Article
Biology
Yucen Hu, Jingxiu Xu, Erqing Gao, Xueyuan Fan, Jieli Wei, Bingcheng Ye, Suhong Xu, Weirui Ma
Summary: Imaging endogenous mRNAs in live animals is achieved using the MS2-based signal amplification with the Suntag system. This technique has high temporal resolution and utilizes 8xMS2 stem-loops, eliminating the need to insert a 1300 nt 24xMS2 into the genome for imaging endogenous mRNAs. By utilizing this tool, gene expression activation and dynamics of endogenous mRNAs in live C. elegans epidermis can be imaged.
Article
Chemistry, Multidisciplinary
Jingfang Zhao, Limin Xiang
Summary: This article introduces the latest advances in three main RNA imaging tools based on the species of interacting molecules, and discusses their advantages from a technical viewpoint. It also explores future directions and states that this emerging field will bring new insights to RNA biology research.
CHINESE JOURNAL OF CHEMISTRY
(2023)
Article
Chemistry, Analytical
Jun-Jie Li, Wen-Fang Du, Yi-Ning Liu, Fenglin Wang, Li-Juan Tang, Jian-Hui Jiang
Summary: In this study, a new type of protein-scaffolded DNA nanostructure (ADN) was proposed for imaging the activity of apurinic/apyrimidinic endonuclease 1 (APE1) in live cells. ADN is designed by assembling an avidin-displayed abasic site containing DNA strands labeled with a fluorophore or a quencher via a complementary linker strand. APE1-mediated cleavage separates the fluorophores from the quenchers, delivering activated fluorescence. ADN demonstrates high sensitivity and specificity in responding to APE1 in vitro and efficiently enters cells to visualize and detect intracellular APE1 activities in drug-treated cells and different cell lines.
ANALYTICAL CHEMISTRY
(2023)
Article
Chemistry, Analytical
Yushu Wu, Min Wu, Qingpeng Wang, Jun Han, Min Liu
Summary: In this study, a repaired and initiated intraCHA (RI-intraCHA) nanosystem was designed and reported for amplified imaging of DNA repair enzyme activity in live cells. The nanosystem could independently enter into live cells and generate amplified fluorescence signal upon repair action of endogenous DNA repair enzyme.
SENSORS AND ACTUATORS B-CHEMICAL
(2023)
Article
Chemistry, Physical
Jianqiao Chang, Yu Zhang, Yike Li, Ziwei Han, Fei Tian, Chao Liu, Qiang Feng, Yuguang Wang, Jiashu Sun, Lu Zhang
Summary: This study introduces a multilayer ratiometric fluorescent nanomachine for live-cell perturbation and imaging of mRNA at single cell resolution, offering great potential for quantifying mRNA expression and modulating and imaging intratumoral mRNA.
Review
Developmental Biology
Alina Marymonchyk, Sarah Malvaut, Armen Saghatelyan
Summary: This review discusses the use of in vivo imaging methods to study NSC dynamics and recent live-imaging results related to specific intracellular pathways that enable NSCs to integrate and decode different micro-environmental signals. Future directions for research that may provide answers to unresolved questions regarding NSC physiology are also discussed.
Article
Biophysics
Yusi Hu, Rui-Qiao Zhang, Shu-Lin Liu, Zhi-Gang Wang
Summary: Lipids play important roles in cellular processes, and monitoring their concentration and distribution is crucial for understanding cellular functions. In this review, the current state and applications of in situ lipid quantification techniques, including fluorescence imaging, Raman, and magnetic resonance imaging, are discussed. Despite technical challenges, the development of in situ lipid quantification holds great promise for advancing biological and medical research.
BIOSENSORS & BIOELECTRONICS
(2023)
Article
Biochemistry & Molecular Biology
Vaidotas Stankevicius, Povilas Gibas, Bernadeta Masiulionyte, Liepa Gasiule, Viktoras Masevicius, Saulius Klimasauskas, Giedrius Vilkaitis
Summary: Enzymatic methylation of cytosine to 5-methylcytosine in DNA is a fundamental epigenetic mechanism involved in mammalian development and disease. In this study, the researchers engineered the Dnmt1 methyltransferase to catalyze the transfer of a synthetic cofactor analog onto DNA. By editing the Dnmt1 locus in mouse embryonic stem cells and using electroporation to introduce the cofactor, they were able to selectively tag Dnmt1-specific genomic targets. This new approach, called Dnmt-TOP-seq, allows for high-resolution tracking of Dnmt1 catalysis in mammalian cells and opens the door for selective studies of other methylation pathways in eukaryotic systems.
