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Öğe Analysis of Physio-Biochemical Responses and Expressional Profiling Antioxidant-Related Genes in Some Neglected Aegilops Species under Salinity Stress(Mdpi, 2023) Jamshidi, Bita; Pour-Aboughadareh, Alireza; Bocianowski, Jan; Shooshtari, Lia; Bujak, Henryk; Turkoglu, Aras; Nowosad, KamilaWild common wheat species represent a significant pool of resistance genes to various environmental stresses. In this study, we examined several physiological traits and the activity of three antioxidant enzymes-namely, catalase (CAT), superoxide dismutase (SOD), and ascorbate peroxidase (APX)-as well as the expression patterns of their encoding genes in three neglected Aegilops species with alien genomes (including Ae. triuncialis (UUCC-genome), Ae. neglecta (UUMM-genome) and Ae. umbellulata (UU-genome)) under two control (0 mM NaCl) and salinity (250 mM NaCl) conditions. The results of the analysis of variance (ANOVA) showed highly significant effects of salinity stress, accessions, and their interaction on most physio-biochemical traits, root and shoot dry biomasses, and antioxidant-related gene expression level. As a result of comparison between Aegilops species and a bread wheat cultivar (cv. Narin as a salt-tolerant reference variety), Ae. triuncialis responded well to salinity stress, maintaining both ionic homeostasis capability and biochemical ability. Moreover, transcriptional data revealed the prominence of Ae. triuncialis over other Aegilops species and salt-tolerant bread wheat [cv. Narin] in terms of the level of expression of antioxidant genes (APX, SOD, and CAT). This result was further supported by a biplot rendered based on principal component analysis (PCA), where this wild relative showed a positive association with most measured traits under salinity stress. Moreover, we speculate that this accession can be subjected to physiological and molecular studies, and that it can provide new insights into the use of the alien genomes in future wheat breeding programs.Öğe Ethyl Methanesulfonate (EMS) Mutagen Toxicity-Induced DNA Damage, Cytosine Methylation Alteration, and iPBS-Retrotransposon Polymorphisms in Wheat (Triticum aestivum L.)(Mdpi, 2023) Turkoglu, Aras; Haliloglu, Kamil; Tosun, Metin; Bujak, Henryk; Eren, Baris; Demirel, Fatih; Szulc, PiotrThe use of mutagens in plant breeding is used to create new germplasm, increase agricultural yield, quality, and resistance to diseases and pests. Mutagens are physical or chemical factors that can alter the DNA or RNA structure of an organism, causing mutations above the expected level. One of the most common and potent chemical mutagens is EMS (ethyl-methane sulfonate), which produces point mutations in plants, but to a lesser degree can also cause the loss or deletion of a chromosomal region. This study used inter-primer binding site (iPBS) and coupled restriction enzyme digestion inter-primer binding site (CRED-iPBS) technique analysis to determine the effect of EMS mutagens on methylation rates in wheat genotypes at seedling growth stage. Treatments with five different EMS concentrations (0%; control, 0.1%, 0.2%, 0.3%, and 0.4%) at four different times (0; control, 3, 6, and 9 h) were used. Inter-primer binding site (iPBS) markers were employed to assess genomic instability and cytosine methylation in treated wheat. In seeds treated with EMS at different concentrations and times, the disappearance of regular bands and the formation of new bands due to the effects of the EMS mutagen revealed that genetic diversity exists. The CRED-iPBS analysis revealed that the 3 h + 0.1% EMS treatment produced the highest MspI polymorphism value (19.60%), while the 9 h + 0.1% EMS treatment produced the lowest value (10.90%). The mutagenic effects of EMS treatments had considerable polymorphism on a variety of impacts on the cytosine methylation and genomic instability of wheat. According to the current research, EMS mutagenesis may be a practical method for accelerating breeding programs to produce enough genetic diversity in wheat populations. Mutation-assisted breeding and the subsequent selection of desirable mutants using genetic markers may also be carried out in wheat utilizing an integrated strategy.Öğe Prediction of Grain Yield in Wheat by CHAID and MARS Algorithms Analyses(Mdpi, 2023) Demirel, Fatih; Eren, Baris; Yilmaz, Abdurrahim; Turkoglu, Aras; Haliloglu, Kamil; Niedbala, Gniewko; Bujak, HenrykGenetic information obtained from ancestral species of wheat and other registered wheat has brought about critical research, especially in wheat breeding, and shown great potential for the development of advanced breeding techniques. The purpose of this study was to determine correlations between some morphological traits of various wheat (Triticum spp.) species and to demonstrate the application of MARS and CHAID algorithms to wheat-derived data sets. Relationships among several morphological traits of wheat were investigated using a total of 26 different wheat genotypes. MARS and CHAID data mining methods were compared for grain yield prediction from different traits using cross-validation. In addition, an optimal CHAID tree structure with minimum RMSE was obtained and cross-validated with nine terminal nodes. Based on the smallest RMSE of the cross-validation, the eight-element MARS model was found to be the best model for grain yield prediction. The MARS algorithm proved superior to CHAID in grain yield prediction and accounted for 95.7% of the variation in grain yield among wheats. CHAID and MARS analyses on wheat grain yield were performed for the first time in this research. In this context, we showed how MARS and CHAID algorithms can help wheat breeders describe complex interaction effects more precisely. With the data mining methodology demonstrated in this study, breeders can predict which wheat traits are beneficial for increasing grain yield. The adaption of MARS and CHAID algorithms should benefit breeding research.Öğe Sodium Azide as a Chemical Mutagen in Wheat (Triticum aestivum L.): Patterns of the Genetic and Epigenetic Effects with iPBS and CRED-iPBS Techniques(Mdpi, 2023) Turkoglu, Aras; Haliloglu, Kamil; Tosun, Metin; Szulc, Piotr; Demirel, Fatih; Eren, Baris; Bujak, HenrykWheat, which is scientifically known as Triticum aestivum L., is a very nutritious grain that serves as a key component of the human diet. The use of mutation breeding as a tool for crop improvement is a reasonably rapid procedure, and it generates a variety that may be used in selective breeding programs as well as functional gene investigations. The present experiment was used to evaluate the potential application of a conventional chemical mutagenesis technique via sodium azide (NaN3) for the germination and seedling growth stage in wheat. Experiments with NaN3 mutagenesis were conducted using four different treatment periods (0, 1, 2, and 3 h) and five different concentrations (0, 0.5, 1, 1.5, and 2 mM). The genomic instability and cytosine methylation of wheat using its seeds were investigated after they were treated. In order to evaluate the genomic instability and cytosine methylation in wheat that had been treated, interprimer binding site (iPBS) markers were used. The mutagenic effects of NaN3 treatments had considerable polymorphism on a variety of impacts on the cytosine methylation and genomic instability of wheat plants. The results of the experiment showed considerable changes in the iPBS profiles produced by the administration of the same treatments at different dosages and at different times. Coupled restriction enzyme digestion interprimer binding site (CRED-iPBS) assays identified changes in gDNA cytosine methylation. The highest polymorphism value was obtained during 1 h + 2 mM NaN3, while the lowest (20.7%) was obtained during 1 h + 1.5 mM NaN3. Results showed that treatments with NaN3 had an effect on the level of cytosine methylation and the stability of the genomic template in wheat plants in the germination stage. Additionally, an integrated method can be used to for mutation-assisted breeding using a molecular marker system in wheat followed by the selection of desired mutants.