Article
Microbiology
Tianyu Zhao, Asaka Chida, Yuichi Shichino, Dongwoo Choi, Masaki Mizunuma, Shintaro Iwasaki, Yoshikazu Ohya
Summary: This study reveals the global translational regulation during replicative aging in yeast using ribosome profiling technique. The research found that the translational efficiency of genes involved in DNA repair and chromosome organization increased, while the translational efficiency of genes encoding ribosome components, transposons and cell wall assembly decreased during replicative aging.
Article
Microbiology
Xiaoling Chen, Zhilong Lu, Ying Chen, Renzhi Wu, Zhenzhen Luo, Qi Lu, Ni Guan, Dong Chen
Summary: The gene MBP1 plays an important role in ethanol fermentation, regulating responses to variations in oxygen content and respiration, and its deletion leads to decreased ethanol concentration and pseudohyphal growth. These findings provide clues for improving ethanol production in industrially engineered yeast strains.
MICROBIOLOGY SPECTRUM
(2021)
Review
Microbiology
Rachael E. Turner, Traude H. Beilharz
Summary: Alternative polyadenylation (APA) plays a crucial role in regulating isoform-specific translation efficiency, stability, and localization. Despite advances in understanding APA in metazoans, its impact in Saccharomyces cerevisiae remains unclear. Experimental techniques are provided to uncover the functional importance of 3' UTR isoforms on translation, bridging the gap between observed APA and functional consequences.
Article
Biology
Rosemary Yu, Egor Vorontsov, Carina Sihlbom, Jens Nielsen
Summary: The study revealed that cell growth rate coordinately controls transcription and translation through RNA polymerase II and ribosome abundance, while nitrogen metabolism independently controls them through amino acid and nucleotide availabilities. Genes in central carbon metabolism are distinctly regulated compared to other genes in response to cell growth rate or nitrogen metabolism.
Article
Biotechnology & Applied Microbiology
Yanfei Cheng, Hui Zhu, Zhengda Du, Xuena Guo, Chenyao Zhou, Zhaoyue Wang, Xiuping He
Summary: Enhanced eIF5A activity may improve acetic acid tolerance in Saccharomyces cerevisiae. eIF5A promotes the synthesis of Ume6p, leading to the up-regulation of target genes at the transcriptional level, especially under acetic acid stress. The eIF5A-Ume6p axis plays a crucial role in the adaptive response and tolerance to acetic acid in yeast cells.
BIOTECHNOLOGY FOR BIOFUELS
(2021)
Review
Biochemistry & Molecular Biology
Karsten Weis, Maria Hondele
Summary: DEAD-box ATPases, a large protein family present in all cells, play critical roles in various aspects of RNA metabolism. They contribute to the regulation of gene expression by controlling the liquid-liquid phase separation of RNP condensates.
ANNUAL REVIEW OF BIOCHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Tatiana Egorova, Nikita Biziaev, Alexey Shuvalov, Elizaveta Sokolova, Sabina Mukba, Konstantin Evmenov, Maria Zotova, Artem Kushchenko, Ekaterina Shuvalova, Elena Alkalaeva
Summary: eIF3j, originally reported as a labile subunit of eIF3, is important for translation termination by stimulating peptidyl-tRNA hydrolysis and interacting with release factors. It plays a role in loading release factors into the ribosome before GTP hydrolysis, in conjunction with eIF3, in the regulation of translation termination.
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Prajwal Karki, Travis D. Carney, Cristina Maracci, Andriy S. Yatsenko, Halyna R. Shcherbata, Marina Rodnina
Summary: This study quantifies translational readthrough (TR) of several candidate genes in Drosophila melanogaster and characterizes its regulation in the large Maf transcription factor Traffic jam (Tj). It is found that TR has different expressions in different cells of the nervous system and reproductive system, and is critical for maintaining neuronal integrity and reproductive health. The tissue-specific distribution of a release factor splice variant, eRF1H, plays a key role in modulating differential TR. These findings reveal a potential mechanism for cell-specific regulation of gene expression through fine-tuning of gene regulatory functions of transcription factors by TR.
NUCLEIC ACIDS RESEARCH
(2022)
Review
Biochemistry & Molecular Biology
G. A. Zhouravleva, S. A. Bondarev, O. M. Zemlyanko, S. E. Moskalenko
Summary: This review discusses the role of proteins interacting with translation termination factors in protein synthesis and prionization, and the connection between translation termination and other cellular processes.
