Mutations in microRNA-128-2-3p identified with amplification-free hybridization assay

Sofie Slott; Cecilie Schiøth Krüger-Jensen; Izabela Ferreira da Silva; Nadia Bom Pedersen; Kira Astakhova

doi:10.1371/journal.pone.0289556

Mutations in microRNA-128-2-3p identified with amplification-free hybridization assay

PLoS One. 2023 Aug 22;18(8):e0289556. doi: 10.1371/journal.pone.0289556. eCollection 2023.

Authors

Sofie Slott¹, Cecilie Schiøth Krüger-Jensen¹, Izabela Ferreira da Silva^{2

3

4}, Nadia Bom Pedersen¹, Kira Astakhova¹

Affiliations

¹ Department of Chemistry, Technical University of Denmark, Kgs Lyngby, Denmark.
² Programa Interunidades de Pós-Graduacão em Bioinformática, Universidade Federal de Minas Gerais, Belo Horizonte-MG, Brazil.
³ Departamento de Física, Universidade Federal de Minas Gerais, Belo Horizonte-MG, Brazil.
⁴ Bioinformatics Core, Luxembourg Centre For Systems Biomedicine (LCSB), University of Luxembourg, Campus Belval, House of Biomedicine II, Belvaux, Luxembourg.

Abstract

We describe a quantitative detection method for mutated microRNA in human plasma samples. Specific oligonucleotides designed from a Peyrard-Bishop model allowed accurate prediction of target:probe recognition affinity and specificity. Our amplification-free tandem bead-based hybridization assay had limit of detection of 2.2 pM. Thereby, the assay allowed identification of single-nucleotide polymorphism mismatch profiles in clinically relevant microRNA-128-2-3p, showing terminal mutations that correlate positively with inflammatory colitis and colorectal cancer.

Copyright: © 2023 Slott et al. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Biological Assay
Humans
Hybridization, Genetic*
MicroRNAs* / genetics
Mutation
Nucleic Acid Hybridization

Substances

MicroRNAs
MIRN128 microRNA, human

Grants and funding

This study was financially supported by DTU Enable in the form of a grant (40996) awarded to KA. No additional external funding was received for this study. The funder had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.