Phylogenetic and Structural Analysis of the Pluripotency Factor Sex-Determining Region Y box2 Gene of Camelus dromedarius (cSox2)
| Autor: | Abdullah Alawad, Sultan N. Alharbi, Abdullah Alenazi, Hasan Awad Aljohi, Mohammed Alkhrayef, Ibrahim O. Alanazi, Ziyad Alhamdan, Faisal Alagrafi, Othman Alhazzaa, Mohamed Hammad |
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| Jazyk: | angličtina |
| Rok vydání: | 2016 |
| Předmět: |
3D model
0301 basic medicine Gene isoform sequence analysis Sequence analysis Sox2 camel-induced pluripotent stem cells (CiPSCs) Biology Bioinformatics Biochemistry Camelus dromedarius 03 medical and health sciences Protein sequencing SOX2 Complementary DNA Coding region Molecular Biology Gene lcsh:QH301-705.5 Original Research Genetics 030102 biochemistry & molecular biology Applied Mathematics bioinformatics Computer Science Applications Computational Mathematics Open reading frame 030104 developmental biology lcsh:Biology (General) |
| Zdroj: | Bioinformatics and Biology Insights, Vol 2016, Iss 10, Pp 111-120 (2016) Bioinformatics and Biology Insights, Vol 10 (2016) Bioinformatics and Biology Insights |
| ISSN: | 1177-9322 |
| Popis: | Although the sequencing information of Sox2 cDNA for many mammalian is available, the Sox2 cDNA of Camelus dromedaries has not yet been characterized. The objective of this study was to sequence and characterize Sox2 cDNA from the brain of C. dromedarius (also known as Arabian camel). A full coding sequence of the Sox2 gene from the brain of C. dromedarius was amplified by reverse transcription PCRjmc and then sequenced using the 3730XL series platform Sequencer (Applied Biosystem) for the first time. The cDNA sequence displayed an open reading frame of 822 nucleotides, encoding a protein of 273 amino acids. The molecular weight and the isoelectric point of the translated protein were calculated as 29.825 kDa and 10.11, respectively, using bioinformatics analysis. The predicted cSox2 protein sequence exhibited high identity: 99% for Homo sapiens, Mus musculus, Bos taurus , and Vicugna pacos ; 98% for Sus scrofa and 93% for Camelus ferus. A 3D structure was built based on the available crystal structure of the HMG-box domain of human stem cell transcription factor Sox2 (PDB: 2 LE4) with 81 residues and predicting bioinformatics software for 273 amino acid residues. The comparison confirms the presence of the HMG-box domain in the cSox2 protein. The orthologous phylogenetic analysis showed that the Sox2 isoform from C. dromedarius wa s grouped with humans, alpacas, cattle, and pigs. We believe that this genetic and structural information will be a helpful source for the annotation. Furthermore, Sox2 is one of the transcription factors that contributes to the generation-induced pluripotent stem cells (iPSCs), which in turn will probably help generate camel induced pluripotent stem cells (CiPSCs). |
| Databáze: | OpenAIRE |
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