Article
Biochemistry & Molecular Biology
Fabio Hedayioglu, Emma J. Mead, Patrick B. F. O'Connor, Matas Skiotys, Owen J. Sansom, Giovanna R. Mallucci, Anne E. Willis, Pavel Baranov, C. Mark Smales, Tobias von der Haar
Summary: The study validates two experimental tools for assessing ribosome binding to mRNAs, highlighting the usefulness of polysome profile reconstructions in evaluating dataset quality.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Biochemistry & Molecular Biology
Xiang Meng, Alan Reed, Sandie Lai, Juraj Szavits-Nossan, John E. G. McCarthy
Summary: Gene expression stochasticity is an inherent feature of biological systems, creating non-genetic cellular variation and influencing various processes. In this study, the researchers discovered a distinct form of non-transcriptional noise associated with the translation machinery and mRNA 5'UTR of the GCN4 gene in yeast. They characterized the heterogeneity of translation initiation mediated by GCN4-5'UTR using different techniques and found a subpopulation of cells that consistently exhibited enhanced GCN4 translation under non-starvation conditions.
NUCLEIC ACIDS RESEARCH
(2023)
Review
Biochemistry & Molecular Biology
Agnes Baudin-Baillieu, Olivier Namy
Summary: Ribosomal RNA is a crucial component of ribosomes, playing a key role in peptide bond formation and accurate genetic code decoding. Recent research suggests that ribosomal RNA modifications are not 100% complete, leading to heterogeneous populations of ribosomes. Accumulated knowledge from yeast is valuable in understanding the role of ribosomal RNA modifications in humans.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemistry & Molecular Biology
Alison C. Greenlaw, Kris G. Alavattam, Toshio Tsukiyama
Summary: To ensure cell survival during quiescence, cells modulate their gene expression and transcription. By studying the nascent transcriptome, researchers identified over a thousand noncoding RNAs in quiescent and G1 yeast cells, revealing that noncoding transcription plays a larger role in the quiescent state. Furthermore, post-transcriptional regulation is increased in quiescence, affecting both mRNA and ncRNA. The nuclear exosome-NNS pathway was found to regulate the abundance of mRNAs involved in various cellular processes during quiescent entry, highlighting its important biological role in mRNA regulation.
NUCLEIC ACIDS RESEARCH
(2023)
Article
Biochemical Research Methods
Daniel Williamson, William Tasker-Brown, James A. H. Murray, Angharad R. Jones, Leah R. Band
Summary: This article investigates the mechanisms of cell-size control in plant cells and establishes a mathematical model to simulate the key interactions in the cell cycle. The study finds that both size-independent synthesis and equal inheritance of cell-cycle proteins contribute to cell-size control, but combining these mechanisms at the two key transitions in the cell cycle is essential in maintaining cell-size homeostasis.
PLOS COMPUTATIONAL BIOLOGY
(2023)
Review
Biochemistry & Molecular Biology
Patrick R. Smith, Sapna C. Pandit, Sarah Loerch, Zachary T. Campbell
Summary: In addition to their central functions in translation, ribosomes can adopt inactive structures that are fully assembled yet devoid of mRNA. The abundance of idle ribosomes is influenced by a broad range of biological conditions, and these vacant ribosomes may provide a means to exclude ribosomes from translation while also protecting them from degradation. Regulating the balance between idle and active ribosomes may provide a way to fine-tune translation.
