Article
Biochemistry & Molecular Biology
Loredana Frassinelli, Elisa Orecchini, Sofian Al-Wardat, Marco Tripodi, Carmine Mancone, Margherita Doria, Silvia Galardi, Silvia Anna Ciafre, Alessandro Michienzi
Summary: ADAR2 acts as a suppressor of L1 retrotransposition by inhibiting its activity, forming a complex with multiple non-ribosomal ADAR2-interacting factors.
Article
Biochemistry & Molecular Biology
Casey S. Jacobsen, Prince Salvador, John F. Yung, Sabrina Kragness, Herra G. Mendoza, Gail Mandel, Peter A. Beal
Summary: Adenosine deaminases acting on RNA (ADARs) catalyze the hydrolytic deamination of adenosine to inosine in duplex RNA, resulting in an effective A-to-G edit. ADAR editing can lead to recoding events and alterations in RNA function. One limitation of ADAR is its preference for editing adenosines with specific neighboring nucleotides, but new strategies and approaches are being developed to overcome this.
ACS CHEMICAL BIOLOGY
(2023)
Article
Biology
Dhruva Katrekar, Yichen Xiang, Nathan Palmer, Anushka Saha, Dario Meluzzi, Prashant Mali
Summary: Adenosine deaminases acting on RNA (ADARs) have potential for programmable RNA editing, but their exogenous delivery leads to non-specific targeting and low enzymatic activity on certain RNA motifs. By performing a deep mutational scan of the ADAR2 deaminase domain, we improved enzymatic activity and developed a split-ADAR2 deaminase with significantly higher specificity for RNA editing. This systematic engineering of the ADAR2 deaminase domain has important implications for RNA biotechnology applications.
Article
Oncology
Ananya Hariharan, Weihong Qi, Hubert Rehrauer, Licun Wu, Manuel Ronner, Martin Wipplinger, Jelena Kresoja-Rakic, Suna Sun, Lucia Oton-Gonzalez, Marika Sculco, Veronique Serre-Beinier, Clement Meiller, Christophe Blanquart, Jean-Francois Fonteneau, Bart Vrugt, Jan Hendrik Ruschoff, Isabelle Opitz, Didier Jean, Marc de Perrot, Emanuela Felley-Bosco
Summary: This study found increased levels of ADAR-mediated RNA editing in mesothelioma tumors and primary cultures compared to mesothelial cells. Heterogeneity in editing was observed between tumor samples and primary cultures. ADAR2 expression levels were higher in BRCA1-associated protein 1 wild-type tumors and correlated with changes in RNA editing in transcripts and 3'UTR. ADAR2 was found to play a role in cell proliferation, cell cycle, sensitivity to antifolate treatment, and type-1 interferon signaling, leading to changes in the microenvironment in vivo.
MOLECULAR ONCOLOGY
(2022)
Article
Hematology
Mingrui Guo, Tim Hon Man Chan, Qiling Zhou, Omer An, Ying Li, Yangyang Song, Zi Hui Tan, Vanessa Hui En Ng, Philomina Sona Peramangalam, Zhi Qing Tan, Xinang Cao, Eisaku Iwanaga, Masao Matsuoka, Melissa G. M. Ooi, Wei Ying Jen, Liang Piu Koh, Esther Chan, Lip Kun Tan, Yufen Goh, Wilson Wang, Bryan T. H. Koh, Chan Ming Chun, Melissa J. Fullwood, Wee Joo Chng, Motomi Osato, John Anto Pulikkan, Henry Yang, Leilei Chen, Daniel G. Tenen
Summary: Adenosine deaminases acting on RNA (ADAR) family of enzymes, especially ADAR2, play a role in multiple cancers. This study shows that ADAR2 is downregulated in certain types of acute myeloid leukemia (AML) and suppresses leukemogenesis in AML cells with t(8;21) or inv(16) translocations, through its RNA editing function.
Article
Biochemical Research Methods
Shinzi Ogasawara, Ai Yamada
Summary: RNA editing has gained attention as a method for genetic information editing without damaging the genome. A new method called RNA overwriting, using the influenza A virus RNA-dependent RNA polymerase, has been developed, allowing both cleavage and extension for editing any type of RNA.
