Article
Chemistry, Multidisciplinary
Ilya O. Aparin, Rui Yan, Remi Pelletier, Alexander A. Choi, Dmytro I. Danylchuk, Ke Xu, Andrey S. Klymchenko
Summary: This study proposes a concept of ON/OFF switchable probes for super-resolution fluorescence microscopy based on bright cyanine dyes. The new probes provide higher brightness and slower diffusion at the cell surface, improving the localization precision. The study validated the concept and demonstrated the observation of nanoscale cellular structures with enhanced dynamics.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Multidisciplinary Sciences
Yicong Wu, Xiaofei Han, Yijun Su, Melissa Glidewell, Jonathan S. Daniels, Jiamin Liu, Titas Sengupta, Ivan Rey-Suarez, Robert Fischer, Akshay Patel, Christian Combs, Junhui Sun, Xufeng Wu, Ryan Christensen, Corey Smith, Lingyu Bao, Yilun Sun, Leighton H. Duncan, Jiji Chen, Yves Pommier, Yun-Bo Shi, Elizabeth Murphy, Sougata Roy, Arpita Upadhyaya, Daniel Colon-Ramos, Patrick La Riviere, Hari Shroff
Summary: Researchers have enhanced the performance of confocal microscopy using four approaches: developing compact line scanners, combining multi-view imaging, adapting techniques from structured illumination microscopy, and utilizing deep learning. They successfully improved imaging resolution, reduced phototoxicity, and demonstrated these advancements on over 20 different samples.
Review
Cell Biology
Qiangqiang He, Meiyu Qu, Tingyu Shen, Jiakun Su, Yana Xu, Chengyun Xu, Muhammad Qasim Barkat, Jibao Cai, Haibin Zhu, Ling -Hui Zeng, Ximei Wu
Summary: Mitochondria-associated endoplasmic reticulum membranes (MAMs) are dynamic coupling structures between mitochondria and the endoplasmic reticulum (ER), playing important roles in calcium homeostasis, autophagy, ER stress, lipid metabolism, and various diseases. The formation and function of MAMs rely on specific proteins, including the IP3R-Grp75-VDAC complex. S-palmitoylation, a reversible protein post-translational modification, is closely related to the localization of proteins in MAMs. This article provides an overview of the composition and function of MAMs, focusing on the role of S-palmitoylated proteins in calcium flux, lipid rafts, and discusses their implication in diseases, particularly neurodegenerative diseases (NDs). Potential drug compounds targeting S-palmitoylation are also proposed.
AGEING RESEARCH REVIEWS
(2023)
Article
Neurosciences
Natsumi Ageta-Ishihara, Sayaka Takemoto-Kimura, Yayoi Kondo, Michiko Okamura, Haruhiko Bito
Summary: CLICK-III/CaMKI? is a lipid-anchored neuronal isoform of Ca2+/calmodulin-dependent protein kinases that mediates BDNF-dependent dendritogenesis. Prenylation and palmitoylation of CaMKI? control its association with detergent-resistant microdomains and are essential for its dendritogenic activity. Prenylation permits membrane anchoring and Golgi access, while palmitoylation facilitates association with cholesterol-enriched lipid microdomains.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2023)
Article
Multidisciplinary Sciences
Chenxi Qian, Kun Miao, Li-En Lin, Xinhong Chen, Jiajun Du, Lu Wei
Summary: VISTA is a label-free superresolution method combining sample expansion and vibrational imaging, enabling high-resolution interrogation of protein-rich biological structures in cells and tissues, with a resolution down to 78 nm.
NATURE COMMUNICATIONS
(2021)
Review
Optics
Mingwei Tang, Yubing Han, Danchen Jia, Qing Yang, Ji-Xin Cheng
Summary: Far-field chemical microscopy, with molecular electronic or vibrational fingerprint information, offers a new perspective for studying three-dimensional biological, material, and chemical systems. Despite the limitation of optics, recent advances in super-resolution techniques have overcome this hurdle, pushing the boundaries of far-field chemical microscopy in terms of spatial resolution. This technique finds applications in various fields including biomedical research, material characterization, environmental study, cultural heritage conservation, and integrated chip inspection.
