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Öğe Comparison of five different rna isolation methods from equine endometrium for gene transcription analysis(KAFKAS UNIV, VETERINER FAKULTESI DERGISI, 2010) Kurar, Ercan; Atli, Mehmet Osman; Guzeloglu, Aydin; Ozsensoy, Yusuf; Semacan, AhmetIn this study, five different isolation protocols to extract total RNA from biopsies of equine endometrium were compared in terms of quality and quantity of RNA samples with respect to downstream gene transcription analysis, such as Reverse Transcription-Polymerase Chain Reaction (RT-PCR). Three phenol-chloroform based protocols (TRIzol, TRItidy, EZ-RNA) and two column based protocols (UltraClean (TM) and E.Z.N.A.(R)) that were commercially available were used. Each protocol yielded good quality total RNA and distinct 28S and 18S rRNA bands were observed in agarose gel electrophoreses. Amount of total RNA isolated was lower for EZ-RNA protocol. Column based protocols had RNA contaminated with great amount of genomic DNA, however, DNAse-I digestion was able to fully clean the DNA contamination from RNA in all the protocols used. Following cDNA synthesis and PCR, GAPDH, a housekeeping gene, bands were amplified from all the samples. In conclusion, all the protocols used extracted good quality but different amounts of total RNA and it is strongly recommended that RNA samples must undergo DNAse-I digestion before RT-PCR to eliminate gDNA contamination..Öğe Determination of chromosomal regions affecting body weight and egg production in Denizli X White Leghorn F2 populations(Selçuk Üniversitesi Veterinerlik Fakültesi, 2013) Bulut, Zafer; Kurar, Ercan; Caglayan,Tamer; Dere, Suleyman; Ozsensoy, Yusuf; Nizamlioglu, Mehmet; Garip, Mustafa; Kurtoglu, Varol; Dogan, Muge; Yilmaz, AlperAmaç: Bu çalışmanın amacı; Denizli X Leghorn F2 populasyonunda yumurta verimi ve farklı dönemlerde canlı agırlığı kontrol eden kromozom bölgelerinin tanımlanmasıdır. Gereç ve Yöntem: Denizli ve Leghorn ırkları kullanılarak F2 düzeyinde deneysel bir populasyon oluşturuldu ve verim kayıtları alındı. Kromozom tarama çalışmaları için kantitatif özellik lokusları (QTL) gen haritalama analizlerine uygun 113 mikrosatellit markörü F0, F1 ve F2 bireylerde Polimeraz Zincir Reaksiyonu (PZR) ile yükseltgendi. Bulgular: Bu çalışmanın sonucunda farklı dönemlerde canlı ağırlık ile ilişkili QTL bölgeleri tavuk 1. kromozom çiftinde (GGA1), GGA2 ve GGA4 üzerinde tespit edildi. Yumurta verimi üzerine etkili iki farklı QTL bölgesinin varlığı, GGA8 ve cinsiyet kromozomu (GGAZ) üzerinde bulundu. GGA2, GGA4 ve GGAZ üzerinde bulunan üç farklı QTL ile yumurta ağırlığı arasında bir ilişki tespit edildi. Öneri: QTL bölgelerinin yeni markörler ile daraltılması ve bölgesel klonlama çalışmaları ile bu verim özelliklerini kontrol eden genlerin tespit edilmesi gerekmektedir.Öğe Genetic characterization of Turkish cattle breeds by microsatellite markers: Usefulness for parentage testing(KAFKAS UNIV, VETERINER FAKULTESI DERGISI, 2014) Ozsensoy, Yusuf; Kurar, Ercan; Dogan, Muge; Bulut, Zafer; Nizamlioglu, Mehmet; Isik, Ayse; Camlidag, AysunObjective of this study was to evaluate microsatellite markers in paternity testing of native cattle breeds in Turkey. Blood samples were collected from Anatolian Black (n=51), Anatolian Grey (n=54), South Anatolian Red (n=51), Native Southern Anatolian Yellow (n=51), East Anatolian Red (n=45) and Zavot (n=19) cattle. From the blood samples DNA was isolated by using a standard phenol/chloroform method. A total of 20 microsatellite loci were selected from a FAO/ISAG-suggested list. Polymerase chain reaction products were separated by capillary electrophoresis and marker genotypes were determined by fragment analysis. In statistical analyses, allel numbers, observed (Ho) and expected (He) heterozygosities, deviation from Hardy-Weinberg Equilibrium and probability of exclusion (PE) at each microsatellite locus were calculated. A total of 269 different alleles were observed and the mean allele was identified as 13.45. Mean Ho and He values were observed as 0.619-0.852 and 0.669-0.877, respectively. The results indicated that the microsatellite test panel including the most informative 7 loci had total PE value of >0.9999 in each populations and can thereby be used for parentage testing studies of native cattle breeds in Turkey.Öğe Genetic diversity and population structure of wheat in India and Turkey(OXFORD UNIV PRESS, 2015) Khan, Mohd Kamran; Pandey, Anamika; Thomas, George; Akkaya, Mahinur S.; Kayis, Seyit Ali; Ozsensoy, Yusuf; Hamurcu, MehmetGenetic diversity among plant species offers prospects for improving the plant characteristics. Its assessment is necessary to help tackle the threats of environmental fluctuations and for the effective exploitation of genetic resources in breeding programmes. Although wheat is one of the most thoroughly studied crops in terms of genetic polymorphism studies, phylogenetic affinities of Indian and Turkish Triticum species have not been assessed to date. In this study, genetic association of 95 tetraploid and hexaploid wheat genotypes originating from India and Turkey was determined for