Bioinformatics analysis of the interaction of miRNAs and piRNAs with human mRNA genes having di- and trinucleotide repeats

Journal article


Belkozhayev, A., Niyazova, Raigul, Wilson, C., Jainakbayev, Nurlan, Pyrkova, A., Ashirbekov, Y., Akimniyazova, Aigul, Sharipov, K. and Ivashchenko, A. 2022. Bioinformatics analysis of the interaction of miRNAs and piRNAs with human mRNA genes having di- and trinucleotide repeats. Genes. 13 (5), p. 800. https://doi.org/10.3390/genes13050800
AuthorsBelkozhayev, A., Niyazova, Raigul, Wilson, C., Jainakbayev, Nurlan, Pyrkova, A., Ashirbekov, Y., Akimniyazova, Aigul, Sharipov, K. and Ivashchenko, A.
AbstractThe variability of nucleotide repeats is considered one of the causes of diseases, but their biological function is not understood. In recent years, the interaction of miRNAs and piRNAs with the mRNAs of genes responsible for developing neurodegenerative and oncological diseases and diabetes have been actively studied. We explored candidate genes with nucleotide repeats to predict associations with miRNAs and piRNAs. The parameters of miRNAs and piRNA binding sites with mRNAs of human genes having nucleotide repeats were determined using the MirTarget program. This program defines the start of the initiation of miRNA and piRNA binding to mRNAs, the localization of miRNA and piRNA binding sites in the 5'-untranslated region (5'UTR), coding sequence (CDS) and 3'-untranslated region (3'UTR); the free energy of binding; and the schemes of nucleotide interactions of miRNAs and piRNAs with mRNAs. The characteristics of miRNAs and piRNA binding sites with mRNAs of 73 human genes were determined. The 5'UTR, 3'UTR and CDS of the mRNAs of genes are involved in the development of neurodegenerative, oncological and diabetes diseases with GU, AC dinucleotide and CCG, CAG, GCC, CGG, CGC trinucleotide repeats. The associations of miRNAs, piRNAs and candidate target genes could be recommended for developing methods for diagnosing diseases, including neurodegenerative diseases, oncological diseases and diabetes.
KeywordsmRNA; Gene; Diabetes; Neurodegenerative Disorders; Pirna; Mirna Binding; Oncological Diseases; Nucleotide Repeats; Humans; Nucleotides; MicroRNAs; RNA, Small Interfering; RNA, Messenger; 3' Untranslated Regions; 5' Untranslated Regions; Computational Biology; Trinucleotide Repeats
Year2022
JournalGenes
Journal citation13 (5), p. 800
PublisherMDPI
ISSN2073-4425
Digital Object Identifier (DOI)https://doi.org/10.3390/genes13050800
Official URLhttps://www.mdpi.com/2073-4425/13/5/800
FunderThis research was funded by the Science Committee of the Ministry of Education and Science of the Republic of Kazakhstan
Publication dates
Online29 Apr 2022
Print01 Apr 2022
Publication process dates
Accepted27 Apr 2022
Deposited30 Nov 2022
Publisher's version
License
Output statusPublished
LicenseCC BY
Permalink -

https://repository.canterbury.ac.uk/item/91061/bioinformatics-analysis-of-the-interaction-of-mirnas-and-pirnas-with-human-mrna-genes-having-di-and-trinucleotide-repeats

Download files


Publisher's version
genes-13-00800.pdf
License: CC BY 4.0

  • 31
    total views
  • 3
    total downloads
  • 0
    views this month
  • 0
    downloads this month