ACS SYNTHETIC BIOLOGY
(2022)
Article
Plant Sciences
Sudthana Khlaimongkhon, Sriprapai Chakhonkaen, Keasinee Tongmark, Numphet Sangarwut, Natjaree Panyawut, Thiwawan Wasinanon, Kannika Sikaewtung, Samart Wanchana, Chareerat Mongkolsiriwatana, Julapark Chunwonges, Amorntip Muangprom
Summary: Rice is a crucial food crop for nearly half of the world's population, and its grain yields are affected by temperature changes. Thermosensitive genic male sterility (TGMS) rice is sterile at high temperatures and fertile at low temperatures, making it a good model for studying the effects of temperature on male development. Transcriptomic analysis revealed differential gene expression in TGMS rice panicles under sterile and fertile conditions, with some genes showing unique responses to temperature in TGMS plants compared to wild-type rice. These findings provide insights into the molecular mechanisms controlling TGMS and rice responses to temperature alterations.
Article
Biochemistry & Molecular Biology
Jeremy Rott, Eva Teresa Toepfer, Maria Bartosova, Ana Kolevica, Alexander Heuser, Michael Rabe, Geert Behets, Patrick C. D'Haese, Viktoria Eichwald, Manfred Jugold, Ivan Damgov, Sotirios G. Zarogiannis, Rukshana Shroff, Anton Eisenhauer, Claus Peter Schmitt
Summary: Serum calcium isotopes have been suggested as a non-invasive and sensitive marker for calcium balance. In this study, low-calcium diet was found to cause significant changes in feces, serum, and urine delta Ca-44/42 in growing rats. Delta Ca-44/42 in serum was inversely correlated with markers of bone mineralization.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2022)
Article
Plant Sciences
Yanwei Wang, Zhimin Yang, Meng Zhang, Pengfei Ai
Summary: This study identified the crucial role of the rice SSA1 gene in chloroplast biogenesis. SSA1 regulates early chloroplast development and is involved in RNA editing and intron splicing. These findings contribute to the understanding of molecular mechanisms underlying chloroplast generation.
Article
Multidisciplinary Sciences
Jing Zhai, Sheeja Navakkode, Sean Qing Zhang Yeow, Kumar Krishna-K, Mui Cheng Liang, Joanne Huifen Koh, Rui Xiong Wong, Wei Ping Yu, Sreedharan Sajikumar, Hua Huang, Tuck Wah Soong
Summary: This study found that unedited Ca(V)1.3 calcium channels enhance long-term memory and learning, playing an important role in hippocampal plasticity. The study also resolved the editing paradox of functional recoding of Ca(V)1.3 RNA editing sites.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Endocrinology & Metabolism
Florian Szymczak, Roni Cohen-Fultheim, Sofia Thomaidou, Alexandra Coomans de Brachene, Angela Castela, Maikel Colli, Piero Marchetti, Erez Levanon, Decio Eizirik, Arnaud Zaldumbide
Summary: This article investigates the potential impact of viral infection on type 1 diabetes and finds that ADAR1 editing plays a crucial role in regulating the immune response in pancreatic beta cells.
FRONTIERS IN ENDOCRINOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hyung Seok Kim, Min Jeong Na, Keun Hong Son, Hee Doo Yang, Sang Yean Kim, Eunbi Shin, Jin Woong Ha, Soyoung Jeon, Keunsoo Kang, Kiho Moon, Won Sang Park, Suk Woo Nam
Summary: Aberrant adenosine-to-inosine (A-to-I) RNA editing, particularly mediated by ADAR1, contributes to hepatocellular carcinogenesis through the excessive editing of miR-3144-3p and subsequent suppression of tumor suppressor SLC38A4.
EXPERIMENTAL AND MOLECULAR MEDICINE
(2023)
Review
Genetics & Heredity
Qi Zhao, Lorenzo Pavanello, Mark Bartlam, Gerlof Sebastiaan Winkler
Summary: In eukaryotic cells, the synthesis, processing, and degradation of mRNA are important for accurate gene expression. The presence of a cap structure and poly(A) tail in mature mRNA promotes translation and prevents degradation. Degradation through the deadenylation-dependent 5'-3' pathway is induced by trans-acting factors, which recruit the core mRNA degradation machinery to shorten the poly(A) tail, remove the cap structure, and degrade the mRNA body.
