Article
Chemistry, Multidisciplinary
Masafumi Minoshima, Taro Umeno, Kohei Kadooka, Margaux Roux, Namiko Yamada, Kazuya Kikuchi
Summary: To understand protein function in live cells, it is important to monitor protein dynamics and sense their environment in real-time. We developed a versatile chemical protein-labeling tool that efficiently forms stable carbamoylated complexes with beta-lactamase, allowing long-term visualization of labeled proteins in live cells. The use of an alpha-fluorinated carboxylate ester-based prodrug enables cell membrane permeability and stable labeling of intracellular proteins. Combining this labeling tool with a pH-activatable fluorescent probe enables visual monitoring of lysosomal protein translocation during autophagy.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Biotechnology & Applied Microbiology
Jiayi Lin, Linlin Xu, Yuling Zheng, Dalin Wu, Jun Yue
Summary: This study reports a fluorescence probe with a core-shell structure that can selectively label different types of bacteria and biofilms. The results demonstrate the potential application of this probe in bacterial research.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Optics
Mahmoud Al-Salihi, Zhenjiang Chen, Soham Samanta, Ahmed Elazab, Rongxing Yi, Shiqi Wang, Fangrui Lin, Junle Qu, Liwei Liu
Summary: This paper presents a method to enhance the precision of rapid lifetime determination (RLD) in biological imaging. By analyzing system noise and applying image processing techniques, the proposed method improves the imaging performance and demonstrates improvements in weak signal imaging.
Review
Biotechnology & Applied Microbiology
Vikram Singh, Mukesh Jain
Summary: CRISPR-based imaging methods play a crucial role in studying the localization, interaction, and coordinated regulation of chromatin, genomic loci, RNAs, and proteins. These methods, utilizing various tools and technologies, have significantly improved the efficiency and clarity of imaging, offering insights into chromatin organization and dynamics, RNA visualization, and protein imaging for genome biology research.
CRITICAL REVIEWS IN BIOTECHNOLOGY
(2022)
Article
Chemistry, Multidisciplinary
Tom Baladi, Jesper R. Nilsson, Audrey Gallud, Emanuele Celauro, Cecile Gasse, Fabienne Levi-Acobas, Ivo Sarac, Marcel R. Hollenstein, Anders Dahlen, Elin K. Esbjorner, L. Marcus Wilhelmsson
Summary: The study introduces a stealth labeling strategy to efficiently generate RNA transcripts and translate them into correct proteins, providing an important tool for biological research and RNA delivery studies.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Article
Chemistry, Multidisciplinary
Bryan J. Lampkin, Joshua A. Kritzer
Summary: Recent years have seen significant advancements in the design of organic fluorophores by restricting non-radiative decay pathways. In this study, we investigated benzothiadiazoles as turn-on fluorescent substrates, and by optimizing steric and electronic effects, we achieved improved turn-on dyes with a 136-fold increase in fluorescence over background.
CHEMICAL COMMUNICATIONS
(2023)
Review
Chemistry, Analytical
Zahra Hallaji, Zeinab Bagheri, Mahdi Oroujlo, Mehrnoosh Nemati, Zeinab Tavassoli, Bijan Ranjbar
Summary: This article summarizes the important features of carbon dots (CDs) in cell imaging and discusses the latest modulated CDs for targeted live-cell imaging, including whole-cell, organelle, pH, ion, small molecule, and protein imaging, and explains the challenges in these fields.
Article
Chemistry, Multidisciplinary
Michael Holtmannspoetter, Eike Wienbeuker, Timo Dellmann, Isabelle Watrinet, Ana J. Garcia-Saez, Kai Johnsson, Rainer Kurre, Jacob Piehler
Summary: Self-labeling enzymes (SLE) like the HaloTag are valuable tools in high and super-resolution fluorescence microscopy. New fluorogenic substrates for SLE allow imaging with excess dye. Two engineered variants of HaloTag7 with restored dehalogenase activity, reHaloTagS (approx. 0.006 s(-1)) and reHaloTagF (approx. 0.055 s(-1)), showed different turnover kinetics in vitro. Imaging with reHaloTag labeling demonstrated 3-5 times enhanced photostability, and single molecule imaging enabled controlled and stable labeling density over extended periods. Combination with structured illumination allowed simultaneous visualization of single molecule diffusion and organellar dynamics. These applications showcase the potential of reHaloTag labeling in advancing fluorescence microscopy techniques.
