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    Buğdayda kök ve kök boğazı çürüklüğü hastalığı ve tuza karşı dayanıklılık sağlayan mikrorna'ların aktivitesinin belirlenmesi
    (Hatay Mustafa Kemal Üniversitesi, 2014) Eren, Abdil Hakan; Erayman, Mustafa
    Abiyotik (tuz) ve biyotik (patojen) stresler, ekonomik önemi olan tahıllar dâhil, tüm bitkilerin normal fizyolojik işlevlerinde değişikliklere yol açmaktadır. Buğday (Triticum aestivum L.) yaşamı süresince birçok stres faktörü ile karşılaşmaktadır. Bu stres faktörleri, buğday üzerinde nadiren de olsa tek başlarına etki yapabilirken, genellikle etkilerini eş zamanlı olarak gerçekleştirmektedirler. Bu tez çalışmasında gen ifadesi analizi yaklaşımı olan mikroarray uygulaması ile buğdayın çoklu stres faktörleri ile yaprak ve kök dokularına ait örnekler alınarak buğdayda dayanıklı (R) ve hassas (S) genotiplerindeki miRNA'lara ait ifade düzeyi saptanması amaçlanmıştır. Bu amaçla buğdayda kök ve kök boğazı çürüklüğüne neden olan F. culmorum ve B. sorokiniana patojenleri seçilerek R ve S genotiplerine bu patojenlerin aşılaması yapılarak aşırı nemli ortamda gelişmesi sağlanmıştır. Ayrıca tuz uygulaması için stres grubu örnekleri 5 gün süre ile 200 mM NaCl çözeltisi ile muamele edilmiştir. Bu doğrultuda 11.861 adet miRNA probu içeren geniş çaplı mikroarray hazırlanarak R ve S genotiplerine ait 4 kütüphane oluşturularak mikroarray taraması yapılmıştır. Çalışmada toplamda kontrol uygulamasına göre kat değişimi (fold change) 1,45'den fazla olan 131 miRNA tespit edilmiştir. F. culmorum ve B. sorokiniana patojenlerinin uygulanması sonucu 87 miRNA, tuz uygulamasında ise 44 miRNA'nın ifade seviyelerinde değişim tespit edilmiştir. İfade seviyelerindeki değişimler hem kontrol ve stres uygulanmış aynı çeşitler arasında, hem de dayanıklı ve hassas çeşitler arasında gözlenmiştir. Çalışmamız sonucunda biyotik ve abiyotik uygulamaların etkileri sonucu ifade olan miRNA'lar tespit edildiği gibi genotipik farklılıklar nedeniyle de ifade değişimleri gözlenmiştir. Elde edilen bu miRNA'lara karşılık gelen hedef genlerin de ifadelerinde benzer değişimler belirlenmiştir. Sonuçta R ve S genotiplerinde tespit edilen 87 miRNA'nın kök ve kök boğazı çürüklüğüne, 44 miRNA'nın ise tuz stresine yanıtta görev aldığı ve bu miRNA'ların yaklaşık 1200 üzerinde gen ailesini hedef aldığı tespit edilmiştir. Çalışmanın sonuçları biyotik ve abiyotik stres şartlarına dayanıklı çeşitlerin ıslahında seleksiyon için yeni markörlerin elde edilmesine imkân sağlayacak potansiyelde olduğu öngörülmektedir.
  • Küçük Resim
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    Diversity analysis of genetic, agronomic, and quality characteristics of bread wheat (Triticum aestivum L.) cultivars grown in Turkey
    (2016) Erayman, Mustafa; İlhan, Emre; Eren, Abdil Hakan; Güngör, Hüseyin; Akgöl, Batuhan
    Turkey is an important bread wheat producer. The objective of this study was to dissect the diversity of genetic, agronomic, and quality characteristics of bread wheat cultivars grown on 25% of the total wheat area in Turkey. A total of 24 wheat cultivars and 5 wild progenitors of wheat were examined using 24 simple sequence repeat (SSR) primers with a known physical locus on the A, B, and D genomes of hexaploid wheat. A total of 72 bands produced 939 alleles on the wheat cultivars and wild progenitors. Markers were efficient in discriminating the species and the highest genetic diversity information was obtained from the markers Xgwm312 and Xgwm372. Microsatellite markers clearly separated cv. Pandas from all other cultivars although it was closely related to most of them in terms of agronomic and quality traits. Four agronomic characteristics including yield component traits and eight bread quality analyses were used for the diversity analyses. A significant association between morphological and bread wheat quality traits was observed while the correlation was weak with the genetic data. Cultivars were also classified with respect to release year and origin. Molecular variance between old (released before the year 2000) and new cultivars accounted for 1% of the total variation and the variance was 3% between national and foreign cultivars. Results showed that the number of alleles was lower in national and new cultivars compared to foreign and old cultivars. Therefore, breeding sources do not appear to improve the genetic base of wheat cultivars in Turkey. Introducing new variation sources may be needed to broaden the narrowed gene pool of bread wheat.
