Article
Multidisciplinary Sciences
Yuzuru Itoh, Anas Khawaja, Ivan Laptev, Miriam Cipullo, Ilian Atanassov, Petr Sergiev, Joanna Rorbach, Alexey Amunts
Summary: This study reveals the sequential assembly mechanism of the small mitoribosomal subunit (SSU) using cryo-electron microscopy. The results demonstrate the role of auxiliary factors in promoting rRNA maturation and conformational changes, leading to the formation of the catalytic human mitoribosome.
Article
Biochemistry & Molecular Biology
Duolin Wang, Zhaoyue Zhang, Yuexu Jiang, Ziting Mao, Dong Wang, Hao Lin, Dong Xu
Summary: Subcellular localization of messenger RNAs plays an important role in controlling the translation process and various cellular events. Computational methods are useful for studying mRNA functions, but there is still room for improvement in methods designed for mRNA subcellular localization prediction. The proposed multi-label mRNA subcellular localization prediction method, DM3Loc, outperforms existing methods and has the ability to analyze key signals on mRNAs for subcellular localization.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biology
Sven Dennerlein, Sabine Poerschke, Silke Oeljeklaus, Cong Wang, Ricarda Richter-Dennerlein, Johannes Sattmann, Diana Bauermeister, Elisa Hanitsch, Stefan Stoldt, Thomas Langer, Stefan Jakobs, Bettina Warscheid, Peter Rehling
Summary: TMEM223 and SMIM4 were identified as ribosome-associated proteins involved in complex IV and III biogenesis, respectively. They stimulate mRNA translation and support early assembly steps, linking translation machinery to the biogenesis of OXPHOS complexes.
Review
Microbiology
Xiao Wang, Jie Zhu, Da Zhang, Guangqing Liu
Summary: Viruses are intracellular parasites that rely on host cellular functions to reproduce. They manipulate ribosomes to synthesize their own proteins and regulate ribosome production and assembly to promote viral protein synthesis and inhibit host antiviral protein synthesis.
FRONTIERS IN MICROBIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Sebastien Meurant, Lorris Mauclet, Marc Dieu, Thierry Arnould, Sven Eyckerman, Patricia Renard
Summary: Biotin-based proximity labeling approaches, specifically BioID, have been used to study mitochondria proteomes in living cells. Genetically engineered cell lines enable detailed characterization of poorly understood processes (e.g., mitochondrial co-translational import). However, the mechanisms are still unclear, and few actors have been identified in mammals. Using BioID, the TOM20 proxosome was profiled, revealing enrichment of RNA binding proteins, although their role in the co-translational import process was not demonstrated for selected candidates.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Multidisciplinary Sciences
Tea Lenarcic, Moritz Niemann, David J. F. Ramrath, Salvatore Calderaro, Timo Fluegel, Martin Saurer, Marc Leibundgut, Daniel Boehringer, Celine Prange, Elke K. Horn, Andre Schneider, Nenad Ban
Summary: This study investigates the assembly of the mitochondrial small subunit (mt-SSU) and identifies several assembly factors that interact with specific regions of rRNA to ensure proper assembly. The researchers use cryoelectron microscopy to determine the structures of assembly intermediates and propose a stepwise assembly process involving ribosomal protein and assembly factor exchange.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Shun Umemoto, Taishi Kondo, Tomoshige Fujino, Gosuke Hayashi, Hiroshi Murakami
Summary: Extremely diverse libraries are essential for the selection of functional peptides or proteins, and mRNA display technology is a powerful tool for generating such libraries. The study examines the impact of mRNA sequences on protein/mRNA complex formation yield and demonstrates that N-terminal and C-terminal coding sequences have a significant influence. By utilizing specific C-terminal coding sequences, highly diverse libraries of monobodies and macrocyclic peptides were constructed. This research provides insights into the relationship between mRNA sequences and complex formation yield, facilitating the identification of functional peptides and proteins with therapeutic applications.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Multidisciplinary Sciences
Chen Bao, Mingyi Zhu, Inna Nykonchuk, Hironao Wakabayashi, David H. Mathews, Dmitri N. Ermolenko
Summary: This study demonstrates that specific length and structure, rather than high thermodynamic stability, are crucial for regulatory mRNA stem-loops to pause translation. These findings provide insights into the identification of new regulatory mRNA stem-loops.
