tRNA modifications: impact on structure and thermal adaptation

C Lorenz, CE Lünse, M Mörl - Biomolecules, 2017 - mdpi.com
Transfer RNAs (tRNAs) are central players in translation, functioning as adapter molecules
between the informational level of nucleic acids and the functional level of proteins. They …

A rationale for tRNA modification circuits in the anticodon loop

L Han, EM Phizicky - Rna, 2018 - rnajournal.cshlp.org
The numerous post-transcriptional modifications of tRNA play a crucial role in tRNA function.
While most modifications are introduced to tRNA independently, several sets of …

iRNAD: a computational tool for identifying D modification sites in RNA sequence

ZC Xu, PM Feng, H Yang, WR Qiu, W Chen… - …, 2019 - academic.oup.com
Motivation Dihydrouridine (D) is a common RNA post-transcriptional modification found in
eukaryotes, bacteria and a few archaea. The modification can promote the conformational …

The tRNA elbow in structure, recognition and evolution

J Zhang, AR Ferré-D'Amaré - Life, 2016 - mdpi.com
Prominent in the L-shaped three-dimensional structure of tRNAs is the “elbow” where their
two orthogonal helical stacks meet. It has a conserved structure arising from the interaction …

Dihydrouridine in the transcriptome: new life for this ancient RNA chemical modification

D Brégeon, L Pecqueur, S Toubdji, C Sudol… - ACS chemical …, 2022 - ACS Publications
Until recently, post-transcriptional modifications of RNA were largely restricted to noncoding
RNA species. However, this belief seems to have quickly dissipated with the growing …

Prospective serum metabolomic profiling of lethal prostate cancer

J Huang, AM Mondul, SJ Weinstein… - … journal of cancer, 2019 - Wiley Online Library
Impaired metabolism may play an important role in the pathogenesis of lethal prostate
cancer, yet there is a paucity of evidence regarding the association. We conducted a large …

The Dihydrouridine landscape from tRNA to mRNA: A perspective on synthesis, structural impact and function

O Finet, C Yague-Sanz, F Marchand, D Hermand - RNA biology, 2022 - Taylor & Francis
The universal dihydrouridine (D) epitranscriptomic mark results from a reduction of uridine
by the Dus family of NADPH-dependent reductases and is typically found within the eponym …

Transfer RNA modification enzymes from thermophiles and their modified nucleosides in tRNA

H Hori, T Kawamura, T Awai, A Ochi, R Yamagami… - Microorganisms, 2018 - mdpi.com
To date, numerous modified nucleosides in tRNA as well as tRNA modification enzymes
have been identified not only in thermophiles but also in mesophiles. Because most …

Exploring a unique class of flavoenzymes: Identification and biochemical characterization of ribosomal RNA dihydrouridine synthase

S Toubdji, Q Thullier, LM Kilz, V Marchand… - Proceedings of the …, 2024 - pnas.org
Dihydrouridine (D), a prevalent and evolutionarily conserved base in the transcriptome,
primarily resides in tRNAs and, to a lesser extent, in mRNAs. Notably, this modification is …

Functional redundancy in tRNA dihydrouridylation

C Sudol, LM Kilz, V Marchand, Q Thullier… - Nucleic Acids …, 2024 - academic.oup.com
Dihydrouridine (D) is a common modified base found predominantly in transfer RNA (tRNA).
Despite its prevalence, the mechanisms underlying dihydrouridine biosynthesis, particularly …