Şerife Eylül DUMAN, Ali Tevfik UNCU, Ahmet KAYRALDIZ

Genetic diversity analysis with the development of new SSR markers in Cucurbita pepo L. population

Cucurbitaceae family, contain lots of important species in terms of worldwide nutritional and economical value. Despite the molecular genetic researches conducted in recent years, genome data is quite limited for C. pepo which is agriculturally important. The main motivation of this work is to develop new and numerous SSR markers (Simple Sequence Repetitions) that is unique to Cucurbita genome which has extremely small number of genome-specific markers. The reference genome was scanned with bioinformatic tools in terms of repetitive motifs and 76744 genome-specific SSR loci were found. In this scope, 52303 SSR markers were developed for the first time by containing 20 chromosomes in C. pepo L. genotype and the data that belongs to the developed markers is saved in a database. The majority of the most common SSR motifs were detected as di-nucleotide repeats which was rich in terms of AT/AT. To evaluate the amplification efficiency and polymorphic band producing capability of newly developed SSR markers, a collection which contains 39 Cucurbita pepo L. genotypes is characterized and the SSR alleles are scored as 0/1, so that the data file was subjected to the analysis of genetic diversity in DARwin6 software program. The results of this study were evaluated as obtaining important molecular genetic markers of the pumpkin and using them in the future studies of molecular breeding and mapping to obtain important information.

Çerezlik Kabak (Cucurbita pepo L.) popülasyonlarında yeni SSR markörlerinin geliştirilmesi ile genetik çeşitlilik analizi

Cucurbitaceae familyası, dünya çapında ekonomik değer ve besin değeri açısından önemli birçok türü içerir. Son yıllarda yapılan moleküler genetik araştırmalara rağmen tarımsal öneme sahip kabak Cucurbita pepo L. türü ile ilgili genom bilgisi oldukça sınırlıdır. Bu çalışmanın esas amacı, genom spesifik markör sayısı son derece az olan kabak genomuna özgün yeni ve çok sayıda SSR markörlerinin (Basit Dizi Tekrarları) geliştirilmesidir. Kabak referans genomu tekrar motifleri açısından biyoinformatik araçlar ile taranmış ve kabak genomuna spesifik toplam 76744 adet aday SSR lokusu bulunmuştur. Çalışma kapsamında ilk kez çerezlik kabak kromozomlarını kapsayacak şekilde toplam 52303 adet SSR markörü geliştirilmiş ve üretilen markörlere ait bilgiler veri tabanlarına yüklenmiştir. Bu çalışmada, en fazla rastlanan SSR motiflerinin çoğunluğu AT/AT bakımından zengin olan di-nükleotit tekrarları olarak tespit edilmiştir. Geliştirilen yeni SSR markörlerin amplifikasyon durumu ve polimorfik bant üretme gücünü test etmek amacı ile 39 adet çerezlik kabak (Cucurbita pepo L.) genotipinden oluşan bir koleksiyon karakterize edilmiş ve SSR alelleri, var/yok (1/0) şeklinde skorlanmış olup veri dosyası DARwin6 programında genetik çeşitlilik analizlerine tabi tutulmuştur. Çalışma sonuçları ile, kabak genomiğine önemli moleküler genetik markörler kazandırılarak ilerde yapılacak moleküler ıslah ve haritalama çalışmaları için önemli bilgiler kazandırılabileceği düşünülmektedir.

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