LIGHT-SCIENCE & APPLICATIONS
(2023)
Article
Biochemical Research Methods
Linjing Fang, Fred Monroe, Sammy Weiser Novak, Lyndsey Kirk, Cara R. Schiavon, Seungyoon B. Yu, Tong Zhang, Melissa Wu, Kyle Kastner, Alaa Abdel Latif, Zijun Lin, Andrew Shaw, Yoshiyuki Kubota, John Mendenhall, Zhao Zhang, Gulcin Pekkurnaz, Kristen Harris, Jeremy Howard, Uri Manor
Summary: Point-scanning imaging systems are widely used for high-resolution cellular and tissue imaging, but optimizing resolution, speed, sample preservation, and signal-to-noise ratio simultaneously is challenging. The use of deep learning-based supersampling, known as point-scanning super-resolution (PSSR) imaging, can mitigate these limitations. PSSR facilitates high-resolution, fast, and sensitive image acquisition with otherwise unattainable resolution.
Article
Biochemical Research Methods
Hongje Jang, Yajuan Li, Anthony A. A. Fung, Pegah Bagheri, Khang Hoang, Dorota Skowronska-Krawczyk, Xiaoping Chen, Jane Y. Y. Wu, Bogdan Bintu, Lingyan Shi
Summary: Stimulated Raman scattering (SRS) enables high signal-to-noise ratio imaging of metabolic dynamics, but its spatial resolution is limited. We developed an Adam optimization-based pointillism deconvolution (A-PoD) algorithm to achieve super-resolved SRS imaging. A-PoD was applied to compare nanoscopic distributions of proteins and lipids in cells and subcellular organelles. The A-PoD-coupled DO-SRS method allowed for the differentiation of newly synthesized lipids in lipid droplets and revealed metabolic changes in brain samples.
Article
Biochemical Research Methods
Biagio Mandracchia, Jeonghwan Son, Shu Jia
Summary: The study introduced an optofluidic scanning microscopy (OSM) system for super-resolution, live-cell imaging, utilizing multi-focal excitation through the innate fluidic motion of specimens to achieve effective resolution doubling, optical sectioning, and contrast enhancement. The system features minimal instrumental complexity and full compatibility with various microfluidic configurations, offering a promising super-resolution optofluidic paradigm for miniaturization and different levels of integration at the chip scale.
Article
Chemistry, Physical
Maier Lorizate, Oihana Terrones, Jon Ander Nieto-Garai, Iratxe Rojo-Bartolome, Dalila Ciceri, Ornella Morana, June Olazar-Intxausti, Aroa Arboleya, Alexia Martin, Marta Szynkiewicz, Maria Calleja-Felipe, Jorge Bernardino de la Serna, F. -Xabier Contreras
Summary: This paper introduces a new bioorthogonal-based cholesterol probe (chol-N-3) that, in combination with nanoscopy, provides a powerful method for direct visualization and characterization of lipid rafts in living cells at unprecedented resolution. The probe allows for observation of cholesterol-rich nanodomains of <50 nm at the plasma membrane of resting living cells, revealing multiple cholesterol diffusion modes at different spatial localizations. The method also shows potential for imaging across thick organ samples to address essential biological questions.
News Item
Multidisciplinary Sciences
Ewen Callaway
Summary: The technique surpasses the resolving power of multi-million-dollar machines.
Article
Biochemistry & Molecular Biology
Ivona Kubalova, Alzbeta Nemeckova, Klaus Weisshart, Eva Hribova, Veit Schubert
Summary: Fluorescence light microscopy is important for studying cellular structures, but limited by light diffraction; super-resolution techniques like SIM are used to overcome this limitation; however, STED and SMLM, which offer higher resolution, are not widely applied in plant cell research due to specific sample preparation requirements.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Biotechnology & Applied Microbiology
H. J. Geertsema, G. Aimola, V Fabricius, J. P. Fuerste, B. B. Kaufer, H. Ewers
Summary: Left-handed DNA probes improve super-resolution DNA-PAINT imaging in the nucleus by reducing background signal, maintaining the same specificity and multiplexing capabilities as right-handed DNA probes.
