Generation and exploitation of EST-derived SSR markers for assaying molecular diversity in durum wheat populations
- 166 Downloads
Durum wheat [Triticum turgidum L. subsp. turgidum convar. durum (Desf.) MK] is an important cereal crop economically and nutritionally in the Central Asia and Caucasian, West Asia, and North Africa (CWANA) regions. Durum landraces and improved lines are largely grown in this region. Its genetic diversity has been studied using different molecular markers. The increasing availability of expressed sequence tags (ESTs) in wheat (Triticum aestivum) and related cereals provides a valuable resource of non-anonymous DNA markers to study durum diversity. In this study, a set of 517,319 Triticum aestivum EST sequences was employed for the identification of wheat simple sequence repeats called microsatellites (W-eSSRs) with the help of a PERL5 script called MISA. In comparison, barley microsatellites (B-eSSRs) have been used to exploit their transferability to durum wheat. Newly developed W-eSSR markers were probed on the 115 recombinant inbred lines (RIL) of the International Triticeae Mapping Initiative (ITMI) population (Opata 85 × Synthetic 7984). The polymorphic eSSRs were mapped. To examine the potential of the two types of eSSRs markers, 12 W-eSSR markers and 13 B-eSSR markers were used to fingerprint 153 wheat genotypes. Our results indicate that: (1) B-eSSRs show a high level of transferability to wheat, (2) the developed W-eSSRs are significantly polymorphic than those derived from genomic regions, (3) new W-eSSRs were identified and integrated in the ITMI genetic linkage map and, (4) B-eSSR and W-eSSRs are providing additional markers for comparative mapping following gene introgressions from wild species and carrying out evolutionary studies.
KeywordsB-eSSRs ESTs Genetic diversity Genetic linkage mapping Polymorphism Information Content (PIC) W-eSSRs
The authors’ research was supported by grants to ICARDA from the German Federal Ministry of Economic Cooperation and Development (BMZ, Bonn, Germany) under the project “Exploration of Genetic Resources Collections at ICARDA for Adaptation to Climate Change: Identification and Utilization of Sources of Stress Tolerance”. We thank Dr. W. Choumane (Teschrine University, Lattakia, Syria), Dr. M. Nachit (durum wheat breeder, ICARDA) and Dr. K. Amar (durum wheat breeder, CIMMYT) for their comments and reviewing the manuscript; and Dr. J. Rayan and Mr. A. Varadachary for editing the paper.
- Blumler MA (1998) Introgression of durum wheat into wild emmer and the agricultural question. In: Damania AB, Valkoun J, Wilcox G, Qualset CO (eds) The origin of agriculture and crop domestication. ICARDA, Aleppo, Syria. pp 252–268Google Scholar
- Chabane K, Valkoun J (2001) Molecular characterization of wild and cultivated tetraploid wheat of the Near East Origin. Proceeedings of the 4th international triticeae symposium September 10–12, 2001, Cordoba, Spain, pp 211–214Google Scholar
- Graner A, Dehmer KJ, Thiel T, Börner A (2004) Plant genetic resources: benefits and implications of using molecular markers. In: Carmen de Vicente M (ed) Issues in Genetic Resources No. 11. IPGRI, Rome, Italy, pp 26–32Google Scholar
- Gupta PK, Varshney RK, Prasad M (2002) Molecular markers: principles and methodology. In: Jain SM, Ahloowalia BS, Brar DS (eds) Molecular techniques in crop improvement. Kluwer Academic Publishers, The Netherlands, pp 9–54Google Scholar
- Khlestkina E, Varshney RK, Röder M, Graner A, Bömer A (2006) Comparative assessment of genetic diversity in cultivated barley collected at different periods of the last century in Austria, Albania and India by using genomic and genic SSR markers. Plant Genet Resour 4(2):125–133Google Scholar
- Maccaferi M, Sanguineti MC, Natoli J, Ortega JLA, Ben Salem M, Bort J, Chenenaoui C, De Ambrogio E, Del Moral LG, De Montis A, Ahmed A, Maalouf F, Machlab H, Moragues M, Motawaj J, Nachit M, Nesrallah N, Ouabbou H, Royo C, Tuberosa R (2006) A panel of elite accessions of durum wheat (Triticum durum Desf.) suitable for association mapping studies. Plant Genet Resour 4(1):79–85Google Scholar
- Nachit M, Elouafi I, Pagnotta MA, El Saleh A, Iacono E, Labhilili M, Asbati A, Azrak M, Hazzam H, Benscher D, Khairallah M, Ribaut JM, Tanzarella OA, Porceddu E (2001) Molecular linkage map for an intraspecific recombinant inbred population of durum wheat (Triticum turgidum L. var . durum). Theor Appl Genet 102:177–186CrossRefGoogle Scholar
- Prasad M, Varshney RK, Roy JK, Balyan HS, Gupta PK (2000) The use of microsatellites for detecting DNA polymorphism genotype identification and genetic diversity in wheat. Theor Appl Genet 100:584–592Google Scholar
- Salamiani F, Ozkan H, Brandolini A, Schäfer-Pregl R, Martin W (2002) Genetics and geography of wild cereal domestication in the Near East. Nat Rev Genet 3:429–441Google Scholar