Article
Chemistry, Multidisciplinary
Tianyao Zhang, Haibo Yu, Jialin Shi, Xiaoduo Wang, Hao Luo, Daojing Lin, Zhu Liu, Chanmin Su, Yuechao Wang, Lianqing Liu
Summary: This paper proposes an imaging method that combines atomic force microscopy with microlens-based scanning optical microscopy, which can achieve cross-scale rapid imaging and improve the efficiency of large-scale imaging and detection.
Review
Chemistry, Physical
Daniel Martin-Yerga, Patrick R. Unwin, Dimitrios Valavanis, Xiangdong Xu
Summary: Correlative co-located electrochemical multi-microscopy is revolutionizing our understanding of property-function relationships in electrode materials, providing high spatial resolution. This review explores recent advancements in this approach and showcases its applications in diverse electrochemical fields.
CURRENT OPINION IN ELECTROCHEMISTRY
(2023)
Article
Polymer Science
Yuyang Wang, Heiner Friedrich, Ilja K. Voets, Peter Zijlstra, Lorenzo Albertazzi
Summary: Characterization of polymeric materials is crucial for understanding structure-activity relationships and designing novel materials for various applications. Electron microscopy, fluorescence microscopy, and atomic force microscopy are commonly used techniques. Correlative imaging, combining multiple imaging methodologies, is emerging as a powerful tool to reveal the structure and functional properties of biological and synthetic structures, with the potential to answer unresolved questions in polymer science.
JOURNAL OF POLYMER SCIENCE
(2021)
Review
Immunology
Supriya V. Bhat, Jared D. W. Price, Tanya E. S. Dahms
Summary: Microbes possess a variety of virulence factors contributing to their pathogenicity, but challenges remain in fully understanding disease transmission, fitness landscape, antimicrobial resistance, and host heterogeneity. Combining atomic force microscopy (AFM) with optical microscopy has shown promise in elucidating pathogenicity and host-pathogen interactions, offering high-resolution surface topographical images and mechanical property quantification at physiological scales.
FRONTIERS IN CELLULAR AND INFECTION MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Ryan Lane, Anouk H. G. Wolters, Ben N. G. Giepmans, Jacob P. Hoogenboom
Summary: We developed a 3D image acquisition and reconstruction pipeline that integrates widefield fluorescence microscopy with scanning electron microscopy, overcoming the limitations of slow acquisition rates and difficulty in providing targeted biological information. By using cathodoluminescent markers, we achieved high precision EM-FM overlay. Our proof-of-concept on immunolabelled serial sections of tissues demonstrated expedited acquisition times and reduced data burden.
FRONTIERS IN MOLECULAR BIOSCIENCES
(2022)
Article
Biotechnology & Applied Microbiology
Lucie Ludvikova, Emma Simon, Mathieu Deygas, Thomas Panier, Marie-Aude Plamont, Jean Ollion, Alison Tebo, Matthieu Piel, Ludovic Jullien, Lydia Robert, Thomas Le Saux, Agathe Espagne
Summary: We present a method to reduce photobleaching and phototoxicity of fluorescent proteins by exploiting the photophysical process of reverse intersystem crossing. Dual illumination with near-infrared light during fluorophore excitation reduces photobleaching effects by 1.5-9.2-fold and can be easily implemented on commercial microscopes, making it effective in both eukaryotic and prokaryotic cells with various fluorescent proteins.
NATURE BIOTECHNOLOGY
(2023)
Review
Anatomy & Morphology
Hugh Tanner, Olivia Sherwin, Paul Verkade
Summary: Imaging is a crucial technology in biomedical research, but each technique only offers specific information. The combination of light and electron microscopy in CLEM allows for the advantages of both techniques. However, finding suitable markers for a Correlative Microscopy workflow remains a challenge.
MICROSCOPY RESEARCH AND TECHNIQUE
(2023)
Article
Chemistry, Physical
Johannes Zeininger, Philipp Winkler, Maximilian Raab, Yuri Suchorski, Mauricio J. Prieto, Liviu C. Tanase, Lucas de Souza Caldas, Aarti Tiwari, Thomas Schmidt, Michael Stoger-Pollach, Andreas Steiger-Thirsfeld, Beatriz Roldan Cuenya, Guenther Rupprechter
Summary: In this study, spatial-temporal nonuniformities in H-2 oxidation on individual Rh(hkl) domains of a polycrystalline Rh foil were investigated using PEEM, XPEEM, and LEEM. The latter two techniques were used for in situ correlative microscopy, which provided higher lateral resolution and enabled the detection of island-mediated oxygen front propagation during kinetic transitions. The origin of this phenomenon was rationalized through model calculations based on a hybrid approach of microkinetic modeling and Monte Carlo simulations.