NATURE BIOTECHNOLOGY
(2021)
Article
Biotechnology & Applied Microbiology
Weisong Zhao, Shiqun Zhao, Liuju Li, Xiaoshuai Huang, Shijia Xing, Yulin Zhang, Guohua Qiu, Zhenqian Han, Yingxu Shang, De-En Sun, Chunyan Shan, Runlong Wu, Lusheng Gu, Shuwen Zhang, Riwang Chen, Jian Xiao, Yanquan Mo, Jianyong Wang, Wei Ji, Xing Chen, Baoquan Ding, Yanmei Liu, Heng Mao, Bao-Liang Song, Jiubin Tan, Jian Liu, Haoyu Li, Liangyi Chen
Summary: Sparse structured illumination microscopy (Sparse-SIM) achieves nearly twofold resolution enhancement by utilizing sparse deconvolution algorithm, enabling the resolution of intricate biological structures such as small fusion pores, nuclear pores, and relative movements of inner and outer mitochondrial membranes.
NATURE BIOTECHNOLOGY
(2022)
Article
Engineering, Electrical & Electronic
Miranda Parisi, Massimiliano Lucidi, Paolo Visca, Gabriella Cincotti
Summary: This article reviews various super-resolution microscopy techniques utilized by microbiologists to investigate bacterial cell morphology and functions. The achieved resolution is discussed, with a focus on fluorophore selection and other critical imaging requirements. Recent applications are described, which have provided novel insights into bacterial cellular structures. The pivotal role of super-resolution microscopy in addressing antimicrobial resistance is emphasized.
IEEE JOURNAL OF SELECTED TOPICS IN QUANTUM ELECTRONICS
(2023)
Article
Neurosciences
Hao Wang, Xiaoyu Hong, Yong Wang
JOURNAL OF ALZHEIMERS DISEASE
(2017)
Article
Biochemistry & Molecular Biology
Hao Wang, Xiaoyu Hong, Shuiming Li, Yong Wang
JOURNAL OF MOLECULAR NEUROSCIENCE
(2017)
Article
Physics, Atomic, Molecular & Chemical
S. M. Li, H. Wang, X. Y. Hong, L. Wu, J. L. Xu, Y. Wang
INTERNATIONAL JOURNAL OF MASS SPECTROMETRY
(2018)
Article
Biochemistry & Molecular Biology
Hae-Won Chung, E. Nicholas Petersen, Cerrone Cabanos, Keith R. Murphy, Mahmud Arif Pavel, Andrew S. Hansen, William W. Ja, Scott B. Hansen
JOURNAL OF MOLECULAR BIOLOGY
(2019)
Article
Anesthesiology
Mahmud Arif Pavel, Hae-Won Chung, E. Nicholas Petersen, Scott B. Hansen
ANESTHESIA AND ANALGESIA
(2019)
Article
Multidisciplinary Sciences
Mahmud Arif Pavel, E. Nicholas Petersen, Hao Wang, Richard A. Lerner, Scott B. Hansen
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2020)
Letter
Multidisciplinary Sciences
Scott B. Hansen, Richard A. Lerner, Mahmud Arif Pavel, E. Nicholas Petersen
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2020)
Article
Multidisciplinary Sciences
Hao Wang, Joshua A. Kulas, Chao Wang, David M. Holtzman, Heather A. Ferris, Scott B. Hansen
Summary: The study shows that apoE uses astrocyte-derived cholesterol to traffic neuronal APP in and out of lipid clusters, generating A beta peptide. Deletion of astrocyte cholesterol synthesis reduces amyloid and tau burden in a mouse model of AD, indicating that cholesterol is kept low in neurons and astrocytes regulate A beta accumulation through cholesterol signaling.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Biology
Zixuan Yuan, Mahmud Arif Pavel, Hao Wang, Jerome C. Kwachukwu, Sonia Mediouni, Joseph Anthony Jablonski, Kendall W. Nettles, Chakravarthy B. Reddy, Susana T. Valente, Scott B. Hansen
Summary: The study reveals that hydroxychloroquine (HCQ) inhibits the entry of SARS-CoV-2 virus through two distinct mechanisms, which are influenced by tissue cholesterol levels. This finding provides new insights into the potential use of HCQ in clinical settings.
