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In Silico Profiling of Regulatory MicroRNA Targets in Programmed Cell Death 1 Gene

In Silico Profiling of Regulatory MicroRNA Targets in Programmed Cell Death 1 Gene

Aftab Shaukat1,*, Sana Hanif2, Irfan Shaukat3, Muhammad Ahsan Naeem4,5, Shadab Shaukat6, Rizwan Shukat8, Shahid Ali Rajput9, Imran Shaukat10, Mubashar Hassan4, Khalid Mehmood7, Saqib Umar11 and Muhammad Ali Jamil1

1Department of Clinical Medicine and Surgery, Faculty of Veterinary Science, University of Agriculture, Faisalabad, Pakistan
2Department of Physics, University of Gujrat, Gujrat, Pakistan
3Department of Biochemistry, Faculty of Medicine, University of Lorraine, Nancy, France
4Department of Preventive Veterinary Medicine, College of Animal Science and Technology, Huazhong Agricultural University, Wuhan 430070, Hubei, China
5Department of Basic Sciences (Pharmacology), Khan Bahadar Choudhry Mushtaq Ahmed College of Veterinary and Animal Sciences (UVAS Campus), Narowal, Pakistan
6Department of Plant Breeding and Genetics, College of Agriculture, University of Sargodha, Sargodha, Pakistan
7University College of Veterinary and Animal Sciences, The Islamia University of Bahawalpur, Bahawalpur, Pakistan
8National Institute of Food Science and Technology, Faculty of Food, Nutrition and Home Sciences, University of Agriculture, Faisalabad, Pakistan
9Guangdong Provincial Key Laboratory of Animal Nutrition Control, College of Animal Science, South China Agricultural University Guanhzhou, Guangdong, China
10Department of Physics, University of Agriculture, Faisalabad, Pakistan
11Embryo Biotechnology and Reproduction Laboratory, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China

*     Corresponding author: aftabshuakat40@gmail.com 

ABSTRACT

MicroRNAs (miRNA) are the novel class of small non-coding RNAs comprising of 17-24 nucleotides that, targets in silencing of one or more genes. Despite their importance as gene regulator, computational strategies are still at its initial stages. Several computer based prediction databases remain the only foundation for rapid identification of putative microRNA target. By utilizing experimentally validated targets, the search of further targets via bioinformatics tools help to predict gene target site. Keeping this in view, a study has been planned to investigate PDCD1 gene regulatory miRNA targets, their sequences and their seed location in human using online server miRDB. We have identified 26 specific miRNAs (hsa-miR-939-3p, hsa-miR-661, hsa-miR-2861, hsa-miR-23b-5p, hsa-miR-23a-5p, hsa-miR-4764-5p, hsa-miR-6734-3p, hsa-miR-4441, hsa-miR-4267, hsa-miR-4456, hsa-miR-7847-3p, hsa-miR-6515-5p, hsa-miR-5692b, hsa-miR-4664-5p, hsa-miR-342-5p, hsa-miR-5692c, hsa-miR-3911, hsa-miR-3960, hsa-miR-6852-5p, hsa-miR-4253, hsa-miR-6862-5p, hsa-miR-4296, hsa-miR-4695-5p, hsa-miR-4447, hsa-miR-4532 and hsa-miR-6752-3p) in humans which can target different regions in PDCD1gene. Multiple sequence alignments were also performed to investigate similarities among mature sequences of these miRNAs. Our data will provide concrete bases for the validation of thesemiRNAs.
 

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Pakistan Journal of Zoology

August

Vol. 52, Iss. 4, Pages 1225-1630

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