In the present study sympatric populations of both species from Muğla and Adana provinces in Turkey were sampled, and the internal transcribed spacer 2 (ITS-2) region of ribosomal DNA was comparatively studied with sequence analysis. | Research Article Turk J Agric For 33 (2009) 363-373 © TÜBİTAK doi: The phylogenetic relationship between populations of marginally and sympatrically located Pinus halepensis Mill. and Pinus brutia Ten. in Turkey, based on the ITS-2 region C. Özge TOZKAR, Sertaç ÖNDE, Zeki KAYA* Department of Biological Sciences, Middle East Technical University, 06531 Ankara - TURKEY Received: Abstract: Turkish red pine (Pinus brutia) is a widespread and important forest tree species in Turkey, occurring mainly in southern, western, and northwestern Turkey, while the natural occurrence of Aleppo pine (Pinus halepensis) is restricted to 2 locations and is found sympatrically with Turkish red pine. In the present study sympatric populations of both species from Muğla and Adana provinces in Turkey were sampled, and the internal transcribed spacer 2 (ITS-2) region of ribosomal DNA was comparatively studied with sequence analysis. Analysis of molecular variance (AMOVA) demonstrated 100% of total molecular variation between the species in Muğla province, versus only in Adana province. Construction of a phylogenetic tree with a bootstrap value of 92% revealed that Aleppo pine and Turkish red pine samples at the species level were well separated. Estimated FST values indicated that Turkish red pine and Aleppo pine were highly differentiated in Muğla province due to possible reproductive isolation, while the 2 species shared a more common genetic background due to possible natural hybridization in Adana province. Key words: Turkish red pine, Aleppo pine, ITS region, phylogeny, genetic differentiation, molecular diversity Türkiye’de marjinal ve örtüşük olarak yayılış gösteren doğal Pinus halepensis Mill ve Pinus brutia Ten. popülasyonlarının ITS-2 bölgesine göre filogenetik ilişkileri Özet: Kızılçam (Pinus brutia Ten.) Türkiye için yaygın ve önemli bir orman ağacı türü olup yoğunlukla güney, batı ve kuzey batı bölgelerinde yayılım gösterirken, Halep
