Literature DB >> 31128223

Riboswitch distribution, structure, and function in bacteria.

Nikolet Pavlova1, Dimitrios Kaloudas1, Robert Penchovsky2.   

Abstract

Riboswitches are gene control elements that directly bind to specific ligands to regulate gene expression without the need for proteins. They are found in all three domains of life, including Bacteria, Archaea, and Eukaryota. Riboswitches are mostly spread in bacteria and archaea. In this paper, we discuss the general distribution, structure, and function of 28 different riboswitch classes as we focus our attention on riboswitches in bacteria. Bacterial riboswitches regulate gene expression by four distinct mechanisms. They regulate the expression of a limited number of genes. However, most of these genes are responsible for the synthesis of essential metabolites without which the cell cannot function. Therefore, riboswitch distribution is also important for antibacterial drug development.
Copyright © 2019 Elsevier B.V. All rights reserved.

Keywords:  Aptamers; Genomic analysis; Riboswitch control of gene expression; Riboswitch distribution; Riboswitches; Ribozymes

Mesh:

Substances:

Year:  2019        PMID: 31128223     DOI: 10.1016/j.gene.2019.05.036

Source DB:  PubMed          Journal:  Gene        ISSN: 0378-1119            Impact factor:   3.688


  18 in total

Review 1.  Riboswitch Mechanisms: New Tricks for an Old Dog.

Authors:  Ascensión Ariza-Mateos; Ashok Nuthanakanti; Alexander Serganov
Journal:  Biochemistry (Mosc)       Date:  2021-08       Impact factor: 2.487

2.  The Second Class of Tetrahydrofolate (THF-II) Riboswitches Recognizes the Tetrahydrofolic Acid Ligand via Local Conformation Changes.

Authors:  Minmin Zhang; Guangfeng Liu; Yunlong Zhang; Ting Chen; Shanshan Feng; Rujie Cai; Changrui Lu
Journal:  Int J Mol Sci       Date:  2022-05-25       Impact factor: 6.208

3.  Comparative molecular dynamics simulation analysis of G20 and C92 mutations in c-di-GMP I riboswitch and the wild type with docked c-di-GMP ligand.

Authors:  Priyanka Kumari; Anup Som
Journal:  Bioinformation       Date:  2021-08-31

4.  RR3DD: an RNA global structure-based RNA three-dimensional structural classification database.

Authors:  Xu Hong; Jinfang Zheng; Juan Xie; Xiaoxue Tong; Xudong Liu; Qi Song; Sen Liu; Shiyong Liu
Journal:  RNA Biol       Date:  2021-10-18       Impact factor: 4.766

5.  Transcriptional and translational S-box riboswitches differ in ligand-binding properties.

Authors:  Divyaa Bhagdikar; Frank J Grundy; Tina M Henkin
Journal:  J Biol Chem       Date:  2020-03-24       Impact factor: 5.157

6.  Developing a Riboswitch-Mediated Regulatory System for Metabolic Flux Control in Thermophilic Bacillus methanolicus.

Authors:  Marta Irla; Sigrid Hakvåg; Trygve Brautaset
Journal:  Int J Mol Sci       Date:  2021-04-28       Impact factor: 5.923

7.  µIVC-Useq: a microfluidic-assisted high-throughput functionnal screening in tandem with next generation sequencing and artificial neural network to rapidly characterize RNA molecules.

Authors:  Roger Cubi; Farah Bouhedda; Mayeul Collot; Andrey S Klymchenko; Michael Ryckelynck
Journal:  RNA       Date:  2021-05-05       Impact factor: 5.636

8.  Conformational Ensemble of TteAdoCbl Riboswitch Provides Stable Structural Elements for Conformation Selection and Population Shift in Cobalamin Recognition.

Authors:  Buyong Ma; Ganggang Bai; Ruth Nussinov; Jienyu Ding; Yun-Xing Wang
Journal:  J Phys Chem B       Date:  2021-03-08       Impact factor: 3.466

9.  m6 A-mediated alternative splicing coupled with nonsense-mediated mRNA decay regulates SAM synthetase homeostasis.

Authors:  Eichi Watabe; Marina Togo-Ohno; Yuma Ishigami; Shotaro Wani; Keiko Hirota; Mariko Kimura-Asami; Sharmin Hasan; Satomi Takei; Akiyoshi Fukamizu; Yutaka Suzuki; Tsutomu Suzuki; Hidehito Kuroyanagi
Journal:  EMBO J       Date:  2021-06-21       Impact factor: 14.012

Review 10.  Extremely Low Leakage Expression Systems Using Dual Transcriptional-Translational Control for Toxic Protein Production.

Authors:  Yusuke Kato
Journal:  Int J Mol Sci       Date:  2020-01-21       Impact factor: 5.923

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