Phylogenetic analysis using SCoT markers and chloroplast trnL intron in some Eriobotrya japonica (Thunb.) Lindl. (Rosaceae) populations from the Aegean region of Turkey

Abstract

In this study, phylogenetic analyses of some Eriobotrya japonica (Thunb.) Lindl. populations based on SCoT marker technique and cpDNA trnL intron sequence analysis were performed. Specimens from the populations were collected from the Aegean region of Turkey and brought to the laboratory for genomic DNA isolation. To determine the phylogenetic analysis of Eriobotrya japonica populations, seven SCoT primers were used. In the SCoT analysis, a total of 54 bands were obtained, 49 of which were polymorphic and 5 were monomorphic. In chloroplast trnL intron region, trnC, trnD primers were used for PCR amplification. Eriobotrya japonica trnL intron sequence lengths were determined to be between 530 and 547 nucleotides. The average nucleotide rate detected as 38.9% for thymine, 18.1% for cytosine, 28.2% for adenine and 14.8% for guanine. Rosaceae family trnL intron sequences belonging to Rhaphiolepis Lindl., Heteromeles M.Roem., Photinia Lindl. Cotoneaster Medik, Sorbus L., Malus Miller, Pyrus L., Prunus L. and Rosa L. were retrieved from NCBI and their phylogenetic relationship with Eriobotrya japonica populations were revealed.  As a result of the study, polymorphism rate was determined as 90.74% in SCoT analysis. According to cpDNA trnL intron results, Eriobotrya japonica populations were identified in the same group with Rhaphiolepis indica, a finding supported by past phylogenetic analyzes.