To evaluated of efficiency of selection by markers (MAS). 20 genotypes durum wheat was conducted as a split plot design in randomized complete block are planted and yield components calculated. Also in molecular level of 20 pair starter (SSR) to study genetic diversity between varieties and determine genotypes tolerant to drought stress was used. After extraction of DNA and appointment that quantity and quality polymerase chain reaction took place in the touch down method. In total 58 allele of the 20 locus was detected. The largest allele detected belonged to the Xgwm610, and Xbarc108 with 4 allele and the lowest with 2 allele was reserved markers Xgwm413, Xgdm132, Xwmc48, Xbarc40, Xbarc121, Xgwm375. Average allele produced for each locus in this research is 2/9. Rating and length of the parts produced using the software UVDOC was specified. Similarity matrix, the cluster analysis in UPMMA method and draw dendrogram using NTSYS software took. Standard correlation coefficient of cophentic calculated and the number of 0/86 was obtained. Dendrogram represent 2 cluster of quite distinct. In one cluster the number of genotypes 1, 2, 15, 16, 20, 13, 3, 4, 19, 8, 12, 7, 9, 5, 14 and in another cluster the number of 6, 18, 10, 17, 11 are placed. Genotypes of 5 and 14 of higher stress tolerance index than other varieties. The result showed multiple allele trait a phenomenon quite usual and common in markers (SSR) continuity of trait or could be effect of the multiple genes.
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