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The Relevance of SNPs at 3′UTR Region of CASP7 and miR-371b-5p Associated Diseases: A Computational Analysis

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Abstract

The process of genetically programmed cell death, or apoptosis, plays a crucialrolein cellular homeostasis and gene expression. Disruption of apoptosis may lead to aberrant immune responses, cancer, and neurodegenerative diseases. Single nucleotide polymorphisms (SNPs) present in various microRNA (miRNA) genes and targets being an alteration of miRNA activity resulting in human diseases. Evidence reported that SNPs increase/decrease the effectiveness of the interaction between miRNAs and their target genes associated with diseases. The primary purpose of this study is not only to identify miRSNPs on the CASP7 gene (caspase-7) and SNPs in miRNA genes targeting 3′UTR but also to evaluate the effect of thesegene variations in apoptosis and their associated diseases. We detected 120 miRNAs binding sites and 27 different SNPs in binding sites of miRNA in 3′UTR of the CASP7 gene by ten different online softwares. Interestingly, miR-371b-5p’s binding site on CASP7 has an SNP (rs576198588, G/T) on CASP7 3′UTR, and its genomic sequence has an SNP (rs751339395, G/T) at the same nucleotide with rs576198588. Similarly, two other SNPs (rs774879764, C/G rs750389063, C/T) were identified at the first position binding site of miR-371b-5p. Here, miRSNP (rs576198588) at CASP7 3′UTR and SNP (rs751339395) at miR-371b-5p genomic sequence cross-matches at the same site of binding region. Besides, miR-371b-5p targets many apoptosis-related genes (HIP1, TRIAP1, GSKIP, NIN, DAP, CAAP1, XIAP, TMBIM1, TMBIM4, TNFRSF10A, RAD21, AKT1, BAG1, BAG4) even though it had no apoptosis correlated interaction demonstrated formerly. It assures that CASP7 could have a significant consequence on apoptosis through different pathways. Henceforth, this study was representing and signifying an influential connotation among miR-371b-5p and apoptosis via computational exploration and recommended to have better insight.

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All the authors of the paper thank and acknowledge their respective Universities and Institutes.

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  1. These authors contributed equally: Muhammad Safdar, Sana Zaheer

Authors and Affiliations

  1. Department of Breeding and Genetics, Cholistan University of Veterinary and Animal Sciences, Bahawalpur, 63100, Pakistan

    Muhammad Safdar

  2. Department of Biology, Division of Molecular Biology and Genetics, Gaziantep University, 27310, Gaziantep, Turkey

    Muhammad Safdar & Mehmet Ozaslan

  3. Department of Biotechnology, Virtual University of Pakistan, Lahore, 60000, Pakistan

    Sana Zaheer

  4. Department of Biology, College of Science, Salahaddin University-Erbil, 44001, Erbil, Iraq

    Rozhgar A. Khailany

  5. Department of Biology, Faculty of Education, Tishk International University, 44001, Erbil, Iraq

    Rozhgar A. Khailany

  6. Department of Biology, Virtual University of Pakistan, Lahore, 54000, Pakistan

    Sadaf Parvez

  7. School of Pharmacy, Nanjing Medical University, Nanjing, 211166, PR China

    Muhammad Naveed

  8. School of Basic Life Sciences, The First Affiliated Hospital of Nanjing Medical University, Nanjing, 20029, PR China

    Piplu Bhuiyan

  9. Department of Medical Microbiology, Koya University, Koya-Erbil, Iraq

    Rebaz Moatasam

  10. Department of Environmental Science, College of Science, Salahaddin University-Erbil, Erbil, Iraq

    Mustafa S. Al-Attar

  11. Department of Animal Breeding and Genetics, University College of Veterinary and Animal Sciences, The Islamia University of Bahawalpur, Bahawalpur, Pakistan

    Musarrat Abbas Khan

  12. Department of Physiology and Biochemistry, Cholistan University of Veterinary and Animal Sciences, Bahawalpur, 63100, Pakistan

    Yasmeen Junejo

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  1. Muhammad Safdar
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Safdar, M., Zaheer, S., Khailany, R.A. et al. The Relevance of SNPs at 3′UTR Region of CASP7 and miR-371b-5p Associated Diseases: A Computational Analysis. Cell Biochem Biophys 78, 541–557 (2020). https://doi.org/10.1007/s12013-020-00941-2

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