Review
Clinical Neurology
Anil K. Chokkalla, Suresh L. Mehta, Raghu Vemuganti
Summary: RNA carries additional information through epitranscriptomic modifications, allowing for rapid and context-specific gene regulation. Epitranscriptomic modifications in the brain play a crucial role in activity-dependent gene expression, regulating physiological processes such as synaptic plasticity, neurogenesis, and stress response.
TRANSLATIONAL STROKE RESEARCH
(2022)
Review
Pharmacology & Pharmacy
Xing-xing Huo, Shu-jie Wang, Hang Song, Ming-de Li, Hua Yu, Meng Wang, Hong-xiao Gong, Xiao-ting Qiu, Yong-fu Zhu, Jian-ye Zhang
Summary: Head and neck squamous cell carcinoma (HNSCC) is the sixth most common cancer malignancy worldwide and is known to have poor prognosis. RNA modifications play a role in various pathophysiological processes, including tumor development and inflammation. Adenosine-related RNA modifications have been linked to cancer and may play a role in cancer occurrence and development.
FRONTIERS IN PHARMACOLOGY
(2021)
Article
Chemistry, Medicinal
Anna M. Rydzik, Doris Riether, Dirk Gottschling
Summary: This study reports the synthesis of 2'-fluoro and 2'-methoxy N6-methyladenosine phosphoramidites and their successful incorporation into oligonucleotides. The modifications of sugars in siRNAs with 2'-fluoro and 2'-methoxy are known to enhance stability, and N6-methylation modifies the potency of therapeutic silencing RNAs (siRNA). The combination of these modifications in the antisense strand of siRNA efficiently knocks down a target gene in cells. This work expands the pool of chemical modifications available for therapeutic siRNAs and provides tools for their efficient synthesis.
BIOORGANIC & MEDICINAL CHEMISTRY LETTERS
(2023)
Article
Cell Biology
James Russell, Konstantinos Tzelepis
Summary: Research shows that pathways associated with RNA modification with N-6-methyladenosine (m(6)A) play a role in cancer initiation and maintenance, but many important components of these pathways remain unknown. The RBFOX2 protein has been identified as an m(6)A reader involved in locus-specific chromatin regulation, with potential therapeutic implications for myeloid leukaemia.
NATURE CELL BIOLOGY
(2023)
Article
Multidisciplinary Sciences
Samantha L. Schwartz, Debayan Dey, Julia Tanquary, Camden R. Bair, Anice C. Lowen, Graeme L. Conn
Summary: This study reveals the molecular basis for the greater capacity of some short dsRNAs to activate OAS1 in a sequence-independent manner, which is due to increased helical dynamics and specific local changes in helical structure. These findings contribute to a better understanding of the activation mechanism of OAS1.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Multidisciplinary Sciences
Shuqian Zhang, Bo Yuan, Jixin Cao, Liting Song, Jinlong Chen, Jiayi Qiu, Zilong Qiu, Xing-Ming Zhao, Jingqi Chen, Tian-Lin Cheng
Summary: The study demonstrates that 25 engineered TadA orthologs can generate functional ABEs, CBEs, or ACBEs with minimized off-target effects through single/double mutations. It is found that cytidine and adenosine deaminases are required for cytosine and adenine editing, respectively, and no single deaminase can enable concurrent editing of both bases. Additionally, distinct properties of cytidine and adenosine deaminases lead to different types of off-target effects.
NATURE COMMUNICATIONS
(2023)
Review
Pharmacology & Pharmacy
Weizheng Liang, Hongyang Yi, Chenyu Mao, Qingxue Meng, Xueliang Wu, Shanliang Li, Jun Xue
Summary: RNA methylation plays a significant role in tumor progression and metastasis, and colorectal cancer is a common malignant tumor in the digestive system with deficiencies in diagnosis and prognosis. This article highlights the various RNA chemical modifications and their functions in colorectal cancer.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Medicine, Research & Experimental
Hui Han, Chunlong Yang, Shuishen Zhang, Maosheng Cheng, Siyao Guo, Yan Zhu, Jieyi Ma, Yu Liang, Lu Wang, Siyi Zheng, Zhaoyu Wang, Demeng Chen, Yi-Zhou Jiang, Shuibin Lin
Summary: The study discovered that METTL3 is upregulated in esophageal cancer and promotes tumor progression, being associated with poor prognosis. High METTL3 expression can promote esophageal cancer formation by activating the Notch signaling pathway. The findings provide a molecular basis for the diagnosis and treatment of esophageal cancer.
MOLECULAR THERAPY-NUCLEIC ACIDS
(2021)
Review
Cell Biology
Huaqing Yan, Liqi Zhang, Xiaobo Cui, Sinian Zheng, Rubing Li
Summary: The article summarizes the current mechanisms of YTHDC1 in biological functions and diseases and provides guidance for future research, offering potential strategies for clinical diagnosis and therapy.
