Covalent labeling of nucleic acids

N Klöcker, FP Weissenboeck… - Chemical Society Reviews, 2020 - pubs.rsc.org
Labeling of nucleic acids is required for many studies aiming to elucidate their functions and
dynamics in vitro and in cells. Out of the numerous labeling concepts that have been …

Advances in RNA 3D structure modeling using experimental data

B Li, Y Cao, E Westhof, Z Miao - Frontiers in genetics, 2020 - frontiersin.org
RNA is a unique bio-macromolecule that can both record genetic information and perform
biological functions in a variety of molecular processes, including transcription, splicing …

Conformational activation promotes CRISPR-Cas12a catalysis and resetting of the endonuclease activity

S Stella, P Mesa, J Thomsen, B Paul, P Alcón… - Cell, 2018 - cell.com
Cas12a, also known as Cpf1, is a type VA CRISPR-Cas RNA-guided endonuclease that is
used for genome editing based on its ability to generate specific dsDNA breaks. Here, we …

Super-resolution RNA imaging using a rhodamine-binding aptamer with fast exchange kinetics

M Sunbul, J Lackner, A Martin, D Englert… - Nature …, 2021 - nature.com
Overcoming limitations of previous fluorescent light-up RNA aptamers for super-resolution
imaging, we present RhoBAST, an aptamer that binds a fluorogenic rhodamine dye with fast …

Transcriptional riboswitches integrate timescales for bacterial gene expression control

CE Scull, SS Dandpat, RA Romero… - Frontiers in molecular …, 2021 - frontiersin.org
Transcriptional riboswitches involve RNA aptamers that are typically found in the 5′
untranslated regions (UTRs) of bacterial mRNAs and form alternative secondary structures …

Tag‐free internal RNA labeling and photocaging based on mRNA methyltransferases

A Ovcharenko, FP Weissenboeck… - Angewandte Chemie …, 2021 - Wiley Online Library
The mRNA modification N6‐methyladenosine (m6A) is associated with multiple roles in cell
function and disease. The methyltransferases METTL3‐METTL14 and METTL16 act as …

[HTML][HTML] Unraveling multi-state molecular dynamics in single-molecule FRET experiments. I. Theory of FRET-lines

A Barth, O Opanasyuk, TO Peulen… - The Journal of …, 2022 - pubs.aip.org
Conformational dynamics of biomolecules are of fundamental importance for their function.
Single-molecule studies of Förster Resonance Energy Transfer (smFRET) between a …

Strategies for covalent labeling of long RNAs

H Depmeier, E Hoffmann, L Bornewasser… - …, 2021 - Wiley Online Library
The introduction of chemical modifications into long RNA molecules at specific positions for
visualization, biophysical investigations, diagnostic and therapeutic applications still …

[HTML][HTML] Amyloid-β oligomerization monitored by single-molecule stepwise photobleaching

L Dresser, P Hunter, F Yendybayeva, AL Hargreaves… - Methods, 2021 - Elsevier
A major hallmark of Alzheimer's disease is the misfolding and aggregation of the amyloid-β
peptide (Aβ). While early research pointed towards large fibrillar-and plaque-like aggregates …

FRET-guided modeling of nucleic acids

FD Steffen, RA Cunha, RKO Sigel… - Nucleic Acids …, 2024 - academic.oup.com
The functional diversity of RNAs is encoded in their innate conformational heterogeneity.
The combination of single-molecule spectroscopy and computational modeling offers new …