Themed collection The Epitranscriptome
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Introduction to ‘The Epitranscriptome’
Ralph Kleiner (Princeton University, USA), Claudia Höbartner (University of Würzburg, Germany) and Guifang Jia (Peking University, China) introduce the themed collection on ‘The Epitranscriptome’.
RSC Chem. Biol., 2024,5, 271-272
https://doi.org/10.1039/D4CB90006E
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Reversible oxidative dimerization of 4-thiouridines in tRNA isolates
In search for new RNA modifications in E. coli tRNA we elucidated a disulfide-bridged dimer of 4-thiouridine which was identified as an ex vivo artifact and is formed during sample handling in the presence of ambient oxygen.
RSC Chem. Biol., 2024,5, 216-224
https://doi.org/10.1039/D3CB00221G
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N 4-Allylcytidine: a new nucleoside analogue for RNA labelling and chemical sequencing
N 4-Allylcytidine, a new nucleoside analogue, can be applied to label RNA via various fashions and then be post-identified at base resolution by iodination-mediated chemical sequencing.
RSC Chem. Biol., 2024,5, 225-235
https://doi.org/10.1039/D3CB00189J
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Advantages and challenges associated with bisulfite-assisted nanopore direct RNA sequencing for modifications
Nanopore direct RNA sequencing assisted by pseudouridine- and m5C-specific bisulfite treatment is a technology that allows sequencing for epitranscriptomic modifications with the possibility of quantitative assessment.
RSC Chem. Biol., 2023,4, 952-964
https://doi.org/10.1039/D3CB00081H
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Temporal resolution of NAIL-MS of tRNA, rRNA and Poly-A RNA is overcome by actinomycin D
Metabolic labelling of RNA in human cell culture results in hybrid RNA species which can act to improve the temporal resolution of RNA modification dynamics studies.
RSC Chem. Biol., 2023,4, 354-362
https://doi.org/10.1039/D2CB00243D
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Methylated guanosine and uridine modifications in S. cerevisiae mRNAs modulate translation elongation
Four new mRNA modifications were detected in S. cerevisiae by integrating an improved LC-MS/MS approach with an enhanced mRNA purification and validation process. Codons containing these modifications were further identified to impede translation.
RSC Chem. Biol., 2023,4, 363-378
https://doi.org/10.1039/D2CB00229A
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Arabidopsis thaliana NudiXes have RNA-decapping activity
In light of recent discoveries of noncanonical RNA caps, we studied substrate specificity of potential plant RNA decapping enzymes - NudiXes. We have found that some are very selective, while others function as general RNA decapping enzymes.
RSC Chem. Biol., 2023,4, 223-228
https://doi.org/10.1039/D2CB00213B
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Nucleoside analogs in ADAR guide strands targeting 5′-U
sites
Adenosine deaminases acting on RNAs (ADARs) can be directed to correct RNA mutations with complementary guide strands. We introduce nucleoside analogs at the −1 position of the guide RNA to enhance target editing and decrease off-target editing.
RSC Chem. Biol., 2023,4, 74-83
https://doi.org/10.1039/D2CB00165A
About this collection
This themed collection, guest edited by Ralph Kleiner (Princeton University, USA), Claudia Höbartner (University of Würzburg, Germany) and Guifang Jia (Peking University, China), presents articles in the field of epitranscriptomics, delving into the exploration of non-canonical ribonucleotides in biology. Taken together, we hope that readers will find this small sampling of epitranscriptomic research, showcasing recent directions in the field, to be a stimulating and thought-provoking entry point for further reading and study.