ANGEWANDTE CHEMIE-INTERNATIONAL EDITION
(2023)
Article
Chemistry, Multidisciplinary
Sneha R. Bhosale, Kishor S. Jagadhane, Rakhee R. Bhosale, Sharadrao A. Vanalakar, Mohammad H. Qureshi, Devashree N. Patil, Rushikesh P. Dhavale, Vinod B. Shimpale, Govind B. Kolekar, Prashant V. Anbhule
Summary: In this report, a drug delivery system based on Argyreia sharadchandrajii biomass-derived carbon encapsulated on the surface of zinc oxide nanorods was developed. The carbon encapsulation process was performed by a two-step method involving the preparation of mesoporous carbon and synthesis of ZnO nanorods. The resulting composite exhibited a wurtzite hexagonal crystal structure and showed potential bioactivities including antioxidation, antimicrobial properties, anticancer effects, and sustained drug release.
NEW JOURNAL OF CHEMISTRY
(2023)
Review
Plant Sciences
Noriyoshi Yagi, Akira Yoshinari, Ryu J. Iwatate, Reika Isoda, Wolf B. Frommer, Masayoshi Nakamura
Summary: Fluorescent probes are essential tools for visualizing cellular structures and molecular dynamics in living cells, with a wide variety of small-molecule dyes synthesized for labeling purposes. Self-labeling technologies allow these probes to be attached to cellular domains or specific proteins, and are now being increasingly utilized in plant research.
PLANT AND CELL PHYSIOLOGY
(2021)
Article
Chemistry, Physical
Huaxin Zhang, Honglin Wang, Hongmei Yang, Dan Zhou, Qinghua Xia
Summary: Water-soluble amino-terminated SiQDs were successfully synthesized without extra reductants or catalysts, showing excellent fluorescence properties and stability. SiQDs could stably bind with human serum albumin and have potential biomedical applications.
JOURNAL OF MOLECULAR LIQUIDS
(2021)
Article
Chemistry, Inorganic & Nuclear
Venkatachalam Vijayaraj, Ganapathy Sasikala, Nanthagopal Manivannan, Narayanasamy Mathivanan, P. Karuppasamy, M. Senthil Pandian, P. Ramasamy
Summary: Water-soluble CdTe colloidal QDs with different emissions were synthesized using 3-MPA as a stabilizing agent and varying growth times. The red-shift in absorption and emission spectra indicated an increase in particle size. XRD and FTIR analysis confirmed the crystal structure and surface capping effect of the QDs. HRTEM and EDX analysis provided insights into the morphology and elemental composition of the QDs. The green emitting CdTe QDs showed excellent luminance and were found to be efficient fluorescent probes for fluorescence imaging of onion epidermal cells.
INORGANIC CHEMISTRY COMMUNICATIONS
(2023)
Article
Engineering, Environmental
Lei Zhan, Peng Hou, Na Chen, Yuan Fang Li, Chun Mei Li, Cheng Zhi Huang
Summary: Cellular polarity plays a crucial role in various pathological and biological processes, but the development of fluorescent probes for tracking polarity changes remains challenging. In this study, aminoterminated carbon dots (CDs) with superior Golgi apparatus targeting ability and polarity-sensitive property were designed and fabricated. These CDs allowed effective imaging of Golgi apparatus dynamics and could be used to identify cancer cells when conjugated with folic acid. Importantly, apoptotic cells were found to have higher Golgi polarity compared to non-apoptotic cells. This work highlights the potential of CDs for real-time tracking of Golgi apparatus and polarity changes, with implications for apoptosis evaluation and therapeutic drug screening.