Article
Medicine, Research & Experimental
EL-Habib Dakir, Consuelo Gajate, Faustino Mollinedo
Summary: This study found that edelfosine has significant antitumor activity against different types of prostate cancer cell lines by inducing apoptosis. It accumulates in the endoplasmic reticulum of prostate cancer cells, leading to cell death. Inhibition of autophagy enhances the pro-apoptotic activity of edelfosine. Additionally, edelfosine can effectively inhibit tumor growth in mice with active AKT expression and in a DU145 xenograft mouse model.
BIOMEDICINE & PHARMACOTHERAPY
(2023)
Review
Chemistry, Inorganic & Nuclear
He Tian, Adam C. Sedgwick, Hai-Hao Han, Sajal Sen, Guo-Rong Chen, Yi Zang, Jonathan L. Sessler, Tony D. James, Jia Li, Xiao-Peng He
Summary: Lipid droplets (LDs) are essential organelles for lipid and energy homeostasis. Despite progress in understanding LDs, there are still many fundamental questions unanswered. Effective imaging agents can help bridge the knowledge gap and facilitate the development of new therapeutics.
COORDINATION CHEMISTRY REVIEWS
(2021)
Article
Chemistry, Multidisciplinary
Rachel Wills, Jonathan Farhi, Patrick Czabala, Sophia Shahin, Jennifer M. Spangle, Monika Raj
Summary: Aliphatic aldehydes are reactive electrophilic carbonyls that cross-link with DNA and proteins leading to cellular toxicity and disease pathogenesis. Chemical sensors that generate a benzimidazole moiety upon reaction with aliphatic aldehydes of different chain lengths have been developed, enabling the real-time imaging and quantification of aldehyde formation in live mammalian cells. This tool has the potential to revolutionize aldehyde research by uncovering cellular metabolites that have previously remained elusive.
Article
Biochemical Research Methods
Lei Tong, Robert A. Hill, Eyiyemisi C. Damisah, Katie N. Murray, Peng Yuan, Angelique Bordey, Jaime Grutzendler
Summary: This protocol outlines tools and procedures for intravital labeling, in vivo calcium imaging, and optogenetics to study mural cells in brain blood vessels. These tools allow for investigation of the physiological and pathophysiological roles of mural cells in various disease models, revealing functional and structural heterogeneity.
Article
Chemistry, Organic
Deepmala Singh, Ramprasad Regar, Pushpanjali Soppina, Virupakshi Soppina, Sriram Kanvah
Summary: We synthesized two rhodamine-phenothiazine conjugates, RP1 and RP2, and investigated their photophysical properties, subcellular localization, and photocytotoxicity. We observed strong localization of RP1 in mitochondria and dual localization of RP2 in mitochondria and lysosomes in live cells. Live cell imaging with these probes allowed us to track the dynamics of mitochondria and lysosomes during ROS-induced mitochondrial damage and subsequent lysosomal digestion. These fluorophores preferentially accumulated in cancer cells, exhibited strong photo-cytotoxicity, and showed mitochondrial staining and light-induced ROS production in both mammalian cell lines and the animal model C. elegans. The study demonstrated the potential applications of these probes in visualizing mitochondria-lysosome cross-talk and in photodynamic therapy.
ORGANIC & BIOMOLECULAR CHEMISTRY
(2023)
Article
Chemistry, Analytical
Yan Bai, Yao Wang, Liping Cao, Yongjian Jiang, Yuanfang Li, Hongyan Zou, Lei Zhan, Chengzhi Huang
Summary: A new type of carbon quantum dots with mitochondria-targeting function was prepared in this study, showing excellent fluorescence turn-off response for accurate ONOO- imaging. The linear correlation between quenching efficiency and ONOO- concentration was demonstrated, with successful in situ visualization of endogenous ONOO- generated in live cells.