COMMUNICATIONS BIOLOGY
(2022)
Article
Biochemistry & Molecular Biology
Hao Wang, Zixuan Yuan, Mahmud Arif Pavel, Sonia Mediouni Jablonski, Joseph Jablonski, Robert Hobson, Susana Valente, Chakravarthy B. Reddy, Scott B. Hansen
Summary: Increasing the localization of ACE2 near endocytic lipids enhances viral infectivity, shedding light on the selective severity of COVID-19 in aged and diseased populations.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2023)
Article
Microbiology
Peter A. C. M. Wing, Nathalie Schmidt, Rory Peters, Maximilian Erdmann, Rachel Brown, Hao Wang, Leo Swadling, Joseph Newman, Nazia B. Thakur, Kaho Shionoya, Sophie Morgan, Timothy S. C. Hinks, Koichi B. Watashi, Dalan D. Bailey, Scott K. Hansen, Andrew A. Davidson, Mala Maini, Jane McKeating
Summary: The severity of COVID-19 is determined by viral replication kinetics and host immunity, with early T cell responses and suppression of viral load playing a crucial role. Recent studies have found a connection between cholesterol metabolism and the SARS-CoV-2 life cycle and T cell function. This study demonstrates that blocking the enzyme ACAT with Avasimibe inhibits SARS-CoV-2 infection and disrupts viral attachment. It also shows that Avasimibe can limit the formation of replication complexes and boost the expansion of SARS-CoV-2-specific T cells.
Review
Pharmacology & Pharmacy
Scott B. Hansen, Hao Wang
Summary: This article discusses the role of cholesterol in neuroinflammation and its relationship with cognitive function loss.
PHARMACOLOGY & THERAPEUTICS
(2023)
Article
Biochemistry & Molecular Biology
Philipp Grad, Katarina Edwards, Lars Gedda, Victor Agmo Hernandez
Summary: This study investigates the effects of polyethylene glycol-(PEG) modified lipids and gangliosides on the Ca2+ induced interaction between liposomes composed of palmitoyl-oleoyl phosphatidylethanolamine (POPE) and palmitoyl-oleoyl phosphatidylserine (POPS) at physiological ionic strength. The results show that naked liposomes tend to adhere, rupture, and collapse on each other's surfaces upon addition of Ca2+, eventually resulting in the formation of large multilamellar aggregates and bilayer sheets. However, the presence of gangliosides or PEGylated lipids leads to the formation of small, long-lived bilayer fragments/disks. PEGylated lipids seem to be more effective than gangliosides at stabilizing these structures. The study suggests that direct liposome-liposome fusion is not the dominating process triggered by Ca2+ in the systems studied.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Saurabh Saraswat, Archana Chugh
Summary: Cell penetrating peptides (CPP) are important tools for intracellular delivery of molecules. In this study, a novel marine-derived CPP from Engraulis japonicus, called Engraulisin, was reported. Engraulisin demonstrated successful cellular uptake and selective antimicrobial activity against Methicillin-resistant Staphylococcus aureus (MRSA), making it a potential candidate for drug delivery.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Emanuela Efodili, Ashlynn Knight, Maryem Mirza, Cedric Briones, Il-Hyung Lee
Summary: This study demonstrates the spontaneous transfer of small membrane-bound peptides between a supported lipid bilayer and giant unilamellar vesicles in vitro. The transfer occurs through the formation of hemi-fusion stalks and is limited to small peptides due to the highly curved structure of the stalk. This system provides a synthetic platform for studying peptide trafficking between synthetic membranes.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Yueqi Niu, Si Jia Chen, Jeffery B. Klauda
Summary: Macrophage membranes in the activated state are more tightly packed, exhibit increased chain order across lipid species, and form specific lipid clusters. These findings provide physiologically accurate models for future computational studies of macrophage membranes and their proteins.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Niki Baccile, Vincent Chaleix, Ingo Hoffmann
Summary: This study measured the bending rigidity of self-assembled structures formed by a new biobased glucolipid bioamphiphile using neutron spin-echo (NSE) technology. The results showed that the bending rigidity of these structures is lower or higher compared to phospholipid membranes, providing a new theoretical basis for the application of these new molecular systems.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Alain Bolano Alvares, Pablo E. A. Rodriguez, Gerardo D. Fidelio
Summary: The behavior of amphiphilic molecules at the air/water interface was studied to evaluate the arrangement formed in a confined area. The surface properties of zwitterionic DPPC lipid and A beta(1-40) amyloid peptide in mixed films were investigated at different temperatures. DPPC undergoes a phase transition depending on temperature and lateral pressure, which allows for the study of its influence on amyloid structure formation.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Lukasz Plachta, Marzena Mach, Magdalena Kowalska, Pawel Wydro