Article
Multidisciplinary Sciences
Zhaohong Mi, Ce-Belle Chen, Hong Qi Tan, Yanxin Dou, Chengyuan Yang, Shuvan Prashant Turaga, Minqin Ren, Saumitra K. Vajandar, Gin Hao Yuen, Thomas Osipowicz, Frank Watt, Andrew A. Bettiol
Summary: Researchers efficiently excited nanodiamonds using a focused beam of helium ions, resulting in ionoluminescence. This was used for quantification and correlative localization of single particles within a whole cell at sub-30 nm resolution, and for investigating nanodiamond radiosensitisation effects.
NATURE COMMUNICATIONS
(2021)
Article
Chemistry, Analytical
Meiting Wang, Jiajie Chen, Lei Wang, Xiaomin Zheng, Jie Zhou, Youjun Zeng, Junle Qu, Yonghong Shao, Bruce Zhi Gao
Summary: Structured Illumination Microscopy (SIM) utilizes super-resolution imaging technique to break the optical diffraction limit through light-source modulation, while correlative SIM combines other techniques for higher imaging resolution or increased versatility. This review outlines the imaging mechanisms and development trends of traditional SIM, followed by an overview of the principles and recent advancements in correlative SIM techniques, before presenting future directions for SIM and its related microscopies.
Article
Biochemistry & Molecular Biology
Hong-Lim Kim, Tae-Ryong Riew, Jieun Park, Youngchun Lee, In-Beom Kim
Summary: Researchers have developed a new method by combining light and electron microscopy with immunolabeling, to overcome technical barriers in immuno-electron microscopy. This method allows for excellent antigenicity of target proteins and preservation of ultrastructure, without the need for specifically designed correlative light and electron microscopy devices. It can be easily applied in many biomedical studies.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biochemical Research Methods
Jie E. Yang, Matthew R. Larson, Bryan S. Sibert, Joseph Y. Kim, Daniel Parrell, Juan C. Sanchez, Victoria Pappas, Anil Kumar, Kai Cai, Keith Thompson, Elizabeth R. Wright
Summary: In this paper, robust tools for montage parallel array cryo-tomography (MPACT) tailored for vitrified specimens are presented, which can image large fields of view while preserving high-resolution structural information. The combination of multiple techniques in MPACT supports studies that contextually define the three-dimensional architecture of cells, and it provides flexibility and efficient data processing and analysis.
Article
Cell Biology
Sergey Loginov, Job Fermie, Jantina Fokkema, Alexandra Agronskaia, Cilia De Heus, Gerhard A. Blab, Judith Klumperman, Hans C. Gerritsen, Nalan Liv
Summary: Intracellular processes require precise organization of proteins and organelles. Volume-CLEM, a combination of light and electron microscopy, offers a unique approach to study cellular physiology at a high-resolution ultrastructural level. However, limitations in throughput and 3D correlation efficiency have hindered its application. In this study, researchers developed a novel pipeline for volume-CLEM that addresses these limitations by using fiducial nanoparticles and an integrated confocal fluorescence microscope and scanning electron microscope. They demonstrated the power of this approach by targeting rare and transient contact sites between organelles, providing valuable insights into cellular dynamics and ultrastructural details.
FRONTIERS IN CELL AND DEVELOPMENTAL BIOLOGY
(2022)
Article
Cell Biology
Simone Pelicci, Laura Furia, Pier Giuseppe Pelicci, Mario Faretta
Summary: The modern fluorescence microscope combines different technologies with varying performance levels. However, the best results are achieved by maximizing one parameter while compromising others, which limits the adoption of new optical microscopy tools in research labs.