CHEMICAL ENGINEERING JOURNAL
(2023)
Article
Biology
Thomas G. W. Graham, John Joseph Ferrie, Gina M. Dailey, Robert Tjian, Xavier Darzacq
Summary: Single-molecule imaging is a powerful tool for studying biochemical processes in live cells, but tracking single molecules and detecting their interactions simultaneously remains challenging. This study describes a novel property of rhodamine dyes, proximity-assisted photoactivation (PAPA), which allows the detection of protein-protein interactions in live cells using two different labeled protein complexes in proximity.
Article
Chemistry, Multidisciplinary
Lei Jiang, Hao Cai, Wanwan Zhou, Zijian Li, Liang Zhang, Hong Bi
Summary: Monitoring the dynamics of RNA granules and phase separation inside cells is important for understanding cellular responses under various stresses, such as oxidative stress. Current small-molecule RNA probes face limitations in stability and biocompatibility, highlighting the urgent need for RNA-targeting fluorescent nanoprobes that can be used in living cells. In this study, a novel RNA-targeting, red-emissive carbon dots (M-CDs) were designed and synthesized, which showed high water solubility, fluorescence quantum yield, and selectivity for RNA. The M-CDs were successfully internalized into cells within 5 seconds and were able to image the dynamic process of intracellular stress granules under oxidative stress in real-time. This research opens up new possibilities for visualizing bulk RNA dynamics and studying phase-separation behaviors in living cells.
ADVANCED MATERIALS
(2023)
Article
Biochemistry & Molecular Biology
Soojung Hahn, Gyuri Kim, Sang-Man Jin, Jae Hyeon Kim
Summary: This study utilized three-dimensional intestinal organoids to investigate the effects of metformin on inflammatory bowel disease (IBD) and found that metformin can enhance intestinal barrier function and reduce levels of inflammatory cytokines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
V. V. Sudarev, M. S. Gette, S. V. Bazhenov, O. M. Tilinova, E. V. Zinovev, I. V. Manukhov, A. I. Kuklin, Yu. L. Ryzhykau, A. V. Vlasov
Summary: This study investigated the self-assembly processes of ferritin-based protein complexes and obtained structurally characterized oligomeric states. These results provide new potential and opportunities for the application of ferritin in various fields.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Yalda Sabaghi, Farnaz Pourfarzad, Leila Zolghadr, Azita Bahrami, Tahereh Shojazadeh, Alireza Farasat, Nematollah Gheibi
Summary: p-Coumaric acid (p-CA) is a plant compound with anti-cancer activities. This study designed a nano-liposomal carrier containing p-CA to enhance its effectiveness against melanoma cells. The findings showed that the liposomal form of p-CA had a greater impact on the cells. Kinetic modeling indicated that the best fitting model was zero-order.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
M. D. Nazmul Hasan, Md Mahfuzur Rahman, Al Asmaul Husna, Nobuhiro Nozaki, Osamu Yamato, Naoki Miura
Summary: This study investigated the expression of ncRNAs other than miRNAs in different histologic subtypes of canine mammary gland tumors (MGT). Three aberrantly expressed ncRNAs were identified as potential biomarkers for differentiating MGT subtypes. YRNA and tRFs expression levels were found to be decreased in metastatic compared to primary MGT cell lines.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Seine A. Shintani
Summary: In this study, the researchers used signal analysis to study the instantaneous amplitude and phase of sarcomeric oscillations in skeletal muscle. They identified two types of oscillations, sarcomeric oscillations and sarcosynced oscillations, and visualized their behavior during propagating waves. The researchers discovered the presence of sarcomeric defect holes and sarcomeric collision holes, which are important indicators for understanding the oscillation properties of sarcomeres. This finding has important implications for improving our understanding of muscle function and its regulatory mechanisms.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Shuanglin Zhang, Yuzhong Jia, Guolan Ma, Yanyan Yang, Zhenzhen Cao, Antao Luo, Zefu Zhang, Shihan Li, Jie Wen, Hanfeng Liu, Jihua Ma
Summary: Bupleurum is an antiarrhythmic agent that may exert its effects by inhibiting L-type calcium channels.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Tomotaka Ohkubo, Yasuhiko Matsumoto, Hiroaki Sasaki, Kaoru Kinoshita, Yuki Ogasawara, Takashi Sugita