CELL DEATH DISCOVERY
(2022)
Review
Plant Sciences
Marta Zimna, Jakub Dolata, Zofia Szweykowska-Kulinska, Artur Jarmolowski
Summary: Regulation of gene expression involves coordination of many pathways, including epigenetic control, transcription, RNA processing, and translation. High-throughput sequencing techniques have revealed the importance of RNA modifications in gene expression, with over 150 different types of RNA modifications identified to date. Presence of modified nucleotides in protein-coding transcripts can impact stability, localization, and protein synthesis. This review focuses on plant epitranscriptomic modifications, highlighting their role in low-abundant RNAs and providing new perspectives.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Cell Biology
Yunhao You, Jincheng Liu, Lu Zhang, Xiang Li, Zhenqian Sun, Zihan Dai, Jinlong Ma, Guangjun Jiao, Yunzhen Chen
Summary: WTAP regulates the differentiation fate of BMSCs by increasing the methylation of pri-miR-181a and pri-miR-181c, which inhibits the expression of SFRP1 and promotes osteogenic differentiation. This finding suggests that WTAP may be a potential therapeutic target for osteoporosis.
CELL DEATH & DISEASE
(2023)
Review
Chemistry, Multidisciplinary
Jing Mo, Xiaocheng Weng, Xiang Zhou
Summary: With increasing research interest, more than 170 types of chemical modifications of RNA have been characterized. These modifications do not alter the primary sequence of RNA but modulate gene activity. Developing innovative labeling and detection methodologies is crucial for understanding the biological significance and clinical prospects of RNA modifications.
ACCOUNTS OF CHEMICAL RESEARCH
(2023)
Article
Chemistry, Medicinal
Zhen Fang, Bo Mu, Yang Liu, Nihong Guo, Liang Xiong, Yinping Guo, Anjie Xia, Rong Zhang, Hailin Zhang, Rui Yao, Yan Fan, Linli Li, Shengyong Yang, Rong Xiang
Summary: This study reports a new class of ALKBH5 inhibitors, which show therapeutic potential for various human diseases, especially cancers. Among them, compound 20m is the most potent one, with high selectivity and cellular activity.
EUROPEAN JOURNAL OF MEDICINAL CHEMISTRY
(2022)
Article
Cell Biology
Jun'e Liu, Yan-Peng Xu, Kai Li, Qing Ye, Hang-Yu Zhou, Hanxiao Sun, Xiaoyu Li, Liu Yu, Yong-Qiang Deng, Rui-Ting Li, Meng-Li Cheng, Bo He, Jia Zhou, Xiao-Feng Li, Aiping Wu, Chengqi Yi, Cheng-Feng Qin
Summary: The study found that SARS-CoV-2 genomic RNA is dynamically N-6-methyladenosine (m(6)A)-modified in human and monkey cells, and the m(6)A methylation negatively regulates SARS-CoV-2 infection. SARS-CoV-2 infection triggers a global increase in host m(6)A methylome.
Article
Biochemistry & Molecular Biology
Wenqi Xu, Chenxi He, Emily G. Kaye, Jiahui Li, Mandi Mu, Geoffrey M. Nelson, Li Dong, Jiahua Wang, Feizhen Wu, Yujiang Geno Shi, Karen Adelman, Fei Lan, Yang Shi, Hongjie Shen
Summary: The METTL3/METTL14/WTAP m(6)A methyltransferase complex is responsible for depositing m(6)A modification on nascent transcripts from promoters and enhancers, protecting them from premature termination by the Integrator complex and promoting productive transcription.
