Genome Wide Association Studies (GWAS) metodu aracılığı ile kültür (Cicer arietinum L.) ve yabani nohut (C. reticulatum) populasyonlarında danede P, Cu, K, Mo, Se elementleri ile ilişkili DNA markörlerinin saptanması
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Dosyalar
Tarih
2018
Yazarlar
Dergi Başlığı
Dergi ISSN
Cilt Başlığı
Yayıncı
Ege Üniversitesi, Fen Bilimleri Enstitüsü
Erişim Hakkı
info:eu-repo/semantics/openAccess
Özet
İlişki haritalama metodu, bağlantı dengesizliğine dayanan, kompleks kantitatif özellikler ile ilişkili genlerin belirlenmesinde kullanılan güçlü ve etkili bir metotdur. Bu çalışmada 107 yabani (C. reticulatum) ve 73 kültür (C. arietinum) olmak üzere 180 nohut genotipi kullanılarak genotyping by sequencing (GBS) analizleri gerçekleştirilmiş, analizler sonucunda 121.840 yüksek kalitede SNP markörü saptanmıştır. SNP markörleri kullanılarak STRUCTURE programı aracılığıyla populasyon yapısı analizleri gerçekleştirildiğinde populasyonun 2 (K=2) ana gruba ayrıldığı belirlenmiştir. Saptanan SNP markörleri ile nohut danesindeki P, Cu, K, Mo ve Se elementi konsantrasyonlarına ait fenotipik veriler ile TASSEL (Trait Analysis by Association, Evoluation and Linkage) programı aracılığıyla MLM(Q+K) analizleri gerçekleştirilerek 5 fenotipik özellik ile istatistiksel olarak yüksek ilişkili 26 SNP tanımlanmıştır. Bu çalışma P, Cu, K, Mo ve Se elementlerinde yabani ve kültür nohut çeşitleri kullanılarak gerçekleştirilmiş ilk ilişki haritalama çalışmasıdır ve gelecekteki ilişki haritalama, marker destekli seleksiyon ve ıslah çalışmalarına yardımcı olacaktır.
Association mapping analysis is a powerful and efficient linkage disequilibrium (LD) based methodology for identification of marker-trait associations of complex quantitative traits. In this study genotyping by sequencing (GBS) analysis were performed by using a total of 180 individuals including 107 wild (C. reticulatum) and 73 cultivated (C. arietinum) Cicer species and 121.840 high-quality SNPs were identified. Population structure was identified as 2 main groups (K=2) by using STRUCTURE software for identified SNP markers. Marker-trait associations between identified SNPs and P, Cu, K, Mo and Se nutrient concentrations was determined by MLM(Q+K) analysis in Trait Analysis by Association, Evoluation and Linkage (TASSEL) software and statistically significant markers associated with 5 phenotypic traits were identified. This is the first association mapping study with wild and cultivated Cicer species for P, Cu, K, Mo and Se elements. The results of this study suggests that association mapping is a useful methodology for further association mapping, marker assisted selection and plant breeding studies.
Association mapping analysis is a powerful and efficient linkage disequilibrium (LD) based methodology for identification of marker-trait associations of complex quantitative traits. In this study genotyping by sequencing (GBS) analysis were performed by using a total of 180 individuals including 107 wild (C. reticulatum) and 73 cultivated (C. arietinum) Cicer species and 121.840 high-quality SNPs were identified. Population structure was identified as 2 main groups (K=2) by using STRUCTURE software for identified SNP markers. Marker-trait associations between identified SNPs and P, Cu, K, Mo and Se nutrient concentrations was determined by MLM(Q+K) analysis in Trait Analysis by Association, Evoluation and Linkage (TASSEL) software and statistically significant markers associated with 5 phenotypic traits were identified. This is the first association mapping study with wild and cultivated Cicer species for P, Cu, K, Mo and Se elements. The results of this study suggests that association mapping is a useful methodology for further association mapping, marker assisted selection and plant breeding studies.
Açıklama
Anahtar Kelimeler
Nohut, C.reticulatum, C.arietinum, İlişki Haritalama, Populasyon Yapısı, Bağlantı Dengesizliği (LD), TASSEL
