Article
Biochemistry & Molecular Biology
Sarah M. Smith, Gabrielle Larocque, Katherine M. Wood, Kyle L. Morris, Alan M. Roseman, Richard B. Sessions, Stephen J. Royle, Corinne J. Smith
Summary: The interaction between Clathrin and the AP2 complex plays a crucial role in coated-pit assembly, with a beta 2 appendage able to bind in at least two positions in the clathrin cage. This multi-modal binding is shown to be a fundamental property of clathrin-AP2 interactions.
Article
Multidisciplinary Sciences
Nathan M. Willy, Federico Colombo, Scott Huber, Anna C. Smith, Erienne G. Norton, Comert Kural, Emanuele Cocucci
Summary: The research demonstrates the important role of CALM in the formation of clathrin-coated vesicles, showing that an increase in its level promotes vesicle completion. Variations in adaptor protein expression levels among different cells support the hypothesis that the efficiency of clathrin-mediated endocytosis is tissue-specific.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2021)
Article
Multidisciplinary Sciences
Yuan Tian, Ishara Datta, Rui Yang, Chun Wan, Bing Wang, Lauren Crisman, Huan He, Chad A. Brautigam, Suzhao Li, Jingshi Shen, Qian Yin
Summary: We found that AAGAB exists as a dimer before binding to AP1/2, and its dimerization is mediated by the C-terminal domain. AAGAB uses the same C-terminal domain to recognize and stabilize the subunits in the AP1 and AP2 complexes, forming binary complexes with only one copy of AAGAB.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2023)
Article
Biochemistry & Molecular Biology
Alexander Johnson, Walter A. Kaufmann, Christoph Sommer, Tommaso Costanzo, Dana A. Dahhan, Sebastian Y. Bednarek, Jiri Friml
Summary: Biological systems are made up of dynamic three-dimensional parts. This study introduces novel methods to analyze biological structures and focuses on Arabidopsis clathrin-coated vesicles (CCVs). The methods allow for visualization of CCVs in unroofed cells and biochemical isolated organelles at high resolution, and also provide a deep learning analysis method for screening CCVs in metal replicated samples.
Article
Plant Sciences
Yao Yao, Jihua Zhou, Can Cheng, Fuan Niu, Anpeng Zhang, Bin Sun, Rongjian Tu, Jianing Wan, Yao Li, Yiwen Huang, Kaizhen Xie, Yuting Dai, Hui Zhang, Jing Han Hong, Xiaohua Pan, Jiaojiao Zhu, Hong Zhou, Zhenhua Liu, Liming Cao, Huangwei Chu
Summary: Clathrin-mediated vesicle trafficking (CMVT) is a fundamental process in all eukaryotic species, playing crucial roles in growth and development. Mutation of OsSCYL2 in rice results in light-dependent HR-like cell death and enhanced resistance to bacterial pathogens, revealing a novel component in the regulation of plant immunity.
PLANT CELL AND ENVIRONMENT
(2022)
Article
Biology
Chris Furlan, Nipa Chongdar, Pooja Gupta, Wolfgang Lubitz, Hideaki Ogata, James N. Blaza, James A. Birrell
Summary: Electron bifurcation is a fundamental energy conservation mechanism in nature that allows endergonic reactions to be driven by exergonic ones. In this study, the structure of HydABC, an electron-bifurcating [FeFe] hydrogenase, was determined using electron cryo-microscopy. The structure revealed a heterododecamer with a central electron transfer pathway, providing insights into the mechanism of electron bifurcation in HydABC. Based on these findings, a possible mechanism of electron bifurcation in HydABC was proposed.
Review
Biochemistry & Molecular Biology
Christina M. Zimanyi, Mykhailo Kopylov, Clinton S. Potter, Bridget Carragher, Edward T. Eng
Summary: CryoEM, using frozen hydrated biological specimens, has revolutionized high-resolution structural analysis of biological tissues, with significant impact in biomedical research, particularly in the fields of basic cell, molecular and structural biology, drug discovery, and vaccine development. National and regional centers have accelerated the adoption of best practices and establishment of future research capacity through increased accessibility of cryoEM.