ANALYTICAL CHEMISTRY
(2021)
Article
Multidisciplinary Sciences
Charlotte A. Cialek, Gabriel Galindo, Tatsuya Morisaki, Ning Zhao, Taiowa A. Montgomery, Timothy J. Stasevich
Summary: The authors developed live-cell biosensors to investigate the impact of Argonaute proteins on single-mRNA translation dynamics. They found that Argonaute association gradually silences translation and leads to the clustering and coalescence of mRNA with P-bodies, maintaining a translationally silent state.
NATURE COMMUNICATIONS
(2022)
Article
Radiology, Nuclear Medicine & Medical Imaging
Hongje Lee, Ho Won Lee, You La Lee, Yong Hyun Jeon, Shin Young Jeong, Sang-Woo Lee, Jaetae Lee, Byeong-Cheol Ahn
MOLECULAR IMAGING AND BIOLOGY
(2018)
Article
Biochemistry & Molecular Biology
Jennifer A. Bohn, Jamie L. Van Etten, Trista L. Schagat, Brittany M. Bowman, Richard C. McEachin, Peter L. Freddolino, Aaron C. Goldstrohm
NUCLEIC ACIDS RESEARCH
(2018)
Article
Biochemistry & Molecular Biology
Julia E. Gerson, Nathaniel Safren, Svetlana Fischer, Ronak Patel, Emily Crowley, Jacqueline P. Welday, Alexandra K. Windle, Sami Barmada, Henry L. Paulson, Lisa M. Sharkey
HUMAN MOLECULAR GENETICS
(2020)
Article
Cell Biology
Tigist Y. Tamir, Brittany M. Bowman, Megan J. Agajanian, Dennis Goldfarb, Travis P. Schrank, Trent Stohrer, Andrew E. Hale, Priscila F. Siesser, Seth J. Weir, Ryan M. Murphy, Kyle M. LaPak, Bernard E. Weissman, Nathaniel J. Moorman, M. Ben Major
JOURNAL OF CELL SCIENCE
(2020)
Article
Oncology
Brittany M. Bowman, Stephanie A. Montgomery, Travis P. Schrank, Jeremy M. Simon, Travis S. Ptacek, Tigist Y. Tamir, Kathleen M. Muvlaney, Seth J. Weir, Tuong T Nguyen, Ryan M. Murphy, Liza Makowski, D. Neil Hayes, Xiaoxin L. Chen, Scott H. Randell, Bernard E. Weissman, Michael B. Major
JOURNAL OF PATHOLOGY
(2020)
Article
Oncology
Emily B. Harrison, Alessandro Porrello, Brittany M. Bowman, Adam R. Belanger, Gabriella Yacovone, Salma H. Azam, Ian A. Windham, Subrata K. Ghosh, Menglin Wang, Nicholas Mckenzie, Trent A. Waugh, Amanda E. D. Van Swearingen, Stephanie M. Cohen, Devon G. Allen, Tyler J. Goodwin, Teresa Mascenik, James E. Bear, Sarah Cohen, Scott H. Randell, Pierre P. Massion, Michael B. Major, Leaf Huang, Chad V. Pecot
Article
Neurosciences
Lisa M. Sharkey, Stephanie S. Sandoval-Pistorius, Shannon J. Moore, Julia E. Gerson, Robert Komlo, Svetlana Fischer, Keyshla Y. Negron-Rios, Emily Crowley, Francisco Padron, Ronak Patel, Geoffrey G. Murphy, Henry L. Paulson
NEUROBIOLOGY OF DISEASE
(2020)
Article
Multidisciplinary Sciences
Julia E. Gerson, Hunter Linton, Jiazheng Xing, Alexandra B. Sutter, Fayth S. Kakos, Jaimie Ryou, Nyjerus Liggans, Lisa M. Sharkey, Nathaniel Safren, Henry L. Paulson, Magdalena I. Ivanova
Summary: Brain-expressed ubiquilins UBQLNs 1, 2 and 4 play crucial roles in protein homeostasis and neurodegenerative diseases, with recent research showing differences in aggregation propensity among them, with UBQLN4 exhibiting heightened aggregation propensity.