TRENDS IN BIOCHEMICAL SCIENCES
(2022)
Article
Genetics & Heredity
Polina Drozdova, Ludmila Mironova, Galina Zhouravleva
Article
Cell Biology
Andrew G. Matveenko, Polina B. Drozdova, Mikhail V. Belousov, Svetlana E. Moskalenko, Stanislav A. Bondarev, Yury A. Barbitoff, Anton A. Nizhnikov, Galina A. Zhouravleva
Article
Biochemistry & Molecular Biology
A. G. Matveenko, M. V. Belousov, S. A. Bondarev, S. E. Moskalenko, G. A. Zhouravleva
Article
Biochemistry & Molecular Biology
Yury A. Barbitoff, Andrew G. Matveenko, Svetlana E. Moskalenko, Olga M. Zemlyanko, Gary P. Newnam, Ayesha Patel, Tatiana A. Chernova, Yury O. Chernoff, Galina A. Zhouravleva
MOLECULAR MICROBIOLOGY
(2017)
Article
Multidisciplinary Sciences
Anna I. Sulatskaya, Irina M. Kuznetsova, Mikhail V. Belousov, Stanislav A. Bondarev, Galina A. Zhouravleva, Konstantin K. Turoverov
Article
Biotechnology & Applied Microbiology
Yury A. Barbitoff, Andrew G. Matveenko, Stanislav Bondarev, Evgeniia M. Maksiutenko, Alexandra Kulikova, Galina Zhouravleva
FEMS YEAST RESEARCH
(2020)
Article
Genetics & Heredity
Evgeniia M. Maksiutenko, Yury A. Barbitoff, Andrew G. Matveenko, Svetlana E. Moskalenko, Galina A. Zhouravleva
Summary: The study revealed that gene amplification is a common mechanism of adaptation to nonsense mutations in release factor genes in yeast. The survival of such mutants may involve feedback control of premature stop codon readthrough, but the exact molecular basis of this feedback control remains unclear.
Article
Microbiology
Yury A. Barbitoff, Andrew G. Matveenko, Galina A. Zhouravleva
Summary: Baker's yeast is an important model organism for studying various aspects of eukaryotic cell biology. Yeast prions, self-perpetuating protein aggregates, are used to investigate protein quality control and misfolded proteins. Hsp40 proteins have a central role in prion propagation and other cellular processes such as cell signaling and cytoskeleton also contribute to the interaction with prions in yeast cells.
Article
Biology
Andrew G. Matveenko, Varvara E. Ryzhkova, Natalia A. Zaytseva, Lavrentii G. Danilov, Anastasia S. Mikhailichenko, Yury A. Barbitoff, Galina A. Zhouravleva
Summary: This study reveals that labeling prion aggregates with the red fluorescent protein mCherry may prevent accurate detection of the aggregates. In contrast, fusion with the red fluorescent protein TagRFP-T allows for reliable detection of prion aggregates.
Article
Biochemistry & Molecular Biology
Lavrentii G. Danilov, Xenia V. Sukhanova, Tatiana M. Rogoza, Ekaterina Y. Antonova, Nina P. Trubitsina, Galina A. Zhouravleva, Stanislav A. Bondarev
Summary: This article investigates nucleoporins and finds that most of them have potential amyloidogenic properties, but the functional aggregation of nucleoporins is controversial.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Review
Biochemistry & Molecular Biology
Galina A. Zhouravleva, Stanislav A. Bondarev, Nina P. Trubitsina
Summary: The number of yeast prions and prion-like proteins has significantly increased since 1994. Initially, skepticism existed among scientists regarding the use of the term "prion" to describe yeast cytoplasmic elements, but now it is widely accepted that prion-like phenomena are common in yeast. This article provides an overview of yeast prions discovered so far and discusses different approaches used to identify them, as well as the potential for discovering new yeast prions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biotechnology & Applied Microbiology
Aleksandra Sergeeva, Tatyana A. Belashova, Stanislav A. Bondarev, Marya E. Velizhanina, Yury A. Barbitoff, Andrew G. Matveenko, Anna A. Valina, Angelina L. Simanova, Galina A. Zhouravleva, Alexey P. Galkin
Summary: Prions can exist in transmissible states with distinct structures and functions. The Sup35 and Rnq1 proteins in prion state form amyloid fibrils in vivo, as demonstrated by immunoprecipitation and staining with Congo Red dye, providing a new method for identifying pathological and functional amyloids in organisms.
FEMS YEAST RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Polina B. Drozdova, Yury A. Barbitoff, Mikhail V. Belousov, Rostislav K. Skitchenko, Tatyana M. Rogoza, Jeremy Y. Leclercq, Andrey V. Kajava, Andrew G. Matveenko, Galina A. Zhouravleva, Stanislav A. Bondarev
Review
Genetics & Heredity
Andrew G. Matveenko, Yury A. Barbitoff, Lina Manuela Jay-Garcia, Yury O. Chernoff, Galina A. Zhouravleva
Meeting Abstract
Biochemistry & Molecular Biology
Galina A. Zhouravleva, Yuri A. Barbitoff, Andrew G. Matveenko, Ayesha Patel, Gary P. Newnam, Yury O. Chernoff
