@article{article_562280, title={COMMON BEAN (Phaseolus vulgaris L.) DOF TRANSCRIPTION FACTORS DIFFERENTIALLY EXPRESSED UNDER SALT STRESS}, journal={Communications Faculty of Sciences University of Ankara Series C Biology}, volume={28}, pages={43–66}, year={2019}, author={Buyuk, İlker and Inal, Behcet and Ilhan, Emre and Aras, Sumer}, keywords={Bioinformatics,DOF,RNAseq,qPCR,Phaseolus vulgaris,salinity}, abstract={<p class="MsoNormal" style="margin-top:0cm;margin-right:35.4pt;margin-bottom: 0cm;margin-left:35.45pt;margin-bottom:.0001pt;text-align:justify;tab-stops: right 297.7pt"> <span lang="EN-US" style="font-size:9.0pt">DNA-binding with one finger ( <i>DOF </i>) transcription factor family has found to be playing important roles for seed germination, photosynthesis, plant development and stress responses in several plant species. Hence, this study aimed to characterize the DOF genes in common bean at the genome-scale level. The various bioinformatics tools were used and the results were confirmed through bench-work studies. Expression levels of putative <i>PvDOF </i> genes were analyzed using publicly available RNA-seq data and the expression levels of five selected <i>PvDOF </i> genes were further analyzed through qPCR in tolerant cv. ‘Yakutiye’ and sensitive cv. ‘Zulbiye’ subjected to salt stress. As a result, 42 candidate <i>PvDOF </i> genes were defined. The length of PvDOF proteins ranged from 181 (PvDOF-41) to 503 ( <i>PvDOF-35 </i>) amino acids (aa). pIs of <i>PvDOF </i> proteins were between 5.03 ( <i>PvDOF-21 </i>) and 8.92 ( <i>PvDOF-6 </i>) ranging from acidic to alkaline, and the molecular weight of <i>PvDOFs </i> were between 21944.3 Da ( <i>PvDOF-14 </i>) and 54786.5 Da ( <i>PvDOF-35 </i>). While the highest number of <i>PvDOFs </i> was found on chromosome 2 (eight genes), the lowest number of <i>PvDOF </i>genes was identified on chromosomes 4 and 7 (one gene). Two segmentally duplicated gene couple were detected. A total of 21 <i>PvDOF </i> genes were targeted by miRNAs of 20 plant species. According to the normalized RPKM (Read Per Kilobase Million) values which were obtained from the RNAseq analysis, <i>PvDOF-6, 8, 9, 17, 27, 28, 30, 35 </i> and <i>39 </i> genes were found up- or down-regulated after salt stress treatment in the leaf and root tissues of common bean. Additionally, the most of the qPCR data were found to be consistent with the RNAseq data and the <i>PvDOF17 </i> gene was found as being the most expressional divergent gene between cv. ‘Zulbiye and cv. ‘Yakutiye’. In conclusion, the results of this study might help understanding the biological roles of <i>PvDOF TF </i> family under salt stress and can be used for the improving of common bean through biotechnological approaches. <o:p> </o:p> </span> </p>}, number={1}, publisher={Ankara University}