Comparative Genome Wide Identification, Gene Structure and Phylogeny Analysis of POU5F1 Transcription Gene in Mus musculus, Mus caroli, Onychomys torridus and Arvicanthis niloticus

House mouse (Mus musculus) is a model organism and has role in understanding and studying human diseases. Mus musculus and human have many conserved domains. POU domain is one of those conserved domains and in this recent study, POU5F1 gene, part of POU domain is studying. POU5F1 is a POU domain, class 5, transcription factor 1. It has role in pluripotency development in embryo, embryonic and adult stem cell development, in protein binding, miRNA binding, chromatin DNA binding, RNA polymerase 2 cis-regulatory region sequence-specific DNA binding and involve in reprogramming of cells. In this study, the phylogenetic relation of Mus musculus with other subfamily members is found to use them as model alternate to Mus musculus. Initially the comparative genome wide analysis of POU5F1 gene was performed in Mus musculus specie, Mus caroli, Onychomys torridus and Arvicanthis nilotius. This study focused on the identification of POU5F1 gene in Mus musculus (common house mouse) among Mus caroli (Ryukyu mouse), Onychomys torridus (Southern grasshopper mouse), and Arvicanthis niloticus (African grass rat) based on the bioinformatics techniques and tools to explore evolutionary relationship. For the identification genome sequence retrieved from NCBI, for conserved domain analysis, PROSITE-Expasy, SMART Protein and Pfam were used. Multiple sequence alignment and phylogenetic analysis was performed by Clustal Omega and MEGA-X. The results showed that in Mus musculus POU5F1 gene is present on chromosome number 17 and has 6 exons, In Arvicanthis niloticus POU5F1 gene is present on chromosome number 20 and has 5 exons, Mus caroli POU5F1 gene is placed on chromosome number 17, and has 6 exon, and Onychomys torridus POU5F1 gene has 5 exons with unknown chromosome number. Finally, our results provide important genomic suggestions for upcoming studies of biochemical, physiological and phylogenetic understanding on POU5F1 gene among other species.

Author(s): Mahwish Amin

Abstract | Full-Text | PDF

Share This Article