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    IDENTIFICATION OF SSR AND EST MARKERS ASSOCIATED WITH WATERLOGGING TOLERANCE IN BREAD WHEAT
    (Parlar Scientific Publications (P S P), 2015) Atak, Mehmet; Ilhan, Emre; Erayman, Mustafa; Dilbirligi, Muharrem; Eren, Abdil Hakan; Arslan, Mehmet; Celiktas, Nafiz
    Crop production is significantly limited by waterlogging especially in high rainfall and poorly drained regions in the world. Hence, breeding for waterlogging tolerance to increase production is one of the main objectives of breeders. Similar to other abiotic stress tolerances, the tolerance to waterlogging is a complex trait and difficult to select for in breeding programs. Marker assisted selection has been an effective method for crop improvement by utilizing markers closely related to target traits combined with accurate phenotyping of key factors. In the present study, two bread wheat (Triticum aestivum L.) F-2:3 populations ('Dogankent' x 'Ducula-4' and 'Ducula-1' x 'Seri-82') derived from susceptible cultivars ('Dogankent' and 'Seri-82') and tolerant ('Ducula-1' and 'Ducula-4') lines were treated with four weeks of waterlogging and screened in two different locations. Additionally, 32 expressed sequence tags and 210 microsatellite markers were screened for analysis of marker trait associations; of which less than %20 (45) of those markers were polymorphic between parents of both populations. Tolerance, yield and quality related traits including plant height index, tillering index, adventitious root formation, heading date, tolerance scoring index, total kernel number and thousand kernel weight were identified to be mostly affected by environment. Marker - trait analyses identified markers significantly associated with waterlogging tolerance as well as yield and quality component traits. In the 'Dogankent' x `Ducula-4' derived population, two markers explaining more than 10% of the total variance for adventitious root formation and thousand kernel weight were detected both on chromosomes 3DL (Xgwm645) and 4AL (Xgwm160). This is one of the first studies revealing markers linked to the tolerance related traits in spring wheat under waterlogging conditions.
  • [ N/A ]
    Öğe
    Identification of SSR and EST markers associated with waterlogging tolerance in bread wheat
    (Parlar Scientific Publications, 2015) Atak, Mehmet; Ilhan, Emre; Erayman, Mustafa; Dilbirli?i, Muharrem; Eren, Abdil Hakan; Arslan, Mehmet; Çeliktas, Nafiz
    Crop production is significantly limited by waterlogging especially in high rainfall and poorly drained regions in the world. Hence, breeding for waterlogging tolerance to increase production is one of the main objectives of breeders. Similar to other abiotic stress tolerances, the tolerance to waterlogging is a complex trait and difficult to select for in breeding programs. Marker assisted selection has been an effective method for crop improvement by utilizing markers closely related to target traits combined with accurate phenotyping of key factors. In the present study, two bread wheat (Triticum aestivum L.) F23 populations ('Dogankent' x 'Ducula-4' and 'Ducula-1' x 'Seri-82') derived from susceptible cultivars ('Dogankent' and 'Seri-82') and tolerant ('Ducula-1' and 'Ducula-4') lines were treated with four weeks of waterlogging and screened in two different locations. Additionally, 32 expressed sequence tags and 210 microsatellite markers were screened for analysis of marker trait associations; of which less than %20 (45) of those markers were polymorphic between parents of both populations. Tolerance, yield and quality related traits including plant height index, tillering index, adventitious root formation, heading date, tolerance scoring index, total kernel number and thousand kernel weight were identified to be mostly affected by environment. Marker - trait analyses identified markers significantly associated with waterlogging tolerance as well as yield and quality component traits. In the 'Dogankent' x 'Ducula-4' derived population, two markers explaining more than 10% of the total variance for adventitious root formation and thousand kernel weight were detected both on chromosomes 3DL (Xgwm645) and 4AL (Xgwm160). This is one of the first studies revealing markers linked to the tolerance related traits in spring wheat under waterlogging conditions. © by PSP.
