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Öğe Development, characterization and mapping of microsatellite markers for lentil (Lens culinaris Medik.)(Blackwell Publishing Ltd, 2015) Andeden, Enver Ersoy; Baloch, Faheem Shahzad; Çakır, Esra; Toklu, Faruk; Özkan, HakanLentil is the sixth most important pulse crop terms of production in the world, but the number of available and mapped SSR markers are limited. To develop SSR markers in lentil, four genomic libraries for (CA)n, (GA)n, (AAC)n and (ATG)n repeats were constructed. A total of 360 SSR primers were designed and validated using 15 Turkish lentil cultivars and genotypes. The most polymorphic repeat motifs were GA and CT, with a mean number of alleles per locus of 7.80 and 6.55, respectively. Seventy-eight SSR primers amplified a total of 400 polymorphic alleles, whereas 71 SSR primers produced markers within the expected size range. For 78 polymorphic SSR primers, the average number of alleles per locus was 5.1 and PIC value ranged from 0.07 to 0.89, with an average of 0.58. A linkage map was constructed using 92 individual F2 plants derived from a cross between Karacadağ × Silvan, with 47 SSR markers. The SSR markers developed in this study could be used for germplasm classification and identification and mapping of QTL in lentil. © 2015 Blackwell Verlag GmbH.Öğe High levels of segregation distortion in the molecular linkage map of bread wheat representing the West Asia and North Africa region(Tubitak Scientific & Technical Research Council Turkey, 2016) Baloch, Faheem Shehzad; Alsaleh, Ahmad; Andeden, Enver Ersoy; Hatipoğlu, Rüştü; Nachit, MiloudiThe Fertile Crescent is a primary center of wheat domestication and diversity. Despite its importance for bread wheat breeding, few efforts have been made to fully understand the genetic structure of the Anatolian bread wheat. A lack of information regarding the genetic structure of the bread wheat from this region is evident. Therefore, this study aimed to provide new insights into the genetic structure of bread wheat from Anatolia. A genetic linkage map was constructed based on recombinant inbred lines derived from a cross between the Turkish cultivar Gerek-79 and the Moroccan cultivar Arrehane, by using DArT markers anchored with simple sequence repeat markers. This map consisted of 54 linkage groups belonging to 21 bread wheat chromosomes, spanning a total of 935.629 cM. The total number of mapped markers varied from 5 to 87, depending on the chromosome. Seventy-seven DArT markers with unpublished chromosomal locations were mapped on different chromosomes, whereas 23 were mapped onto chromosomes that deviated from those detailed in the literature. This linkage map represents a key starting point towards our understanding of the genome structure of Anatolian bread wheat, which would, in turn, permit us to genetically dissect important agromorphological and quality characteristics. This linkage map will be useful for the identification of QTL for biotic and abiotic stresses, and for important agronomic traits that are valuable for Anatolian wheat.Öğe Inter-primer binding site retrotransposon and inter-simple sequence repeat diversity among wild Lens species(Pergamon-Elsevier Science Ltd, 2015) Baloch, Faheem Shehzad; Derya, Muazzez; Andeden, Enver Ersoy; Alsaleh, Ahmad; Cömertpay, Gönül; Kilian, Benjamin; Özkan, HakanEven though lentil has been an important food legume for centuries, genetic studies in lentil are still in their infancy. Genetic diversity and relationships among wild Lens species from Turkey has seldom been investigated. Additionally, a limited number of simple sequence repeat (SSR) markers have been developed for use in breeding and genetic studies of lentil crop. In this study, molecular characterization of 50 accessions mostly from Turkey, belonging to 6 wild and 1 cultivated Lens species, was performed using newly developed inter-primer binding site (iPBS) retrotransposons and inter-SSR (ISSR) markers. The 10 iPBS primers generated a total of 151 scorable bands, of which 150 were polymorphic (99.3%) with an average of 15.0 polymorphic fragments per primer. The 10 ISSR primers detected 138 scorable bands showing 100% polymorphism, with an average of 13.5 bands per primer. The average polymorphism information content (PIC) value for ISSR markers (0.97) was higher than that for iPBS markers (0.90). Lens orientalis was found to be the most diverse species, raising the possibility of wide crosses with cultivated species Lens culinaris. Cultivated varieties also showed high level of polymorphism, at 82.92% and 51.92% with ISSR and iPBS markers, respectively. Lens lamottei and Lens tomentosus were found as the least polymorphic species using both marker systems. The grouping of accessions and species within clusters were almost similar when iPBS and ISSR graphs were compared. Our data also suggested the role of iPBS-retrotransposons as 'a universal marker' for molecular characterization of wild and cultivated Lens species. (C) 2014 Elsevier Ltd. All rights reserved.Öğe Population structure of rice varieties used in Turkish rice breeding programs determined using simple-sequence repeat and inter-primer binding site-retrotransposon data(Funpec-Editora, 2016) Cömertpay, Gönül; Baloch, Faheem Shehzad; Derya, Muazzez; Andeden, Enver Ersoy; Alsaleh, AhmadEffective breeding programs based on genetic diversity are needed to broaden the genetic basis of rice (Oryza sativa L.) in Turkey. In this study, 81 commercial varieties from seven countries were studied in order to estimate the genomic relationships among them using nine interprimer binding site (iPBS)-retrotransposon and 17 simple-sequence repeat (SSR) markers. A total of 59 alleles for the SSR markers and 96 bands for the iPBS-retrotransposon markers were detected, with an average of 3.47 and 10.6 per locus, respectively. Each of the varieties could be unequivocally identified by the SSR and iPBS-retrotransposon profiles. The iPBS-retrotransposon-and SSR-based clustering were identical and closely mirrored each other, with a significantly high correlation (r = 0.73). A neighbor-joining cluster based on the combined SSR and iPBS-retrotransposon data divided the rice varieties into three clusters. The population structure was determined using the STRUCTURE software, and three populations (K = 3) were identified among the varieties studied, showing that the diversity harbored by Turkish rice varieties is low. The results indicate that iPBS-retrotransposon markers are a very powerful technique to determine the genetic diversity of rice varieties.
