Introduction Molecular biology techniques, especially molecular markers and markerassisted selection (MAS), represent very useful tools for different research and economics areas. Use of molecular markers in germplasmcharacterization, establishment of different economically valuable characters offers essential information about genetic basis which determine inheritance and manifestation of  intrest traits and so facilitating breeding process [3]. One of the most widely types of molecular markers are SSR markers, which have high level of polymorphism, codominant inheritance, easy implementation and low cost. These characteristics promote use of SSRs for genotyping, genome mapping, genetic and phylogenetic relationships studies, MAS and populational genetics [6]. Patterns generated using SSR markers can be used for genetic variability estimation on parental forms involvedin creation of highly productive hybrids, because it was shown strong positive correlation between genetic distance and hybrid performance, heterosis [5]. MAS can contribute for faster selection of genotypes with traits of interest and for evaluation of large sets of genotypes. One of the most important directions in which MAS techniques are applied is resistance potential estimation. Thus, the aim of these study was estimation of genetic lower genotypes from autochthone germ plasm through genotyping with SSR markers and molecular screening of rust and downy mildew resistance genes. Material and methods Material used in studyincludes 42 sun fl ower genotypes from AMGAgroselect Comerț SRL collection: 22 Rfl inies, 12 CMS linies and eight hybrids. DNA pleswere extracted from young seed lingsusing GeneJETP lant Genomic DNA Purifi cation Mini Kit (Thermo Scientifi c). Further analysis will include SSR analysis and screening of rust and downy mildew resistance genes. Results and discussions SSR analysis was performed using 26 markers which showed different level of polymorphism on set of investigated genotypes. Molecular screening was realized for Pl1 gene with CAPSmarker [2], Pl6 and Pl5/Pl8 genes with STSmarkers [1] andR1 gene with SCAR [4]. Performed molecular screenings highlighted genotypes which have different rust and downy mildew resistance genes and can be successfully used in breeding programs. Conclusions Results of this research will provide usefull information about original sun fl ower genotypes, that will determine facilitation of sun fl ower breeding programs.