SCIENTIFIC REPORTS
(2021)
Article
Neurosciences
Julia E. Gerson, Stephanie Sandoval-Pistorius, Jacqueline P. Welday, Aleija Rodriguez, Jordan D. Gregory, Nyjerus Liggans, Kylie Schache, Xingli Li, Hanna Trzeciakiewicz, Sami Barmada, Lisa M. Sharkey, Henry L. Paulson
Summary: Accumulation of tau protein is toxic in several neurodegenerative disorders. This study found that UBQLN2, a class of proteins linked to protein quality control and neurodegenerative diseases, plays a role in regulating tau protein. UBQLN2 can efficiently decrease wild-type tau levels regardless of aggregation, suggesting its involvement in tau regulation under normal conditions or early in disease. An imbalance of UBQLN2 disrupts ubiquitin-dependent protein quality control and autophagy, exacerbating neurodegeneration.
JOURNAL OF NEUROSCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Harihar Milaganur Mohan, Hanna Trzeciakiewicz, Amit Pithadia, Emily Crowley, Regina Pacitto, Nathaniel Safren, Bryce Trotter, Chengxin Zhang, Xiaogen Zhou, Yang Zhang, Venkatesha Basrur, Henry L. Paulson, Lisa M. Sharkey
Summary: A newly discovered protein called RTL8 interacts with UBQLN2 and facilitates its translocation to the nucleus, contributing to nuclear protein quality control. This interaction is specific to UBQLN2 and does not extend to other ubiquilins.
CELLULAR AND MOLECULAR LIFE SCIENCES
(2022)
Meeting Abstract
Biochemistry & Molecular Biology
Harihar Milaganur Mohan, Hanna Trzeciakiewicz, Nathaniel Safren, Henry Paulson, Lisa Sharkey
Article
Biochemistry & Molecular Biology
Erpan Ahat, Sarah Bui, Jianchao Zhang, Felipe da Veiga Leprevost, Lisa Sharkey, Whitney Reid, Alexey I. Nesvizhskii, Henry L. Paulson, Yanzhuang Wang
Summary: This study investigates the unconventional protein secretion pathway mediated by Golgi reassembly stacking proteins (GRASPs) and identifies the mechanism of unconventional secretion for mutant huntingtin and other neurodegenerative disease-related proteins. The study also finds that GRASP55 levels are upregulated under stress conditions to facilitate unconventional secretion, and that inhibition of GRASP55-dependent secretion enhances mutant huntingtin aggregation and toxicity.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2022)
Article
Multidisciplinary Sciences
Stephanie S. Sandoval-Pistorius, Julia E. Gerson, Nyjerus Liggans, Jaimie H. Ryou, Kulin Oak, Xingli Li, Keyshla Y. Negron-Rios, Svetlana Fischer, Henry Barsh, Emily V. Crowley, Mary E. Skinner, Lisa M. Sharkey, Sami J. Barmada, Henry L. Paulson
Summary: The key protein implicated in Parkinson's disease and other synucleinopathies is alpha-synuclein, especially its phosphorylated form at serine 129 (pS129). A protein quality control protein called Ubiquilin-2 (UBQLN2) is known to accumulate in synucleinopathies, and this study shows that UBQLN2 directly regulates alpha-synuclein, particularly pS129. The dysregulation of UBQLN2 in the disease may contribute to alpha-synuclein-mediated toxicity.
SCIENTIFIC REPORTS
(2023)
Article
Pharmacology & Pharmacy
Akiko Idera, Lisa M. Sharkey, Yuki Kurauchi, Keiichi Kadoyama, Henry L. Paulson, Hiroshi Katsuki, Takahiro Seki
Summary: Mutations of UBQLN2 cause ALS and impair protein degradation through autophagy-lysosome system. Wild-type UBQLN2 negatively regulates chaperone-mediated autophagy (CMA), but ALS-associated mutant forms exacerbate this impairment. Interestingly, mutant UBQLN2 also impairs macroautophagy (MA), while wild-type UBQLN2 does not.
JOURNAL OF PHARMACOLOGICAL SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Jaya Gautam, Suhrid Banskota, Hyunji Lee, Yu-Jeong Lee, Yong Hyun Jeon, Jung-Ae Kim, Byeong-Seon Jeong
EXPERIMENTAL AND MOLECULAR MEDICINE
(2018)