Dr. Jolanta Lisowiec-Wąchnicka BEng. assistant professor
Dr. Weronika Kotkowiak assistant professor
Dr. Natalia Bartyś assistant professor
Technical Staff:
Dr. Zofia Jahnz-Wechmann senior chemist
Research activity
Research area
development of novel molecular tools and devices based on nucleic acids and their analogues,
chemical synthesis of modified nucleosides and oligonucleotides,
thermodynamic and structural (CD, TDS) analysis of various nucleic acids motifs
(e.g. G-quadruplexes, triplexes, i-motif),
thermodynamics of siRNAs,
regulation of siRNA strand selection by RISC complex using modified nucleotides,
allele-selective degradation of mRNA via chemically modified siRNAs,
alternative splicing regulation in cancer cell lines,
development of potent anticoagulants based on modified oligonucleotides,
in vitro studies of chemically modified G-quadruplexes and their antiproliferative properties,
chemical synthesis of novel dyes with potential photodynamic activity.
As co-investigators:
in vitro studies of dye-oligonucleotide conjugates as useful tools for photodynamic therapy (Principal investigator: Michał Kotkowiak, PhD, Faculty of Technical Physics, Institute of Physics, Poznan University of Technology, Poznań, Poland),
studies on therapeutic potential of antisense oligonucleotides in gene silencing process (Prof. Jesper Wengel, University of Southern Denmark, Odense)
Keywords
modified nucleosides,
modified oligonucleotides,
G-quadruplexes,
triplexes,
i-motif,
alternative splicing regulation,
RNA,
DNA
aptamers,
therapeutic oligonucleotides,
diagnostics,
theranostics,
cancer treatment,
siRNAs,
nucleic acids thermodynamics,
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Research Projects
Thermodynamic identification and characterization of
G-quadruplex structures in RON protooncogene pre-mRNA, 2024/08/X/ST4/00521,
Principal Investigator: Natalia Bartyś
Thrombin binding aptamer with expanded chemical diversity
as potential anticoagulant and anticancer agent, NSC, 2021/41/B/NZ7/03910,
Principal Investigator: Weronika Kotkowiak
Foldback triplex-forming oligonucleotides as novel tools
for G-quadruplex unfolding and selective inhibition of c-Myc oncogene
transcription, NSC, 2020/37/B/NZ7/02008, Principal Investigator: Anna Pasternak
Selected publications
Kotkowiak W., Roxo C., Pasternak A. (2022) Physicochemical and
antiproliferative characteristics of RNA and DNA sequence-related G‑quadruplexes.
ACS Med. Chem. Lett. 14, 1, 35–40
Bartyś N., Pasternak A., Lisowiec-Wąchnicka J. (2022) Optimization of
Bifunctional Antisense Oligonucleotides for Regulation of Mutually Exclusive
Alternative Splicing of PKM Gene. Molecules, 27, 5682
Roxo C., Pasternak A. (2022) Changes in physicochemical and anticancer
properties modulated by chemically modified sugar moieties within
sequence-related G-quadruplex structures. PLoS ONE 17(8): e0273528
Lisowiec-Wąchnicka J., Danielsen M.B., Abi Nader E., Jørgensen P.T., Wengel
J., Pasternak A. Evaluation of Gene Expression Knock-Down by Chemically and
Structurally Modified Gapmer Antisense Oligonucleotides. ChemBioChem, 23,
e20220016
Roxo C., Kotkowiak W., Pasternak A. (2021) G4 Matters—The Influence of G-Quadruplex Structural Elements on the Antiproliferative Properties of G-Rich Oligonucleotides. Int. J. Mol. Sci., 22: 4941
Bartyś N., Kierzek R., Lisowiec-Wąchnicka J. (2019) The regulation properties of RNA secondary structure in alternative splicing. Biochim Biophys Acta Gene Regul Mech. 1862(11-12), 194401.
Roxo C., Kotkowiak W., Pasternak A. (2019) G-Quadruplex-Forming Aptamers—Characteristics, Applications, and Perspectives Molecules 24(20): 3781.
Kotkowiak W., Wengel J., Scotton C., Pasternak A. (2019) Improved RE31 analogues containing modified nucleic acid monomers: thermodynamic, structural and biological effects. J. Med. Chem. 62(5), 2499-2507.
Lisowiec-Wąchnicka J., Bartyś N., Pasternak A. (2019) A systematic study on the influence of thermodynamic asymmetry of 5′-ends of siRNA duplexes in relation to their silencing potency Sci. Rep. 9:2477, 1-12.
Lisowiec-Wąchnicka J., Znosko B., Pasternak A. (2019) Contribution of 3′T and 3′TT overhangs to the thermodynamic stability of model siRNA duplexes. Biophys. Chem. 246, 35–39.
Kotkowiak W., Czapik T., Pasternak A. (2018) Novel isoguanine derivative of unlocked nucleic acid – investigations of thermodynamics and biological potential of modified thrombin binding aptamer. PLoS ONE 13(5):e0197835.
Kotkowiak W., Lisowiec-Wachnicka J., Grynda J., Kierzek R., Wengel J., Pasternak A. (2018) Thermodynamic, anticoagulant and antiproliferative properties of thrombin binding aptamer containing novel UNA derivative. Mol. Ther. Nucl. Acids, 2;10:304-316.
Jahnz-Wechmann Z., Lisowiec-Wachnicka J., Framski G., Kosman J., Boryski J., Pasternak A. (2017) Thermodynamic, structural and fluorescent characteristics of DNA hairpins containing functionalized pyrrolo-2′-deoxycytidines. Bioorg. Chem, 71, 294-298.
Szabat M., Gudanis D., Kotkowiak W., Gdaniec Z., Kierzek R., Pasternak A. (2016) Thermodynamic features of structural motifs formed by β-L-RNA. PLoS ONE, 11(2), e0149478.
Kotkowiak W., Pasternak A., Kierzek R. (2016) Inhibition of transcription with 5’-N-triphosphates of 5’-amino-5’-deoxyribonucleosides. PLoS ONE, 11(2), e0148282.