Summary: Resveratrol, a popular phytoalexin found in grapes and red wine, has beneficial effects on the cardiovascular system, exhibits antiviral, antibacterial, and antifungal properties, and may have therapeutic effects against cancer. This study investigates the interaction of resveratrol with model cell membranes, demonstrating changes in their physicochemical parameters and highlighting the role of cholesterol content in resveratrol incorporation. The findings suggest that the molecular mechanism of action of resveratrol may involve interactions with lipid rafts.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Edurne Rujas, Beatriz Apellaniz, Johana Torralba, David Andreu, Jose M. M. Caaveiro, Shixia Wang, Shan Lu, Jose L. Nieva
Summary: This study investigates the role of fusion peptide and Trp-rich membrane proximal external region in HIV-1 fusion and demonstrates that liposome-based formulations containing FP-MPER hybrid peptides can induce the production of specific neutralizing antibodies in rabbits. The results support the use of liposomes as vaccine carriers and the inclusion of lipid membranes in immunogens to elicit specific humoral responses.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Dailin Li, Dingyuan Shi, Lei Wang
Summary: G protein-gated inwardly rectifying potassium (GIRK) channels play a significant role in regulating cell excitability. This study investigated the ion permeation mechanism in GIRK2 mutants using molecular dynamic simulations and QM/MM methods. The results revealed the importance of a multi-ion distribution for ion conduction.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Max J. den Uijl, Arnold J. M. Driessen
Summary: Membrane protein insertion into and translocation across the bacterial cytoplasmic membrane are essential processes facilitated by the Sec translocon. The phospholipid dependence of membrane protein insertion has remained mostly unknown. This study reveals that the insertion of the mannitol permease MtlA into the membrane depends on the presence of phosphatidylglycerol and is stimulated by phosphatidylethanolamine.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Patrick Allen, Adam C. Smith, Vernon Benedicto, Abbas Abdulhasan, Vasanthy Narayanaswami, Enrico Tapavicza
Summary: We explore the stability, size, and structure of nanodiscs formed by the N-terminal domain of apolipoprotein E3 and a variable number of 1,2-dimyristoyl-sn-glycero-3-phosphocholine molecules. Our simulations suggest that nanodiscs containing 240 to 420 DMPC molecules are stable. The antiparallel configuration shows more protein-protein interactions and ionic contacts, as well as greater stability and rigidity compared to the parallel configuration.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Patrick M. Keating, Nicholas P. Schifano, Xinrui Wei, Matthew Y. Kong, Jinwoo Lee
Summary: Lassa virus (LASV) infection is dependent on the fusion of its viral membrane with the host cell membrane, and our study reveals that this fusion process involves pH-dependent conformational changes in the transmembrane domain of LASV. These findings provide valuable insights into the fusion mechanism of LASV and can be utilized in the design of therapeutics to combat Lassa virus infections and prevent its potential spread.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Ashley L. Bennett, Kristen N. Cranford, Austin L. Bates, Christopher R. Sabatini, Hee-Seung Lee
Summary: This study employed molecular dynamics simulations to elucidate the binding, folding, and insertion details of TP10W in the cell membrane. The simulations revealed that TP10W can translocate across the lipid membrane as a monomer, and the charged amino acid side chains can move between lipid leaflets. Comparison with point mutated variants demonstrated significant conformational changes due to charge distribution.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Article
Biochemistry & Molecular Biology
Jessica H. van Wonderen, Jason C. Crack, Marcus J. Edwards, Thomas A. Clarke, Gerhard Saalbach, Carlo Martins, Julea N. Butt
Summary: Electrogenic bacteria transfer excess respiratory electrons to metal oxide particles and electrodes through the MtrCAB complex. The crystal structure of MtrCAB from S. baltica OS185 was resolved, and liquid chromatography mass spectrometry was used to determine the mass values of the three proteins in purified MtrCAB complexes.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)
Review
Biochemistry & Molecular Biology
Yi-Ming Chen, Ching-Tai Lu, Chia-Wen Wang, Wolfgang B. Fischer
Summary: A series of dye ligands were ranked based on docking experiments, selecting the most suitable ligands for binding with different proteins. Additionally, a comparison study was conducted on a series of repurposing drugs and known antivirals.
BIOCHIMICA ET BIOPHYSICA ACTA-BIOMEMBRANES
(2024)