Wang, Hongzhou Todd, Daniel A. Chiu, Norman H. L.
Published in
Journal of Analytical Science and Technology
With the ability to differentiate different molecular sizes, ion mobility spectrometry (IMS) has great potentials in the analysis of isomeric compounds. However, due to the lack of sensitivity and resolution, IMS has not been commonly used. To address the issue on resolution, the goals of this study are to explore a more effective way to perform IM...
Andrzejewska, Angelika Zawadzka, Małgorzata Pachulska-Wieczorek, Katarzyna
Published in
International Journal of Molecular Sciences
RNAs adopt specific structures in order to perform their biological activities. The structure of RNA is an important layer of gene expression regulation, and can impact a plethora of cellular processes, starting with transcription, RNA processing, and translation, and ending with RNA turnover. The development of high-throughput technologies has ena...
Dermentzaki, Georgia Lotti, Francesco
Published in
Frontiers in Molecular Biosciences
RNA modifications termed epitranscriptomics represent an additional layer of gene regulation similar to epigenetic mechanisms operating on DNA. The dynamic nature and the increasing number of RNA modifications offer new opportunities for a rapid fine-tuning of gene expression in response to specific environmental cues. In cooperation with a diverse...
Kristen, Marco Plehn, Johanna Marchand, Virginie Friedland, Kristina Motorin, Yuri Helm, Mark Werner, Stephan
Published in
Genes
Reverse transcription of RNA templates containing modified ribonucleosides transfers modification-related information as misincorporations, arrest or nucleotide skipping events to the newly synthesized cDNA strand. The frequency and proportion of these events, merged from all sequenced cDNAs, yield a so-called RT signature, characteristic for the r...
Thumbs, Peter Ensfelder, Timm T Hillmeier, Markus Wagner, Mirko Heiss, Matthias Scheel, Constanze Schön, Alexander Müller, Markus Michalakis, Stylianos Kellner, Stefanie
...
Published in
Angewandte Chemie (International ed. in English)
Queuosine (Q) is a hypermodified RNA nucleoside that is found in tRNAHis , tRNAAsn , tRNATyr , and tRNAAsp . It is located at the wobble position of the tRNA anticodon loop, where it can interact with U as well as C bases located at the respective position of the corresponding mRNA codons. In tRNATyr and tRNAAsp of higher eukaryotes, including huma...
Ketley, Ruth F. Gullerova, Monika
Published in
Essays in Biochemistry
The mechanisms by which RNA acts in the DNA damage response (DDR), specifically in the repair of DNA double-strand breaks (DSBs), are emerging as multifaceted and complex. Different RNA species, including but not limited to; microRNA (miRNA), long non-coding RNA (lncRNA), RNA:DNA hybrid structures, the recently identified damage-induced lncRNA (dil...
Mathlin, Julia Le Pera, Loredana Colombo, Teresa
Published in
International Journal of Molecular Sciences
In the past few years, thorough investigation of chemical modifications operated in the cells on ribonucleic acid (RNA) molecules is gaining momentum. This new field of research has been dubbed “epitranscriptomics”, in analogy to best-known epigenomics, to stress the potential of ensembles of RNA modifications to constitute a post-transcriptional r...
Begik, Oguzhan Lucas, Morghan C. Liu, Huanle Ramirez, Jose Miguel Mattick, John S. Novoa, Eva Maria
Published in
Genome Biology
BackgroundRNA modifications play central roles in cellular fate and differentiation. However, the machinery responsible for placing, removing, and recognizing more than 170 RNA modifications remains largely uncharacterized and poorly annotated, and we currently lack integrative studies that identify which RNA modification-related proteins (RMPs) ma...
Muthusamy, Srinivasan
Published in
Gene
In recent days, RNA modifications are gaining the interest of biologist worldwide. Till date, a total of 171 RNA modifications has been reported, and the number may increase with advancing technologies. The mRNA undergoes modifications like m5M, hm5C, m1A, m6A and pseudouridine, collectively called as epitranscriptomic alterations, each of them has...
Shi, Hanhan Chai, Peiwei Jia, Renbing Fan, Xianqun
Published in
Molecular Cancer
RNA modifications can be added or removed by a variety of enzymes that catalyse the necessary reactions, and these modifications play roles in essential molecular mechanisms. The prevalent modifications on mRNA include N6-methyladenosine (m6A), N1-methyladenosine (m1A), 5-methylcytosine (m5C), 5-hydroxymethylcytosine (hm5C), pseudouridine (Ψ), inos...
