Technologies and Methods for Studying Epitranscriptomes

A special issue of Biomedicines (ISSN 2227-9059). This special issue belongs to the section "Molecular Genetics and Genetic Diseases".

Deadline for manuscript submissions: 30 April 2024 | Viewed by 1066

Special Issue Editor


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Guest Editor
Department of Chemistry and Biochemistry, University of North Carolina at Greensboro, Greensboro, NC, USA
Interests: RNA modifications; epitranscriptomes

Special Issue Information

Dear Colleagues,

Many major breakthroughs in biomedical research were preceded by the development of new technologies or methodologies. For instance, the development of a single polymerase chain reaction opened the door for many new research areas and laid down a solid foundation for molecular medicine. By using the current technologies and methods, we have now identified and confirmed the existence of different RNA modifications and some of their corresponding writers, erasers, and readers. To propel our studies forward and enhance our knowledge of epitranscriptomes, new technologies and methods for studying epitranscriptomes are essential.

In this Special Issue, we welcome the submission of perspectives, review articles, full research reports, and technical notes with a focus on the modifications of RNA in either human or model organisms. The development, validation, and/or applications of new or improved technologies or methods that can be used in areas including but not limited to the following will be considered:

  • Comprehensive profiling of epitranscriptomes;
  • Sequencing or mapping RNA modifications;
  • Structural studies on the effects of RNA modifications;
  • Functional studies of RNA modifications;
  • Multi-omics studies; 
  • Analysis of RNA modifications that can improve specificity, sensitivity, and/or throughput;
  • Computational programs and analytics for mining the functions and distributions of RNA modifications.

Prof. Dr. Norman Chiu
Guest Editor

Manuscript Submission Information

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Published Papers (1 paper)

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Research

15 pages, 2621 KiB  
Article
Characterizing Benzo[a]pyrene Adducts in Transfer RNAs Using Liquid Chromatography Coupled with Tandem Mass Spectrometry (LC-MS/MS)
by Cassandra Herbert, Corinna L. Ohrnberger, Ella Quinlisk, Balasubrahmanyam Addepalli and Patrick A. Limbach
Biomedicines 2023, 11(12), 3270; https://doi.org/10.3390/biomedicines11123270 - 11 Dec 2023
Viewed by 815
Abstract
The activated forms of the environmental pollutant benzo[a]pyrene (B[a]P), such as benzo[a]pyrene diol epoxide (BPDE), are known to cause damage to genomic DNA and proteins. However, the impact of BPDE on ribonucleic acid (RNA) remains unclear. To understand the full spectrum of potential [...] Read more.
The activated forms of the environmental pollutant benzo[a]pyrene (B[a]P), such as benzo[a]pyrene diol epoxide (BPDE), are known to cause damage to genomic DNA and proteins. However, the impact of BPDE on ribonucleic acid (RNA) remains unclear. To understand the full spectrum of potential BPDE-RNA adducts formed, we reacted ribonucleoside standards with BPDE and characterized the reaction products using liquid chromatography coupled with tandem mass spectrometry (LC-MS/MS). To understand the potential types of adducts that could form with biological RNAs, eukaryotic transfer RNAs (tRNAs) were also reacted with BPDE. The isolation and analysis of the modified and adducted ribonucleosides using LC-MS/MS revealed several BPDE derivatives of post-transcriptional modifications. The approach outlined in this work enables the identification of RNA adducts from BPDE, which can pave the way for understanding the potential impacts of such adducts on the higher-order structure and function of modified RNAs. Full article
(This article belongs to the Special Issue Technologies and Methods for Studying Epitranscriptomes)
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