Article
Chemistry, Multidisciplinary
Raveen K. G. Tank, Victoria A. Lund, Sandip Kumar, Robert D. Turner, Lucia Lafage, Laia Pasquina Lemonche, Per A. Bullough, Ashley Cadby, Simon J. Foster, Jamie K. Hobbs
Summary: This study combines STORMForce and SIMForce technologies to map the synthesis of peptidoglycan, a structural macromolecule of bacterial cell walls, during growth and division in Bacillus subtilis. It reveals a two-stage process of septal synthesis during division and bands of synthesis during growth. The combination of super-resolution optics and AFM provides insights into the synthesis processes of bacterial structural biopolymers.
Review
Oncology
Donatella Delle Cave, Riccardo Rizzo, Bruno Sainz, Giuseppe Gigli, Loretta L. del Mercato, Enza Lonardo
Summary: This article discusses bioengineering systems for pancreatic cancer and methods for studying and simulating the tumor microenvironment in 3D cell culture models. Therapeutic response for pancreatic cancer is poor, prompting the need for new drug development approaches. Advanced cellular models that mimic the original tumor environment may be more successful in predicting the efficacy of anti-cancer candidates in clinical trials.
Article
Biochemistry & Molecular Biology
Riccardo Rizzo, Domenico Russo, Kazuo Kurokawa, Pranoy Sahu, Bernadette Lombardi, Domenico Supino, Mikhail A. Zhukovsky, Anthony Vocat, Prathyush Pothukuchi, Vidya Kunnathully, Laura Capolupo, Gaelle Boncompain, Carlo Vitagliano, Federica Zito Marino, Gabriella Aquino, Daniela Montariello, Petra Henklein, Luigi Mandrich, Gerardo Botti, Henrik Clausen, Ulla Mandel, Toshiyuki Yamaji, Kentaro Hanada, Alfredo Budillon, Franck Perez, Seetharaman Parashuraman, Yusuf A. Hannun, Akihiko Nakano, Daniela Corda, Giovanni D'Angelo, Alberto Luini
Summary: Research shows that a group of sequentially-acting enzymes in the Golgi bind to the oncogenic protein GOLPH3, affecting glycosphingolipid synthesis and cell proliferation by regulating enzyme localization and degradation rate. These findings reveal a novel oncogenic mechanism of action for GOLPH3 in glycosphingolipid metabolism.
Article
Chemistry, Multidisciplinary
Anil Chandra, Saumya Prasad, Helena Iuele, Francesco Colella, Riccardo Rizzo, Eliana D'Amone, Giuseppe Gigli, Loretta L. del Mercato
Summary: This study presents a methodology for noncovalent HPTS immobilization on silica microparticles, considering the retention of pH sensitivity and long-term stability. The importance of surface charge in governing the sensitivity of immobilized HPTS dye molecules on silica microparticles is emphasized in the study. The immobilization methodology's role in preserving sensitivity and stability of the microsensors is also assessed.
CHEMISTRY-A EUROPEAN JOURNAL
(2021)
Article
Biochemistry & Molecular Biology
Prathyush Pothukuchi, Ilenia Agliarulo, Marinella Pirozzi, Riccardo Rizzo, Domenico Russo, Gabriele Turacchio, Julian Nuechel, Jia-Shu Yang, Charlotte Gehin, Laura Capolupo, Maria Jose Hernandez-Corbacho, Ansuman Biswas, Giovanna Vanacore, Nina Dathan, Takahiro Nitta, Petra Henklein, Mukund Thattai, Jin-Ichi Inokuchi, Victor W. Hsu, Markus Plomann, Lina M. Obeid, Yusuf A. Hannun, Alberto Luini, Giovanni D'Angelo, Seetharaman Parashuraman
Summary: The Golgi matrix protein GRASP55 plays a crucial role in regulating the compartmentalized localization of key enzymes involved in glycosphingolipid biosynthesis. Lack of GRASP55 or expression of mutant enzymes without GRASP55 binding sites can affect the synthesis of glycosphingolipids by altering metabolic flux.
Article
Polymer Science
Giulia Morello, Alessandro Polini, Francesca Scalera, Riccardo Rizzo, Giuseppe Gigli, Francesca Gervaso
Summary: This study developed injectable thermosensitive hydrogels composed of chitosan and pectin, which can serve as effective biomaterials for 3D in vitro studies on tissue physiopathology.