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    NUCLEAR DNA CONTENT VARIATION AMONG GLYCYRRHIZA TAXONS COLLECTED FROM EAST MEDITERRANEAN
    (Parlar Scientific Publications (P S P), 2017) Ilhan, Emre; Ozgur, Sevda; Tuna, Gulsemin Savas; Eren, Abdil Hakan; Karahan, Faruk; Tuna, Metin; Erayman, Mustafa
    In this study, we performed nuclear DNA content determination of three different licorice species (G. flavescens Boiss, G. glabra L. var. glandulifera and G. echinata L.) collected from three different geographical regions of Hatay Province (Arsuz, Kirikhan, and Antakya) in the East Mediterranean Region. Previous cytogenetic studies in Glycyrrhiza genus is limited to chromosome counts by classical methods and no information was available on nuclear DNA content of the species included within the genus. Nuclear DNA content information is constant among individuals of one species, therefore, it is species specific. This makes nuclear DNA content information very useful for taxonomic, evolutionary, and genetic studies. Nuclear DNA content information (pg) can be converted to genome size (bp) by using a simple equation and it is critical for genome sequencing projects. In this study, nuclear DNA content of three different Glycyrrhiza species were comparatively analyzed for the first time by using flow cytometry method. Based on the results of the study G. flavesences (1.138 0,013 pg, 1112.96 Mbp) had larger nuclear DNA content than those of G. glabra (0.967 0,009, 945.73 Mbp) and G. echinata (0.946 0,008 pg, 925.19 Mbp). These results indicate that G. flavescens have different genomes than G. glabra and G. echinata, which have more similar genomes. The results of this study will be useful for taxonomic identification of Glycyrrhiza species and to understand their geno-mic structures and relations.
  • Küçük Resim
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    Physiological and gene expression differences of wheat varieties under different waterlogging treatments
    (Elsevier Sci Ltd, 2011) Erayman, Mustafa; Ergun, Nuray; Yilmaz, Ebru Sebnem; Ilhan, Emre; Ozcubukcu, Serhat; Eren, Abdil Hakan; Hancer, Tugce
    [Abstract Not Available]
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    Serin iklim tahıllarında virüs kaynaklı gen susturma : BSMV kullanımı
    (2013) İlhan, Emre; Eren, Abdil Hakan; Erayman, Mustafa
    Bitkiler doğada canlılıklarını sürdürebilmek için çeşitli savunma mekanizmaları geliştirmişlerdir. RNA ortamlı antiviral savunma mekanizması olarak bilinen Virüs Kaynaklı Gen Susturma (VIGS) bu mekanizmalardan biridir. Virüsle enfekte olmuş bitkilerde, virüs genomuna karşı savunma mekanizması çalışmaktadır. Aynı zamanda hedef geni taşıyan virüs vektörleri homolog içgen mRNA’larını da bozabilmektedir. Bununla birlikte VIGS genin fonksiyonunu anlamada ve fonksiyonel genomik analizleri için kullanılmaktadır. Birçok bitki için virüs vektörleri geliştirilmiştir. Son zamanlarda tahıllar için Arpa Çizgili Mozaik Virüsü (Barley Stripe Mosaic Virus = BSMV) kullanılmaya başlanmıştır. BSMV geniş bir konukçu aralığına sahip pozitif polariteli bir RNA virüsü olup, Hordeivirüs genusunun bir üyesidir. Üç farklı genom RNA (?, ? ve ?)’ dan oluşmaktadır. Bu çalışmada BSMV vektörünün çalışma prensibi ve bazı tahıllarda BSMV – VIGS’in uygulamaları hakkında bilgi verilmiştir.
  • Küçük Resim
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    Transferability of SSR markers from distantly related legumes to Glycyrrhiza species
    (2014) Erayman, Mustafa; İlhan, Emre; Güzel, Yelda; Eren, Abdil Hakan
    Licorice (Glycyrrhiza spp.) is an important medicinal plant and its distribution of natural habitats has been shrinking day by day due to extensive collection. Genetic diversity identifcation will likely assist in conserving the diferent Glycyrrhiza species. A total of 127 simple sequence repeat (SSR) markers from Medicago truncatula Gaertn., Phaseolus vulgaris L., and Cicer arietinum L. were used and 26 of them were amplifed on Glycyrrhiza genomes. Te highest transferability rate (33%) was obtained from M. truncatula markers, while the highest genetic diversity values were obtained in P. vulgaris markers. Te markers BM153 and PV-ag004 from P. vulgaris had the largest polymorphism information content. Te amplifed primers were also used to identify genetic diversity among three Glycyrrhiza species. Te gene diversity values among Glycyrrhiza species appeared to be similar; however, donor species mostly had lower diversity values than those of Glycyrrhiza species. Additionally, the genetic analysis showed that G. favescens Boiss. subsp. favescens is more distantly related to species G. glabra L. var. glandulifera and G. echinata L. Te number of alleles was mostly higher than in the donor species, possibly proposing a multiallelic and/or polyploid structure in Glycyrrhiza species.