piRNAs may regulate expression of candidate genes of esophageal adenocarcinoma

Akimniyazova A.N. Niyazova T.K. Yurikova O.Y. Pyrkova A.Y. Zhanuzakov M.A. Ivashchenko A.T.
30 November 2022 Frontiers Media S.A.

Frontiers in Genetics
2022 #13

Elucidation of ways to regulate the expression of candidate cancer genes will contribute to the development of methods for cancer diagnosis and therapy. The aim of the present study was to show the role of piRNAs as efficient regulators of mRNA translation of esophageal adenocarcinoma (EAC) candidate genes. We used bioinformatic methods to study the interaction characteristics of up to 200 thousand piRNAs with mRNAs of 38 candidate EAC genes. The piRNAs capable of binding to mRNA of AR, BTG3, CD55, ERBB3, FKBP5, FOXP1, LEP, SEPP1, SMAD4, and TP53 genes with high free energy by the formation of hydrogen bonds between canonical (G-C, A-U) and noncanonical (G-U, A-C) piRNA and mRNA nucleotide pairs were revealed. The organization of piRNA binding sites (BSs) in the mRNA of candidate genes was found to overlap nucleotide sequences to form clusters. Clusters of piRNA BSs were detected in the 5′-untranslated region, coding domain sequence, and 3′-untranslated region of mRNA. Due to the formation of piRNA binding site clusters, compaction of BSs occurs and competition between piRNAs for binding to mRNA of candidate EAC genes occurs. Associations of piRNA and candidate genes were selected for use as markers for the diagnosis of EAC. Copyright

candidate genes , diagnostic , esophageal adenocarcinoma , mRNA , piRNA

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Higher School of Medicine, Faculty of Medicine and Healthcare, Al-Farabi Kazakh National University, Almaty, Kazakhstan
Department of Biotechnology, Faculty of Biology and Biotechnology, Al-Farabi Kazakh National University, Almaty, Kazakhstan
Center for Bioinformatics and Nanomedicine, Almaty, Kazakhstan

Higher School of Medicine
Department of Biotechnology
Center for Bioinformatics and Nanomedicine

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