Literature DB >> 27988057

The RNA Epistructurome: Uncovering RNA Function by Studying Structure and Post-Transcriptional Modifications.

Danny Incarnato1, Salvatore Oliviero2.   

Abstract

A large fraction of higher metazoan genomes transcribe RNA molecules whose functions extend far beyond carrying instructions for protein synthesis. Although RNA is apparently a simple molecule, the ways in which it performs many of its functions have remained highly elusive for decades. As learned from studying ribosomal and transfer RNAs, two of the key features influencing the function of RNA are its structure and post-transcriptional modifications. A deep understanding of RNA function therefore requires rapid and straightforward approaches to study the complex and intricate landscape of RNA structures and modifications. In this review we summarize and discuss the most recent methods and findings in the field of RNA biology, with an eye toward new frontiers and open questions.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Keywords:  RNA folding; RNA structure; epistructurome; high-throughput sequencing; post-transcriptional modifications

Mesh:

Substances:

Year:  2016        PMID: 27988057     DOI: 10.1016/j.tibtech.2016.11.002

Source DB:  PubMed          Journal:  Trends Biotechnol        ISSN: 0167-7799            Impact factor:   19.536


  15 in total

1.  The methyltransferase TrmA facilitates tRNA folding through interaction with its RNA-binding domain.

Authors:  Laura Carole Keffer-Wilkes; Emily F Soon; Ute Kothe
Journal:  Nucleic Acids Res       Date:  2020-08-20       Impact factor: 16.971

2.  RNA Post-Transcriptional Modification Mapping Data Analysis Using RNA Framework.

Authors:  Ilaria Manfredonia; Danny Incarnato
Journal:  Methods Mol Biol       Date:  2021

Review 3.  Re-evaluating Strategies to Define the Immunoregulatory Roles of miRNAs.

Authors:  Adriana Forero; Lomon So; Ram Savan
Journal:  Trends Immunol       Date:  2017-06-27       Impact factor: 16.687

Review 4.  Functional 5' UTR mRNA structures in eukaryotic translation regulation and how to find them.

Authors:  Kathrin Leppek; Rhiju Das; Maria Barna
Journal:  Nat Rev Mol Cell Biol       Date:  2017-11-22       Impact factor: 94.444

5.  Genome-wide analysis of the in vivo tRNA structurome reveals RNA structural and modification dynamics under heat stress.

Authors:  Ryota Yamagami; Jacob P Sieg; Sarah M Assmann; Philip C Bevilacqua
Journal:  Proc Natl Acad Sci U S A       Date:  2022-06-13       Impact factor: 12.779

6.  In vivo analysis of influenza A mRNA secondary structures identifies critical regulatory motifs.

Authors:  Lisa Marie Simon; Edoardo Morandi; Anna Luganini; Giorgio Gribaudo; Luis Martinez-Sobrido; Douglas H Turner; Salvatore Oliviero; Danny Incarnato
Journal:  Nucleic Acids Res       Date:  2019-07-26       Impact factor: 16.971

7.  RNA Framework: an all-in-one toolkit for the analysis of RNA structures and post-transcriptional modifications.

Authors:  Danny Incarnato; Edoardo Morandi; Lisa Marie Simon; Salvatore Oliviero
Journal:  Nucleic Acids Res       Date:  2018-09-19       Impact factor: 16.971

Review 8.  Systematically Studying the Effect of Small Molecules Interacting with RNA in Cellular and Preclinical Models.

Authors:  Jessica A Bush; Christopher C Williams; Samantha M Meyer; Yuquan Tong; Hafeez S Haniff; Jessica L Childs-Disney; Matthew D Disney
Journal:  ACS Chem Biol       Date:  2021-06-24       Impact factor: 4.634

9.  In vivo probing of nascent RNA structures reveals principles of cotranscriptional folding.

Authors:  Danny Incarnato; Edoardo Morandi; Francesca Anselmi; Lisa M Simon; Giulia Basile; Salvatore Oliviero
Journal:  Nucleic Acids Res       Date:  2017-09-19       Impact factor: 16.971

Review 10.  Methods for monitoring and measurement of protein translation in time and space.

Authors:  Maria Dermit; Martin Dodel; Faraz K Mardakheh
Journal:  Mol Biosyst       Date:  2017-11-21
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