NATURE COMMUNICATIONS
(2022)
Review
Cell Biology
Christelle Morris, David Cluet, Emiliano P. Ricci
Summary: Eukaryotic gene expression is regulated by the translation and turnover of mRNAs, with the ribosome playing a central role in this process. The cell has evolved multiple translation-dependent mRNA surveillance pathways to handle specific problematic mRNAs. Current research focuses on translation features, genetic code complexity, and the emerging role of the ribosome as a regulatory hub.
WILEY INTERDISCIPLINARY REVIEWS-RNA
(2021)
Article
Microbiology
Victor Barrenechea, Maryhory Vargas-Reyes, Miguel Quiliano, Pohl Milon
Summary: The study revealed that Tig has a stronger stabilization effect on IF1 and can induce a faster compact conformation during translation initiation, leading to translation delay. Different tetracyclines inhibit protein translation initiation and elongation to different extents by affecting IF3 layout and retaining IF1.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Chemistry, Multidisciplinary
Lu Xiao, Yong Woong Jun, Eric T. Kool
Summary: This study presents a novel TRAIL method for site-selective labeling and manipulation of mRNA through a DNA tiling strategy, which can be applied to various in vitro and in cell studies, including analysis of RNA-binding proteins, mRNA imaging in cells, and analysis and control of translation.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2021)
Editorial Material
Cell Biology
Angelika B. Harbauer, Thomas L. Schwarz
Summary: In this study, the authors found that axonal mitophagy relies on local translation of Pink1 mRNA. The co-transport of Pink1 mRNA with mitochondria in neurons plays a crucial role in mitophagy in the distal parts of the cell. This finding contributes to our understanding of mitochondrial homeostasis in neurons.
Review
Biochemistry & Molecular Biology
Wentao Jia, Jiaying Yuan, Shu Li, Binbin Cheng
Summary: Dysregulated protein synthesis is a defining characteristic of tumors, with mRNA translation reprogramming playing a significant role in tumorigenesis. Aberrant ribosome formation, altered tRNA abundance and modification, and abnormal translation factors are major contributors to the development of tumors, involving both malignant cells and stromal cells within the tumor microenvironment. Ribosome-inactivating proteins (RIPs) are of interest due to their ability to selectively inhibit protein synthesis and suppress tumor growth.
BIOCHIMICA ET BIOPHYSICA ACTA-REVIEWS ON CANCER
(2023)
Review
Cell Biology
Sulagna Das, Maria Vera, Valentina Gandin, Robert H. Singer, Evelina Tutucci
Summary: High-resolution imaging technologies have revealed that all living organisms localize mRNAs in subcellular compartments, creating translation hotspots for locally tuning gene expression. Understanding the mechanisms of mRNA transport and local translation is crucial for precise temporal and spatial control of gene expression in response to intracellular and environmental cues. The technological developments in detecting mRNA localization and local translation provide valuable tools for studying gene expression regulation.
NATURE REVIEWS MOLECULAR CELL BIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Shota Tomomatsu, Atsuya Watanabe, Petr Tesina, Satoshi Hashimoto, Ken Ikeuchi, Sihan Li, Yoshitaka Matsuo, Roland Beckmann, Toshifumi Inada
Summary: Ribosome collisions trigger the ribosome-associated quality control (RQC) and lead to the degradation of mRNA called no-go decay (NGD) through endonucleolytic cleavage. In yeast, NGD can occur in two modes, either coupled to RQC (NGD(RQC+)) or uncoupled from RQC (NGD(RQC-)), depending on the mechanism of substrate recognition by Cue2 endonuclease. The study found that the ubiquitin binding activity of Cue2 is necessary for NGD(RQC-) but not for NGD(RQC+), and it involves the first two N-terminal Cue domains of Cue2. Additionally, Trp122 of Cue2 plays a crucial role in NGD(RQC+), while Mbf1 prevents ribosomal frameshifting induced by rare codon staller.
NUCLEIC ACIDS RESEARCH
(2023)