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Exploring the Genomic Roadmap and Molecular Phylogenetics Associated with MODY Cascades Using Computational Biology

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Abstract

Maturity onset diabetes of the young (MODY) is a metabolic and genetic disorder. It is different from type 1 and type 2 diabetes with low occurrence level (1–2 %) among all diabetes. This disorder is a consequence of β-cell dysfunction. Till date, 11 subtypes of MODY have been identified, and all of them can cause gene mutations. However, very little is known about the gene mapping, molecular phylogenetics, and co-expression among MODY genes and networking between cascades. This study has used latest servers and software such as VarioWatch, ClustalW, MUSCLE, G Blocks, Phylogeny.fr, iTOL, WebLogo, STRING, and KEGG PATHWAY to perform comprehensive analyses of gene mapping, multiple sequences alignment, molecular phylogenetics, protein–protein network design, co-expression analysis of MODY genes, and pathway development. The MODY genes are located in chromosomes-2, 7, 8, 9, 11, 12, 13, 17, and 20. Highly aligned block shows Pro, Gly, Leu, Arg, and Pro residues are highly aligned in the positions of 296, 386, 437, 455, 456 and 598, respectively. Alignment scores inform us that HNF1A and HNF1B proteins have shown high sequence similarity among MODY proteins. Protein–protein network design shows that HNF1A, HNF1B, HNF4A, NEUROD1, PDX1, PAX4, INS, and GCK are strongly connected, and the co-expression analyses between MODY genes also show distinct association between HNF1A and HNF4A genes. This study has used latest tools of bioinformatics to develop a rapid method to assess the evolutionary relationship, the network development, and the associations among eleven MODY genes and cascades. The prediction of sequence conservation, molecular phylogenetics, protein–protein network and the association between the MODY cascades enhances opportunities to get more insights into the less-known MODY disease.

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Authors and Affiliations

  1. Department of Bioinformatics, School of Computer and Information Sciences, Galgotias University, Noida, India

    Chiranjib Chakraborty

  2. Machine Intelligence Unit, Indian Statistical Institute, Kolkata, West Bengal, India

    Sanghamitra Bandyopadhyay

  3. Medical Biotechnology, Division School of Biosciences and Technology, VIT University, Vellore, Tamil Nadu, India

    C. George Priya Doss

  4. College of Pharmacy and Health Care, Tajen University, Yanpu, Pingtung, 907, Taiwan

    Govindasamy Agoramoorthy

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  1. Chiranjib Chakraborty
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  4. Govindasamy Agoramoorthy
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Chakraborty, C., Bandyopadhyay, S., Doss, C.G.P. et al. Exploring the Genomic Roadmap and Molecular Phylogenetics Associated with MODY Cascades Using Computational Biology. Cell Biochem Biophys 71, 1491–1502 (2015). https://doi.org/10.1007/s12013-014-0372-z

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