Article
Multidisciplinary Sciences
Giovanna Grimaldi, Angela Filograna, Laura Schembri, Matteo Lo Monte, Rosaria Di Martino, Marinella Pirozzi, Daniela Spano, Andrea R. Beccari, Seetharaman Parashuraman, Alberto Luini, Carmen Valente, Daniela Corda
Summary: This study reveals that the mono-ADP-ribosylation of Golgin-97 by PARP12 selectively regulates the transport of specific basolateral proteins, contributing to the maintenance of cell polarity and cell-cell junctions. The enzymatic activity of PARP12 depends on the activation of protein kinase D, which is essential for its catalytic activity and involvement in the basolateral transport pathway.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Cell Biology
Ilenia Agliarulo, Seetharaman Parashuraman
Summary: This article discusses the central role of the Golgi apparatus in the mammalian secretory pathway and its regulation of plasma membrane biosynthesis through three distinct processes. It also explores the importance of the molecules involved in these processes in physiology and development, as well as how mutations in these molecules can lead to genetic diseases and cancer.
Article
Nanoscience & Nanotechnology
Anil Chandra, Saumya Prasad, Francesco Alemanno, Maria De Luca, Riccardo Rizzo, Roberta Romano, Giuseppe Gigli, Cecilia Bucci, Adriano Barra, Loretta L. del Mercato
Summary: This study presents a method to measure intracellular organelle pH in breast cancer cells using silica-based fluorescent microparticles. The research found similar acidification times but differences in heterogeneity between different cell lines. The novel computational approach allows for fast analysis of massive internalization events.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Biophysics
Riccardo Rizzo, Valentina Onesto, Stefania Forciniti, Anil Chandra, Saumya Prasad, Helena Iuele, Francesco Colella, Giuseppe Gigli, Loretta L. del Mercato
Summary: This study presents a method to embed fluorescent pH sensors into 3D tumor models and analyze the data using computational methods. The results show that extracellular pH is cell line-specific and time-dependent. Additionally, metabolic crosstalk between tumor cells and stromal cells was detected.
BIOSENSORS & BIOELECTRONICS
(2022)
Article
Engineering, Biomedical
Riccardo Rizzo, Valentina Onesto, Giulia Morello, Helena Iuele, Francesca Scalera, Stefania Forciniti, Giuseppe Gigli, Alessandro Polini, Francesca Gervaso, Loretta L. del Mercato
Summary: The article discusses the development of in vitro 3D systems to study tumor microenvironments and how cancer cells interact with their surrounding environment. The researchers describe a pH-sensing hybrid system that can monitor metabolic changes in colorectal cancer spheroids. They characterize the properties of the system and quantify proton gradient distribution in the spheroids during drug treatment, revealing the effects of the treatment on extracellular pH. The findings provide insights into cellular metabolism and have implications for the study of solid tumors and personalized medicine approaches.
MATERIALS TODAY BIO
(2023)
Article
Biochemical Research Methods
Ichcha Manipur, Maurizio Giordano, Marina Piccirillo, Seetharaman Parashuraman, Lucia Maddalena
Summary: The ability to identify and characterize protein-protein interactions and their internal modular organization through network analysis is crucial for understanding biological processes at the molecular level. It can enhance our understanding of disease pathology and aid in personalized medicine. This review provides an overview of computational methods for detecting protein complexes and functional modules in protein-protein interaction networks, along with their applications. It also proposes a systematic reformulation of existing taxonomies and new categories, reviews recent literature, and offers links to relevant resources.
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS
(2023)
Article
Cell Biology
Irina S. Sesorova, Natalia R. Karelina, Tatiana E. Kazakova, Seetharaman Parashuraman, Maria A. Zdorikova, Ivan D. Dimov, Elena V. Seliverstova, Galina V. Beznoussenko, Alexander A. Mironov
HISTOCHEMISTRY AND CELL BIOLOGY
(2020)
Correction
Biology
Giuliana Lania, Merlin Nanayakkara, Mariantonia Maglio, Renata Auricchio, Monia Porpora, Mariangela Conte, Maria Antonietta De Matteis, Riccardo Rizzo, Alberto Luini, Valentina Discepolo, Riccardo Troncone, Salvatore Auricchio, Maria Vittoria Barone
COMMUNICATIONS BIOLOGY
(2020)
