Lemon (Citrus limon (L.) Burm. f.) is one of the most important Citrus fruit for Turkey because of its great amount of production and export. It has been Cultivated for a long time in Turkey, and therefore variations for agronomical traits are likely among cultivated lemons due to bud mutations and, hybridizations. The objectives of this Study were to determine variations for some selected agronomical traits and genetic markers among 12 new lemons derived from selections. Tree growth, yield, fruit quality, and molecular diversification of these clones were determined. After four years of evaluation, 'Kutdiken' M-51 indicated the highest canopy volume. For yield per tree, the best clone was 'Kutdiken' M-51. After five years of evaluation, 'Kibris' M-54 had the highest fruit weight and acidity. 'Italian Memeli' M-56 contained the lowest seed number and the highest total soluble solids. Molecular analysis, as assessed with 22 random amplification of polymorphic DNA (RAPD) and 11 inter simple sequence repeats (ISSR) primers, indicated that seven of twelve clones were separated with RAPD markers, Whereas four were distinguished with ISSR markets. Combined analysis of RAPD and ISSR data detected that Similarity Values among the lemons clones were between 0.97 and 1.00. It can be concluded that Variations in Orchards are abundant and mainly due to Mutations. (c) 2009 Elsevier B.V. All rights reserved.