the first time. Combined analysis of random amplified polymorphic DNA and inter-simple sequence repeat markers disclosed 177 polymorphic bands, and both the dendrogram and two-dimensional scatterplot showed similar groupings of the wheat genotypes. Turkish hexaploid varieties were basically divided into two clusters, one group showed its close association with Indian hexaploid varieties and the other with Indian tetraploid varieties. Analysis of molecular variance revealed high (77 %) genetic variation within Indian and Turkish populations. Population structure analysis elucidated distinct clustering of wheat genotypes on the basis of both geographical origin and ploidy. The results revealed in this study will support worldwide wheat breeding programmes and assist in achieving the target of sustainable wheat production.Öğe Genetic Diversity of Eight Domestic Goat Populations Raised in Turkey(HINDAWI LTD, 2016) Bulut, Zafer; Kurar, Ercan; Ozsensoy, Yusuf; Altunok, Vahdettin; Nizamlioglu, MehmetThe objective of this study was to determine the intra- and intergenetic diversities of eight different goat populations in Turkey including Hair, Angora, Kilis, Yayladag, Shami, Honamli, Saanen, and Alpine. A total of 244 DNA samples were genotyped using 11 microsatellites loci. The genetic differentiation between breeds was considerable as a result of the statistically significant (P < 0.001) pairwise F-ST values of each pair of breeds. Exceptionally, F-ST values calculated for Honamli and Hair breeds were statistically nonsignificant (P > 0.05). Heterozygosity values ranged between 0.62 and 0.73. According to the structure and assignment test, Angora and Yayladag goats were assigned to the breed they belong to, while other breeds were assigned to two or more different groups. Because this study for the first time presented genetic data on the Yayladag goat, results of structure analysis and assigned test suggest that further analyses are needed using additional and different molecular markers.Öğe Growth and some period yield characteristics of Denizli x Leghorn crosses (F?)(Selçuk Üniversitesi, 2011) Ozsensoy, Yusuf; Garip, Mustafa; Nizamlioglu, Mehmet; Kurar, Ercan; Yilmaz, Alper; Caglayan, Tamer; Dere, Suleyman; Bulut, Zafer; Kurtoglu, VarolAmaç: Bu araştırmada, Denizli x Leghorn F, ve F, populasyonlarının çıkım ağırlığı, büyüme ve verim dönemine ait canlı ağırlıkları, yumurta ağırlığı ve özgül ağırlıklarının belirlenmesi amaçlamıştır. Gereç ve Yöntem: Temel populasyonda 10 Denizli horozu ve 30 Leghorn tavuk kullanılmıştır. İlk generasyonda (F?), 15 erkek, 68 dişi elde edilmiştir. İkinci generasyonda (F?) ise 475 erkek ve 451 dişi üzerinde 32 haftaya kadar canlı ağırlık ve yumurta verimleri incelenmiştir. Bulgular: F? populasyonunda dişiler yumurtaya girdikten sonra 180 günlük dönemde, yumurta sayıları ve yüzdeleri 99.61 adet ve %56.21 olarak bulundu. Çıkım ağırlıkları F, ve F, populasyonlarında sırası ile 40.94 ve 30.80 g olarak bulundu. Büyüme döneminde her iki generasyonda canlı ağırlıklar arasında önemli farklılıklar tespit edildi (p<0.001). Ayrıca ikinci generasyonda 32. hafta sonunda canlı ağırlıklar dişilerde 1814.60 g, erkeklerde ise 1900.00 g olarak ölçüldü (p<0.001). Ayni generasyonda yumurta ağırlığı ve özgül ağırlık değeri 47.81 g ve 1.08 olarak hesaplandı. Öneri: Yerli gen kaynağımız olan Denizli ırkının melezleme çalışmalarında kullanılabileceği, geliştirilmiş yumurtacı ve etçi ırklarla melezlemelerin ve bu verim yönleri bakımın dan Denizli ırkının daha detaylı çalışmalarla incelenmesine ihtiyaç olduğu sonucuna varıldı.Öğe Y chromosome analysis of native Turkish cattle breeds by microsatellite markers(TUBITAK SCIENTIFIC & TECHNICAL RESEARCH COUNCIL TURKEY, 2014) Ozsensoy, Yusuf; Kurar, Ercan; Bulut, Zafer; Nizamlioglu, MehmetThe aim of this study was to determine phylogenetic relationships of 6 native cattle breeds of Turkey using 7 Y chromosome-specific microsatellite DNA markers. DNA samples were isolated from Anatolian Black, Anatolian Grey, South Anatolian Red, Native Southern Anatolian Yellow, East Anatolian Red, and Zavot cattle using a standard phenol/chloroform method. PCR products were separated by capillary electrophoresis and marker genotypes were determined. A total of 41 different alleles were observed. The mean allele number was 5.86 and mean F IS value was 0.427 for all populations. The INRA189 locus was monomorphic for all populations except for South Anatolian Red. UMN0307 and INRA124 loci were monomorphic in the East Anatolian Red and Anatolian Black populations, respectively. The Anatolian Black population was assigned to its own population at a maximum level (78.26%). In this study, a taurine-specific allele was identified in the INRA124 locus. Zebu- and taurine-specific alleles were observed in BM861, INRA189, and UMN0103 loci. Allele 134 in INRA124 seems to be a specific allele of taurine or zebu. The alleles of the UMN0307 and UMN0504 loci need to be investigated for zebu- or taurine-specific alleles. The resulting neighbor-joining tree and structure analysis suggested that the breeds analyzed are consistent with their modern geographical locations.