Summary: This study found that Citrobacter koseri inhibits the growth of Staphylococcus epidermidis, disrupting the balance between S. epidermidis and Staphylococcus aureus, and exacerbating inflammation in atopic dermatitis.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Toshifumi Asano, Philipp Sasse, Takao Nakata
Summary: A Cre recombination-based fluorescent reporter system was developed to monitor cell-cell fusion. The system successfully detected the formation of multinuclear myotubes and placental syncytiotrophoblast. This tool could facilitate the study of cell-to-cell fusion.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Ke Shi, Yunlong Shan, Xiao Sun, Kuida Chen, Qiong Luo, Qiang Xu
Summary: This study found that low expression of TP53INP2 is associated with poor survival in colorectal cancer (CRC) patients. As the malignancy of CRC progresses, TP53INP2 expression gradually decreases. Knockdown of TP53INP2 promotes CRC cell proliferation and tumor growth. Mechanistically, TP53INP2 deficiency decreases phosphorylation of beta-catenin, leading to increased accumulation and enhanced nuclear translocation and transcriptional activity. Additionally, TP53INP2 sequesters TIM50, inhibiting its activation of beta-catenin. In conclusion, downregulation of TP53INP2 promotes CRC progression by activating beta-catenin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Martina Rossi, Fabio Tomaselli, Alejandro Hochkoeppler
Summary: Oligomeric enzymes are known for their higher catalytic rates compared to monomeric enzymes, but the extent of additivity in their activity is still not well understood. This study used tetrameric rabbit lactate dehydrogenase as a model to examine the kinetics of its catalytic action. Surprisingly, when the concentration of the limiting reactant exceeded that of a single subunit, there was a significant slowdown in the enzyme's conformational rearrangements.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Amin Sahraei, Mohammad Javad Shamsoddini, Fakhrossadat Mohammadi, Leila Hassani
Summary: This study explored the inhibitory effects of gallium curcumin, indium curcumin, and vanadyl curcumin on the amyloid fibrillation of hen egg white lysozyme, as well as the binding interactions of these metal complexes with the enzyme. The results showed that indium curcumin and vanadyl curcumin exhibited higher binding affinities and stronger inhibitory effects on amyloid fibrillation compared to gallium curcumin.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Takahiro Sasaki, Yoshiki Kuse, Shinsuke Nakamura, Masamitsu Shimazawa
Summary: PGRN deficiency plays a significant role in cardiac remodeling and arrhythmias post-myocardial infarction (MI), potentially by promoting metabolic abnormalities in macrophages.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Hongwei Zhao, Yiqiang Li, Yibo Zhang, Chi Zhang
Summary: Electrical brain stimulation technology is commonly used to treat brain neurological disorders, but it can cause side effects. This study investigated the impact of electric fields on nerve fibers and revealed the possible origin of side effects. The findings provide guidance for selecting electrical parameters in clinical stimulation therapy.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Julia S. Scott, Lake-Ee Quek, Andrew J. Hoy, Johannes V. Swinnen, Zeyad D. Nassar, Lisa M. Butler
Summary: The fatty acid elongation enzyme ELOVL5 plays a critical role in promoting metastasis in prostate cancer. Knocking down ELOVL5 leads to the accumulation of malonyl-CoA, which inhibits fatty acid oxidation in mitochondria. This study highlights the importance of fatty acid elongation in regulating cell viability and provides a potential target for prostate cancer treatment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)
Article
Biochemistry & Molecular Biology
Zan Zhou, Wen-jun Jiang, Li Li, Jun-qiang Si
Summary: This study investigates the effect of noise exposure on cognitive function in mice and explores the underlying molecular mechanisms. The findings suggest that noise exposure leads to increased inflammation, increased phosphorylation of Tau protein, and decreased levels of postsynaptic density protein, resulting in cognitive impairment.
BIOCHEMICAL AND BIOPHYSICAL RESEARCH COMMUNICATIONS
(2024)