Special Issue "Functions and Dynamics of RNA Modifications"

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Molecular Genetics and Genomics".

Deadline for manuscript submissions: 31 December 2020.

Special Issue Editors

Dr. Stefanie Kellner
Website
Guest Editor
Department of Chemistry, Ludwig-Maximilians-Universität München, Butenandtstrasse 13, DE-81377, Munich, Germany
Interests: RNA; LC-MS; stable isotope labeling; molecular biology; chemical derivatization; electrophoresis; RNA isolation; RNA purification
Dr. Carine Tisne
Website1 Website2
Co-Guest Editor
Microbial Gene Expression, Institute of Physico-Chemical Biology, IBPC, 13 rue Pierre et Marie Curie, 75005 Paris, France
Interests: RNA structure; RNA maturation; Epitranscriptomics; Structural Biology; Chemistry Biology interface; RNA Biochemistry
Dr. Pierre Barraud
Website
Co-Guest Editor
Microbial Gene Expression, Institute of Physico-Chemical Biology, CNRS, Université de Paris, 13 rue Pierre et Marie Curie, FR-75005 Paris, France
Interests: RNA; protein-RNA complexes; RNA modifications; RNA-binding domains; Nuclear Magnetic Resonance; Molecular Biology; Structural Biology

Special Issue Information

Dear Colleagues,

To fulfil their functions in translation and cell homeostasis, RNA molecules are heavily modified. Chemical variations such as methylations, thiolations or acylations or even rearrangements of the canonical building block form a second layer of information on top of the sequence code. Analogous to the term epigenetics, which describes the modulation of this second layer in DNA, the term epitranscriptomics was established for RNA. In this Special Issue, we will focus on the epitranscriptome and its dynamic character. We welcome submissions of original articles as well as reviews covering all aspects of RNA modification, including the installation of RNA modifications, the active removal of RNA modifications by, e.g., demethylases or RNA degradation, and the impact of these dynamic changes on RNA functions.

Dr. Stefanie Kellner
Dr. Carine Tisne
Dr. Pierre Barraud
Guest Editors

Manuscript Submission Information

Manuscripts should be submitted online at www.mdpi.com by registering and logging in to this website. Once you are registered, click here to go to the submission form. Manuscripts can be submitted until the deadline. All papers will be peer-reviewed. Accepted papers will be published continuously in the journal (as soon as accepted) and will be listed together on the special issue website. Research articles, review articles as well as short communications are invited. For planned papers, a title and short abstract (about 100 words) can be sent to the Editorial Office for announcement on this website.

Submitted manuscripts should not have been published previously, nor be under consideration for publication elsewhere (except conference proceedings papers). All manuscripts are thoroughly refereed through a single-blind peer-review process. A guide for authors and other relevant information for submission of manuscripts is available on the Instructions for Authors page. Genes is an international peer-reviewed open access monthly journal published by MDPI.

Please visit the Instructions for Authors page before submitting a manuscript. The Article Processing Charge (APC) for publication in this open access journal is 1800 CHF (Swiss Francs). Submitted papers should be well formatted and use good English. Authors may use MDPI's English editing service prior to publication or during author revisions.

Keywords

  • RNA
  • Epitranscriptome
  • Detection
  • Function
  • Dynamics
  • Biosynthesis
  • RNA degradation
  • Demodification

Published Papers (1 paper)

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Research

Open AccessArticle
Manganese Ions Individually Alter the Reverse Transcription Signature of Modified Ribonucleosides
Genes 2020, 11(8), 950; https://doi.org/10.3390/genes11080950 - 18 Aug 2020
Abstract
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 [...] Read more.
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 respective RNA modification and reverse transcriptase (RT). While known for DNA polymerases in so-called error-prone PCR, testing of four different RTs by replacing Mg2+ with Mn2+ in reaction buffer revealed the immense influence of manganese chloride on derived RT signatures, with arrest rates on m1A positions dropping from 82% down to 24%. Additionally, we observed a vast increase in nucleotide skipping events, with single positions rising from 4% to 49%, thus implying an enhanced read-through capability as an effect of Mn2+ on the reverse transcriptase, by promoting nucleotide skipping over synthesis abortion. While modifications such as m1A, m22G, m1G and m3C showed a clear influence of manganese ions on their RT signature, this effect was individual to the polymerase used. In summary, the results imply a supporting effect of Mn2+ on reverse transcription, thus overcoming blockades in the Watson-Crick face of modified ribonucleosides and improving both read-through rate and signal intensity in RT signature analysis. Full article
(This article belongs to the Special Issue Functions and Dynamics of RNA Modifications)
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