Export as

Related outputs

Stochastic Variation in DNA Methylation Modulates Nucleosome Occupancy and Alternative Splicing in <i>Arabidopsis thaliana</i>.
Jabre, Ibtissam, Chaudhary, S., Wilson, C., Staiger, D. and Syed, N. 2022. Stochastic Variation in DNA Methylation Modulates Nucleosome Occupancy and Alternative Splicing in <i>Arabidopsis thaliana</i>. Plants. 11 (9), p. 1105. https://doi.org/10.3390/plants11091105
Proteomic analysis of the extracellular vesicles derived from human hip joints affected by osteoarthritis
Tirnoveanu, A., Ahmed, S., Webb, R., Howland, K., Hurt, A., Wilson, C. and Mylona, A. 2022. Proteomic analysis of the extracellular vesicles derived from human hip joints affected by osteoarthritis.
Extracellular vesicles, stem cells and the role of miRNAs in neurodegeneration
Belkozhayev, Ayaz M., Al-Yozbaki, Minnatallah, George, Alex, Ye Niyazova, Raigul, Sharipov, Kamalidin O., Byrne, Lee J. and Wilson, Cornelia M. 2021. Extracellular vesicles, stem cells and the role of miRNAs in neurodegeneration. Current Neuropharmacology. 20 (8), pp. 1450-1478. https://doi.org/10.2174/1570159x19666210817150141
Exploring the cytotoxic mechanisms of Pediocin PA-1 towards HeLa and HT29 cells by comparison to known bacteriocins: Microcin E492, enterocin heterodimer and Divercin V41.
Buss, G. and Wilson, C. 2021. Exploring the cytotoxic mechanisms of Pediocin PA-1 towards HeLa and HT29 cells by comparison to known bacteriocins: Microcin E492, enterocin heterodimer and Divercin V41. PLoS ONE. 16 (9), p. e0251951. https://doi.org/10.1371/journal.pone.0251951
The undiscovered potential of essential oils for treating SARS-CoV-2 (COVID-19)
Wilkin, P. J., Al-Yozbaki, M., George, A., Gupta, G.K. and Wilson, C.M. 2021. The undiscovered potential of essential oils for treating SARS-CoV-2 (COVID-19). Current Pharmaceutical Design. 26 (41), pp. 5261-5277. https://doi.org/10.2174/1381612826666201015154611
Balancing neurotrophin pathway and sortilin function: its role in human disease
Al-Yozbaki, M., Acha-Sagredo, A., George, A., Liloglou, T. and Wilson, C.M. 2021. Balancing neurotrophin pathway and sortilin function: its role in human disease. Biochim Biophys Acta Rev Cancer. 1874 (2). https://doi.org/10.1016/j.bbcan.2020.188429
Targeting DNA methyltransferases in non-small-cell lung cancer
Al-Yozbaki, M., Jabre, I., Syed, N. and Wilson, C. 2021. Targeting DNA methyltransferases in non-small-cell lung cancer. Seminars in Cancer Biology. https://doi.org/10.1016/j.semcancer.2021.01.005
Therapeutic potential of natural compounds in lung cancer
Al-Yozbaki, M., Wilkin, P., Gupta, G. and Wilson, C. 2021. Therapeutic potential of natural compounds in lung cancer. Current Medicinal Chemistry. 28 (39), pp. 7988-8002. https://doi.org/10.2174/0929867328666210322103906
Differential nucleosome occupancy modulates alternative splicing in Arabidopsis thaliana
Jabre, I., Chaudhary, S., Guo, W., Kalyna, M., Reddy, A. S. N., Chen, W., Zhang, R., Wilson, C. and Syed, N. 2020. Differential nucleosome occupancy modulates alternative splicing in Arabidopsis thaliana. New Phytologist. https://doi.org/10.1111/nph.17062
Applications and strategies in nanodiagnosis and nanotherapy in lung cancer
Woodman, C., Vundu, G., George, A. and Wilson, C. 2020. Applications and strategies in nanodiagnosis and nanotherapy in lung cancer. Seminars in Cancer Biology. https://doi.org/10.1016/j.semcancer.2020.02.009
The role of endoproteolytic processing in neurodegeneration
Wilson, C., Mushtaq, G., Kamal, M. and Terro, F. 2016. The role of endoproteolytic processing in neurodegeneration. CNS and Neurological Disorders Drug Targets. 15. https://doi.org/10.2174/1871527315666160922163511
Challenges and strategies in precision medicine for non-small cell lung cancer
Wilson, C., Al-Akhrass, A. and Sacco, J. 2016. Challenges and strategies in precision medicine for non-small cell lung cancer. Current Pharmaceutical Design. 22. https://doi.org/10.2174/1381612822666160603014932
Sortilin mediates the release and transfer of exosomes in concert with two tyrosine kinase receptors
Wilson, C., Naves, T., Vincent, F., Lalloue, F. and Jauberteau, M. 2015. Sortilin mediates the release and transfer of exosomes in concert with two tyrosine kinase receptors.
Sortilin mediates the release and transfer of exosomes in concert with two tyrosine kinase receptors.
Wilson, C., Naves, T., Vincent, F., Melloni, B., Bonnaud, F., Lalloue, F. and Jauberteau, M. 2014. Sortilin mediates the release and transfer of exosomes in concert with two tyrosine kinase receptors. Journal of Cell Science (JCS). 127 (18), pp. 3983-3997. https://doi.org/10.1242/jcs.149336