Chemical tagging for sensitive determination of uridine modifications in RNA

Cheng, Qing-Yun; Xiong, Jun; Ma, Cheng-Jie; Dai, Yi; Ding, Jiang-Hui; Liu, Fei-Long; Yuan, Bi-Feng; Feng, Yu‐Qi

doi:10.1039/c9sc05094a

Cited by 47 publications

(45 citation statements)

References 62 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…m 5 U is a common modification in the tRNAs of bacteria and eukaryotes, and its formation is catalyzed by TrmA in E. coli. A recent high-throughput sequencing approach with increased sensitivity led to the identification of m 5 U in mRNAs of various mammalian cells and tissues [53]. The measured contents of m 5 U in the mRNAs of various types of human cells and mouse tissues range from 0.001% to 0.0059% (m 5 U/U), comparable to that of m 6 Am and m 3 C in mRNAs of mammals.…”

Section: N4-acetylcytidine (Ac 4 C)mentioning

confidence: 98%

Effects of mRNA Modifications on Translation: An Overview

Roy

2021

Methods in Molecular Biology

View full text Add to dashboard Cite

The mRNA epitranscriptome imparts diversity to gene expression by installing chemical modifications. Advances in detection methods have identified chemical modifications in eukaryotic, bacterial, and viral messenger RNAs (mRNAs). The biological functions of modifications in mRNAs still remain to be understood. Chemical modifications are introduced in synthetic mRNAs meant for therapeutic applications to maximize expression from the synthetic mRNAs and to evade the host immune response. This overview provides a background of chemical modifications found in mRNAs, with an emphasis on pseudouridine and its known effects on the mRNA life cycle, its potential applications in synthetic mRNA, and the methods used to assess its effects on mRNA translation.

show abstract

Section: N4-acetylcytidine (Ac 4 C)mentioning

confidence: 98%

Effects of mRNA Modifications on Translation: An Overview

Roy

2021

Methods in Molecular Biology

View full text Add to dashboard Cite

show abstract

“…RNA was digested by the neutral enzymatic digestion method according to a previous study. 36 The detailed procedure can be found in the ESI. †…”

Section: Methodsmentioning

confidence: 99%

Novel dual methylation of cytidines in the RNA of mammals

et al. 2021

Self Cite

View full text Add to dashboard Cite

show abstract

“…Also, two recent high-throughput sequencing projects examined m 5 U in RNAs from human cells (Carter et al, 2019;Cheng et al, 2020). While the vast majority of m 5 U marks were detected in tRNAs, several mRNAs and lncRNAs also contained m 5 U marks (Carter et al, 2019;Cheng et al, 2020). Importantly, several RNAs were bound to TRMT2A, but did not contain methylated uridines, suggesting that TRMT2A has additional biological roles that remain currently unknown (Carter et al, 2019).…”

Section: S 2 C Allows For Anticodon Flexibility and Enhanced Codon Binding In Bacterial And Archaeal Trnas And Can Be Methylated To Form mentioning

confidence: 99%

Naturally occurring modified ribonucleosides

et al. 2020

View full text Add to dashboard Cite

The chemical identity of RNA molecules beyond the four standard ribonucleosides has fascinated scientists since pseudouridine was characterized as the "fifth" ribonucleotide in 1951. Since then, the ever-increasing number and complexity of modified ribonucleosides have been found in viruses and throughout all three domains of life. Such modifications can be as simple as methylations, hydroxylations, or thiolations, complex as ring closures, glycosylations, acylations, or aminoacylations, or unusual as the incorporation of selenium. While initially found in transfer and ribosomal RNAs, modifications also exist in messenger RNAs and noncoding RNAs. Modifications have profound cellular outcomes at various levels, such as altering RNA structure or being essential for cell survival or organism viability. The aberrant presence or absence of RNA modifications can lead to human disease, ranging from cancer to various metabolic and developmental illnesses such as Hoyeraal-Hreidarsson syndrome, Bowen-Conradi syndrome, or Williams-Beuren syndrome. In this review article, we summarize the characterization of all 143 currently known modified ribonucleosides by describing their taxonomic distributions, the enzymes that generate the modifications, and any implications in cellular processes, RNA structure, and disease. We also highlight areas of active research, such as specific RNAs that contain a particular type of modification as well as methodologies used to identify novel RNA modifications.

show abstract

Chemical tagging for sensitive determination of uridine modifications in RNA

Abstract: The discovery of dynamic and reversible modifications in messenger RNA is opening new directions in RNA modification-mediated regulation of biological processes.

Cited by 47 publications

References 62 publications

Effects of mRNA Modifications on Translation: An Overview

Effects of mRNA Modifications on Translation: An Overview

Novel dual methylation of cytidines in the RNA of mammals

Naturally occurring modified ribonucleosides

Contact Info

Product

Resources

About