Nadeem Hadiqa, Jamal Syed Babar, Basheer Amina, Bakhtiar Syeda Marriam, Faheem Muhammad, Aziz Tariq, Nabi Ghulam, Al-Harbi Mitub, Raza Rabail Zehra
Department of Bioinformatics and Biosciences, Capital University of Science and Technology (CUST), Islamabad, Pakistan.
Department of Biological Sciences, National University of Medical Sciences, Rawalpindi, 46000, Pakistan.
Mol Biotechnol. 2024 Dec 26. doi: 10.1007/s12033-024-01349-6.
The development of genome technology has opened new possibilities for comparative primate genomics. Non-human primates share approximately 98% genome similarity and provides vital information into the genetic similarities and variances among species utilized as disease models. DNA study links unique genetic variations to common facial attributes such as nose and eyes. This is because of higher adaptation and improved cognitive skills over these sensual areas. Non-protein coding sequences represent approximately 85% of the human DNA under evolutionary restrictions, and the primary part of this is the cis regulatory regions. In this study, a total of 103 tissue specific human enhancers were finalized with help of VISTA Enhancer Browser that showed distinctive expression in the facial tissues and their orthologs were collected. A total of 43 out of 190 transcription factors from TRANSFAC were seen as binding in both Human and Non-Human primate enhancers. It was observed that factor binding sites of 7 of the 43 transcription factors were exclusively gained in the human eye and nose enhancers (Oct, Pax, Sox, MyoD, Foxd3, cRel and Gata). Furthermore, we performed molecular docking through PyMol; DNA & Protein (pdb) structures were modelled by SCFBio & SWISSMODEL respectively to observe interactions of the transcription factors, either by placing the contact surface of the protein exclusively to identify the DNA, to enable a representation to gain information about identification and genetic expression.
基因组技术的发展为比较灵长类基因组学开辟了新的可能性。非人类灵长类动物的基因组相似度约为98%,为用作疾病模型的物种之间的遗传相似性和差异提供了重要信息。DNA研究将独特的基因变异与鼻子和眼睛等常见面部特征联系起来。这是因为在这些感官区域具有更高的适应性和改进的认知技能。在进化限制下,非蛋白质编码序列约占人类DNA的85%,其中主要部分是顺式调控区域。在本研究中,借助VISTA增强子浏览器最终确定了总共103个组织特异性人类增强子,这些增强子在面部组织中表现出独特的表达,并收集了它们的直系同源物。在TRANSFAC的190个转录因子中,共有43个被认为在人类和非人类灵长类增强子中均有结合。据观察,43个转录因子中的7个因子结合位点仅在人类眼睛和鼻子增强子中获得(Oct、Pax、Sox、MyoD、Foxd3、cRel和Gata)。此外,我们通过PyMol进行了分子对接;DNA和蛋白质(pdb)结构分别由SCFBio和SWISSMODEL建模,以观察转录因子的相互作用,方法是将蛋白质的接触表面专门放置以识别DNA,从而能够获得有关识别和基因表达的信息。