Review
Biochemistry & Molecular Biology
Markus Duechler, Grazyna Leszczynska, Elzbieta Sochacka, Barbara Nawrot
CELLULAR AND MOLECULAR LIFE SCIENCES
(2016)
Article
Biochemistry & Molecular Biology
Elzbieta Sochacka, Elzbieta Lodyga-Chruscinska, Justyna Pawlak, Marek Cypryk, Paulina Bartos, Katarzyna Ebenryter-Olbinska, Grazyna Leszczynska, Barbara Nawrot
NUCLEIC ACIDS RESEARCH
(2017)
Article
Chemistry, Organic
Karolina Bartosik, Elzbieta Sochacka, Grazyna Leszczynska
ORGANIC & BIOMOLECULAR CHEMISTRY
(2017)
Article
Chemistry, Organic
Grazyna Leszczynska, Klaudia Sadowska, Malgorzata Sierant, Milena Sobczak, Barbara Nawrot, Elzbieta Sochacka
ORGANIC & BIOMOLECULAR CHEMISTRY
(2017)
Article
Biochemistry & Molecular Biology
Malgorzata Sierant, Grazyna Leszczynska, Klaudia Sadowska, Patrycja Komar, Ewa Radzikowska-Cieciura, Elzbieta Sochacka, Barbara Nawrot
Article
Chemistry, Multidisciplinary
Katarzyna Debiec, Michal Matuszewski, Karolina Podskoczyj, Grazyna Leszczynska, Elzbieta Sochacka
CHEMISTRY-A EUROPEAN JOURNAL
(2019)
Article
Biochemistry & Molecular Biology
Grazyna Leszczynska, Marek Cypryk, Bartlomiej Gostynski, Klaudia Sadowska, Paulina Herman, Grzegorz Bujacz, Elzbieta Lodyga-Chruscinska, Elzbieta Sochacka, Barbara Nawrot
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2020)
Review
Biochemistry & Molecular Biology
Karolina Bartosik, Katarzyna Debiec, Anna Czarnecka, Elzbieta Sochacka, Grazyna Leszczynska
Article
Biochemistry & Molecular Biology
Zhou Jingjing, Lenon Marine, Ravanat Jean-Luc, Nadia Touati, Velours Christophe, Podskoczyj Karolina, Leszczynska Grazyna, Fontecave Marc, Barras Frederic, Golinelli-Pimpaneau Beatrice
Summary: The research findings showed that MnmA from Escherichia coli can bind a [4Fe-4S] cluster for tRNA sulfuration, maintaining the accuracy of protein translation. Additionally, the study revealed that E. coli cells retain s(2)U34 biosynthesis even in the absence of functional ISC and SUF [Fe-S] cluster assembly machineries.
NUCLEIC ACIDS RESEARCH
(2021)
Correction
Biochemistry & Molecular Biology
Jingjing Zhou, Marine Lenon, Jean-Luc Ravanat, Nadia Touati, Christophe Velours, Karolina Podskoczyj, Grazyna Leszczynska, Marc Fontecave, Frederic Barras, Beatrice Golinelli-Pimpaneau
NUCLEIC ACIDS RESEARCH
(2021)
Article
Biochemistry & Molecular Biology
Konrad Skotnicki, Ireneusz Janik, Klaudia Sadowska, Grazyna Leszczynska, Krzysztof Bobrowski
Summary: The one-electron oxidation of 2-selenouracil (2-SeU) was studied, revealing various primary reactive intermediates. The absorption spectra and kinetic characteristics of these intermediates were investigated using pulse radiolysis and density functional theory (DFT) calculations. The results showed different transient absorption spectra under different pH conditions. The structures of the intermediates were determined using DFT calculations. Compared to 2-thiouracil (2-TU), the dimeric radicals of 2-SeU were found to be more stable.
Article
Cell Biology
Patrycja Szczupak, Malgorzata Sierant, Ewelina Wielgus, Ewa Radzikowska-Cieciura, Katarzyna Kulik, Agnieszka Krakowiak, Paulina Kuwerska, Grazyna Leszczynska, Barbara Nawrot
Summary: This study characterized the substrate requirements of the bacterial enzyme SelU, identified SelU-associated tRNAs and their specific modifications in the wobble position. It explained the sequence of steps in the selenation of tRNA and found that the recognition by SelU is influenced by the S2U position within the RNA chain, the flanking sequence of the modification, and the length of the RNA substrate.
Article
Chemistry, Multidisciplinary
Karolina Podskoczyj, Katarzyna Kulik, Joanna Wasko, Barbara Nawrot, Tsutomu Suzuki, Grazyna Leszczynska
Summary: A single point mutation in the human mitochondrial tRNA(Met) gene causes severe mitochondrial disorders associated with hypertension, type 2 diabetes and LHON. This mutation leads to the exchange of A(37) in the anticodon loop of hmt-tRNA(Met) for G(37) and 1-methylguanosine. The first synthesis and structural/biophysical studies of the anticodon stem and loop of pathogenic hmt-tRNAs(Met) are presented here.
CHEMICAL COMMUNICATIONS
(2021)
Article
Chemistry, Multidisciplinary
Robert Borowski, Agnieszka Dziergowska, Elzbieta Sochacka, Grazyna Leszczynska
Article
Biochemistry & Molecular Biology
Qishun Zhou, Bao Tram Vu Ngoc, Grazyna Leszczynska, Jean-Luc Stigliani, Genevieve Pratviel
Article
Biochemistry & Molecular Biology
Ankita Chadda, Alexander G. Kozlov, Binh Nguyen, Timothy M. Lohman, Eric A. Galburt
Summary: In this study, it was found that the DNA damage response in Mycobacterium tuberculosis differs from well-studied model bacteria. The DNA repair helicase UvrD1 in Mtb is activated through a redox-dependent process and is closely associated with the homo-dimeric Ku protein. Additionally, Ku protein is shown to stimulate the helicase activity of UvrD1.
JOURNAL OF MOLECULAR BIOLOGY
(2024)