Biophysical Investigation of RNA •DNA:DNA triple helix and RNA:DNA heteroduplex formation by the lncRNAs MEG3 and Fendrr

We present the investigations of the antiparallel triplex-forming lncRNA MEG3 targeting the gene TGFB2 and the parallel triplex-forming lncRNA Fendrr with its target gene Emp2. The thermodynamic properties of these oligonucleotides lead to concentration-dependent heterogeneous mixtures, where a DNA duplex, an RNA:DNA heteroduplex and an RNA•DNA:DNA triplex coexist and their relative populations are modulated in a temperature-dependent manner. The in vitro data provide a reliable readout of triplex structures, as RNA•DNA:DNA triplexes show distinct features compared to DNA duplexes and RNA:DNA heteroduplexes. Our experimental results can be used to validate computationally predicted triple helix formation between novel disease-relevant lncRNAs and their DNA target genes.PMID:38456652 | DOI:10.1002/cbic.202400049

Source: Chembiochem - March 8, 2024 Category: Biochemistry Authors: Nina M Krause Jasleen Kaur Bains Julius Blechar Christian Richter Irene Bessi Phillip Grote Matthias Leisegang Ralf P Brandes Harald Schwalbe Source Type: research