FRONTIERS IN GENETICS
(2023)
Article
Biochemistry & Molecular Biology
Hang Yang, Yunlong Wang, Yunlu Tian, Xuan Teng, Zehui Lv, Jie Lei, Erchao Duan, Hui Dong, Xue Yang, Yuanyan Zhang, Yinglun Sun, Xiaoli Chen, Xiuhao Bao, Rongbo Chen, Chuanwei Gu, Yipeng Zhang, Xiaokang Jiang, Wenyu Ma, Pengcheng Zhang, Yi Ji, Yu Zhang, Yihua Wang, Jianmin Wan
Summary: A mutant rice flo22 showed delayed amyloplast development in endosperm cells, affecting mitochondrial morphology and function. Flo22, encoding a mitochondrion-localized P-type PPR protein, mutations led to defective trans-splicing of mitochondrial nad1 intron 1 and affected complex I assembly and activity. Additionally, FLO22 interacted with DYW3 and participated in mitochondrial RNA editing.
JOURNAL OF INTEGRATIVE PLANT BIOLOGY
(2023)
Article
Biochemistry & Molecular Biology
Zi-Ang Li, Yi Li, Dan Liu, David P. Molloy, Zhou-Fei Luo, Hai-Ou Li, Jing Zhao, Jing Zhou, Yi Su, Ruo-Zhong Wang, Chao Huang, Lang-Tao Xiao, Victor Quesada, Pedro Robles
Summary: This study reveals the regulatory role of the plant hormone auxin in chloroplast RNA editing in Arabidopsis. The analysis of auxin response elements (AuxREs) in the promoters of editing factors shows that auxin can regulate their expression. Depletion of auxin synthesis gene YUC2 reduces the expression of several editing factors, while exogenous IAA and overexpression of YUC2 enhance their expression and editing efficiency. Additionally, the transcription factor ARF1 in the auxin-signaling pathway directly binds to and inhibits the promoters of editing factors, leading to decreased expression and editing efficiency.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Pharmacology & Pharmacy
Shichun Li, Baokai Dou, Shi Shu, Luyao Wei, Shiguo Zhu, Zunji Ke, Zhifei Wang
Summary: Astragaloside IV (ASIV) inhibits the infiltration and activation of natural killer (NK) cells through STAT3 suppression, thereby protecting against ischemic brain injury.
FRONTIERS IN PHARMACOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hui Li, Wen Wen, Jia Luo
Summary: This article summarizes the role of endoplasmic reticulum stress in alcoholic pancreatitis and discusses potential therapeutic strategies targeting this stress response.
Article
Anesthesiology
Zhengyu Cui, Zhongzhao Guo, Luyao Wei, Xiang Zou, Zilu Zhu, Yuchen Liu, Jie Wang, Liang Chen, Deheng Wang, Zunji Ke
Summary: Research indicates that abnormal pain sensitivity in Alzheimer's disease modeling mice is closely related to changes in neuronal activity and dendritic spine loss in ACC pyramidal neurons, highlighting the crucial role of dendritic spine density in pain processing.
Article
Biochemistry & Molecular Biology
Luyao Wei, Wantao Wang, Junxia Yao, Zhengyu Cui, Zihang Xu, Hanqing Ding, Xiaojun Wu, Deheng Wang, Jia Luo, Zun-Ji Ke
Summary: This study identifies protein activator of the interferon-induced protein kinase (PACT) as a key player in basal-like breast cancer (BLBC) metastasis. High expression of PACT is associated with poor prognosis in BLBC patients. It is found that PACT regulates BLBC metastasis by interacting with SUMO-conjugating enzyme Ubc9.
Retraction
Neurosciences
Nianming Zuo, Tianyu Hu, Hao Liu, Jing Sui, Yong Liu, Tianzi Jiang
NEUROSCIENCE BULLETIN
(2023)
Editorial Material
Neurosciences
Yongbin Wei, Han Zhang, Yong Liu
NEUROSCIENCE BULLETIN
(2023)
Letter
Neurosciences
Nianming Zuo, Tianyu Hu, Hao Liu, Jing Sui, Yong Liu, Tianzi Jiang
NEUROSCIENCE BULLETIN
(2023)
Article
Computer Science, Information Systems
Xiaoqi Sheng, Jiazhou Chen, Yong Liu, Bin Hu, Hongmin Cai
Summary: Numerous studies have shown that accurate analysis of neurological disorders contributes to the early diagnosis of brain disorders and provides a window to diagnose psychiatric disorders due to brain atrophy. The emergence of geometric deep learning approaches provides a new way to characterize geometric variations on brain networks. However, brain network data suffer from high heterogeneity and noise, resulting in poor diagnostic accuracy for complex brain networks. This paper presents a dual-attention deep manifold harmonic discrimination (DA-DMHD) method that aims to enhance the identification of discriminative features for early diagnosis of neurodegenerative diseases. The proposed method achieves excellent classifying performance in terms of accuracy and robustness, outperforming existing state-of-the-art methods.
