Kuwait. Journal of Arid Environments 5: 95-107.

Jaccard, P. 1980. Nouvelles recherches surla distribution florale. Bulletin Of Society Science Nat. 44: 223-270.

Jang, Y Liu J. P. 2011. Evaluation of genetic diversity in Piper spp using RAPD and SRAP markers. Genetic and Molecular Research 10(4): 2934-2943.

Li, G., Gao, M., Yang, B. Quiros, C. F. 2003. Gene for gene alignment between the Brassica and Arabidopsis genomes by direct transcriptome mapping. Theortical and Applied Genetic 107: 168-180.

Li, G. Quiros, C.F. 2001. Sequence-related amplified polymorphism (SRAP), a new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theoretical and Applied Genetics 103: 455-461.

Lin, Z. X., Zhang, X. L. Nie, Y. C. 2004. Evaluation of application of a new molecular marker SRAP on analysis of F2 segregation population and genetic diversity in cotton. Journal of Genetics and genomics 31(6): 622-626.

Omar, S. A., Misak, R., King, P., Shahid, Sh. A., Abo-Rizq, H., Grealish, G. Roy, W. 2001. Mapping the vegetation of Kuwait through reconnaissance soil survey. Journal of Arid Environments 48: 341-55.

Omar, S. A., Al-Mutawa Y. Zaman, S. 2000. Vegetation of Kuwait. Al Assriya Printing Press Publishing and Distribution Company and the Kuwait Institute for Scientific Research, Kuwait.

Omar, S. A. S., Bhat, N. R. Asem, A. 2009. Critical Assessment of the Environmental Consequences of the Invasion of Kuwait, the Gulf War, and the Aftermath. Hdbook of. Enviromental Chemistry. 141-170.

Omar, S. A. Bhat, N. R. 2008. Alteration of the Rhanterium epapposum plant community in Kuwait and restoration measures. International Journal of Environmental Studies 65 (1): 139-55.

Pan, Q. H., Hu, Z. D. Tanisaka, T. 2003. Fine mapping of the blast resistance gene Pil5, linked to Pii on rice chromosome 9. Acta Botanica Sinica 45(7): 871-877.

Paterson, B. M., Walldorf, U., Eldridge, J., Dubendorfer, A., Frasch, M. Gehring, W. J. 1991. The Drosophila homologue of vertebrate myogenic-determination genes encodes a transiently expressed nuclear protein marking primary myogenic cells. Proceedings of the National Academy of Sciences of the United 88: 3782-3786.

Qi, X. H., Yang J. H. Zhang M. F. 2008. AFLP-based genetic diversity assessment among Chinese vegetable mustards (Brassica juncea (L.) Czern.). Genetic Resources and Crop Evolution 55(5): 705-711.

Riaz, A., Potter, D. Stephen, M. 2004. Genotyping of peach and nectarine cultivars with SSR and SRAP molecular markers. Journal of American Society for Horticultural Science 129: 204-210.

Sokal, R. R. Michener, C. D. 1958. A statistical method for evaluating systematicrelationships. Universty of Kansas Science Bulletin 38: 1409-1438.

Souza. E. Sorrells, M. E. 1989. Pedigree analysis of north American oat cultivar released from 1951 to 1985. Crop Science 29: 595-601.

Williams, J. G. K., Kubelik, A. R., Livak, K. J., Rafalski, J. A Tingey, S. V. 1990. DNA polymorphism amplified by arbitrary primers are useful as genetic markers. Nucleic Acid Reseach 18: 6531-6535.

Welsh, J. McClelland, M. 1990. Fingerprinting genomes using PCR with arbitrary primers. Nucleic Acids Research 18(24): 7213-7218.

Zuur, A. F., Ieno, E. N. Smith, G. M., 2007. Principal coordinate analysis and non-metric multidimensional scaling. In: A. F. Zuur, E. N. Ieno and G. M. Smith (eds.), Analysing Ecological Data, Springer, New York. Pp. 259-264.


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