IEEE JOURNAL OF BIOMEDICAL AND HEALTH INFORMATICS
(2023)
Article
Psychiatry
Yuqing Sun, Yuxin Zhao, Ke Hu, Meng Wang, Yong Liu, Bing Liu
Summary: We investigated the relationship between amyloid deposition and Alzheimer's disease (AD) profiles in cognitively normal (CN) individuals and those with mild cognitive impairment (MCI). Using amyloid-PET data, we identified and validated two subtypes with distinct regional patterns of progression, genetic, clinical, and biomarker characteristics. Our findings suggest that the spatiotemporal variants of amyloid deposition are closely associated with disease trajectories, providing insight into disease monitoring and therapeutic trials in AD.
TRANSLATIONAL PSYCHIATRY
(2023)
Article
Computer Science, Artificial Intelligence
Xiao Zhang, Yun He, Zhigang Xu, Zainan Jiang, Yong Liu, Wenbo Feng, Junwu Wu
Summary: In traditional spacecraft semi-physical docking tests, the evaluation of docking and separation performance relies on specific equipment. This paper proposes a novel docking test platform using a general-purpose industrial manipulator and 3-D force and 3-D torque sensors. The platform is well-assembled, cost-effective, and introduces an actuation delay compensation method to improve performance. Simulation results demonstrate promising actuation delay compensation performance of the novel method.
FRONTIERS IN NEUROROBOTICS
(2023)
Article
Neurosciences
Yida Qu, Pan Wang, Hongxiang Yao, Dawei Wang, Chengyuan Song, Hongwei Yang, Zengqiang Zhang, Pindong Chen, Xiaopeng Kang, Kai Du, Lingzhong Fan, Bo Zhou, Tong Han, Chunshui Yu, Xi Zhang, Nianming Zuo, Tianzi Jiang, Yuying Zhou, Bing Liu, Ying Han, Jie Lu, Yong Liu
Summary: This study verified the utility of white matter (WM) as a neuroimaging marker in Alzheimer's disease (AD) using multisite diffusion tensor imaging datasets. The results showed significant degeneration patterns in AD and mild cognitive impairment (MCI) groups compared to normal controls (NC). Machine learning models using tract-based features were able to predict cognitive ability in AD and MCI groups.
NEUROSCIENCE BULLETIN
(2023)
Article
Neurosciences
Huiying Yu, Yanhui Ding, Yongbin Wei, Martin Dyrba, Dong Wang, Xiaopeng Kang, Weizhi Xu, Kun Zhao, Yong Liu
Summary: This study reveals significant alterations in regional mean connectivity strength in the hippocampus and medial temporal lobe of Alzheimer's disease (AD) and mild cognitive impairment (MCI) patients, which are spatially related to the expression of AD-risk genes. Additionally, the modulation of chemical synaptic transmission is identified as the most relevant biological process associated with the altered connectivity in AD.
HUMAN BRAIN MAPPING
(2023)
Article
Neurosciences
Zhongzhao Guo, Hong Ni, Zhengyu Cui, Zilu Zhu, Jiansheng Kang, Deheng Wang, Zunji Ke
Summary: Cytoplasmic dynein is crucial for neuronal growth and development. Knocking out the Dync1i1 gene in mice results in impaired pain sensation and dysfunctional gamma oscillations. Optogenetic activation of PV neurons rescues this dysfunction, while chemogenetic suppression of PV neurons mimics it. This study highlights the association between impaired pain sensation and the cytoplasmic dynein complex.
NEUROBIOLOGY OF DISEASE
(2023)
Article
Orthopedics
Patrick Haubruck, Raban Heller, Carina L. Blaker, Elizabeth C. Clarke, Susan M. Smith, Daniel Burkhardt, Yolanda Liu, Shihani Stoner, Sanaa Zaki, Cindy C. Shu, Christopher B. Little
Summary: A single slide for evaluating diverse histopathological changes in different joint tissues and disease stages can reduce scoring time and maintain sensitivity and specificity of the analysis.
OSTEOARTHRITIS AND CARTILAGE
(2023)