TRENDS IN BIOCHEMICAL SCIENCES
(2022)
Article
Multidisciplinary Sciences
Changsong Yang, Patricia Colosi, Siewert Hugelier, Daniel Zabezhinsky, Melike Lakadamyali, Tatyana Svitkina
Summary: This study reveals that branched actin networks, dependent on the Arp2/3 complex, assemble along the perimeter of clathrin-coated structures (CCSs) and are involved in the process of clathrin-mediated endocytosis (CME) through an edge pushing model. These actin networks promote severing and invagination of flat CCSs in an epsin-dependent manner.
NATURE COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Ryosuke Inoue, Yosuke Fukutani, Tatsuya Niwa, Hiroaki Matsunami, Masafumi Yohda
Summary: Olfactory receptors (ORs) in olfactory sensory neurons mediate olfaction and require the assistance of receptor-transporting proteins (RTPs) for functional expression. This study examined the interactome of RTP1S and OR using proximity biotinylation and revealed the involvement of HSPA6 and STAU2 in the trafficking process of OR through interaction with RTP1S.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biology
Cansu Kuey, Meghane Sittewelle, Gabrielle Larocque, Miguel Hernandez-Gonzalez, Stephen J. Royle
Summary: This study demonstrates that intracellular clathrin-coated vesicle (CCV) formation can be induced using minimal machinery in living cells, and it can occur on various membranes. The study also shows that the formation of these vesicles, called MitoPits, can faithfully recapitulate all stages of CCV formation without the involvement of accessory proteins.
Article
Cell Biology
Chun Wan, Lauren Crisman, Bing Wang, Yuan Tian, Shifeng Wang, Rui Yang, Ishara Datta, Toshifumi Nomura, Suzhao Li, Haijia Yu, Qian Yin, Jingshi Shen
Summary: Reviewers have raised substantial criticisms that prevent immediate acceptance of the paper, but are open to a revised version. Acknowledging potential challenges in making experimental revisions due to lab disruptions, authors are encouraged to discuss revision details with the journal.
JOURNAL OF CELL SCIENCE
(2021)
Article
Developmental Biology
Lisa Redlingshofer, Frances M. Brodsky
Summary: The AP2 adaptor complex plays a central role in regulating clathrin-mediated endocytosis, serving as a key hub for protein interactions beyond cargo recognition and clathrin recruitment. It mediates clathrin coated pit maturation and couples lattice formation to membrane deformation. AP2 complements the attenuating role of clathrin light chain subunits in driving clathrin assembly and dynamic lattice rearrangement for budding.
CELLS & DEVELOPMENT
(2021)
Article
Microbiology
Yoshihiro Ojima, Tomomi Sawabe, Mao Nakagawa, Yuhei O. Tahara, Makoto Miyata, Masayuki Azuma
Summary: The production of OMVs in Delta mlaE Delta nlpI cells increased significantly due to the occurrence of plasmolysis. Additionally, intracellular vesicles and multilamellar OMVs were observed in these cells. The results indicate that cytosolic components in these cells were incorporated into OIMVs and released into the extracellular space.
FRONTIERS IN MICROBIOLOGY
(2021)
Article
Biochemistry & Molecular Biology
Carlos Anton-Plagaro, Noelia Sanchez, Rosario Valle, Jose Miguel Mulet, Mara C. Duncan, Cesar Roncero
Summary: Protein sorting at the trans-Golgi network (TGN) requires the assistance of cargo adaptors. The exomer complex in Saccharomyces cerevisiae plays a significant role in protein sorting, and has an unresolved functional relationship with TGN clathrin adaptors.
Review
Neurosciences
Kate L. Prichard, Nicholas S. O'Brien, Sari R. Murcia, Jennifer R. Baker, Adam McCluskey
Summary: Endocytosis is a crucial process for cell health and signaling, specifically clathrin mediated endocytosis (CME) plays a key role in synaptic vesicle recycling and intracellular communication in the brain. This review focuses on clathrin and dynamin, two proteins involved in CME, and discusses the potential therapeutic interventions and inhibitors for conditions involving defects in CME.
FRONTIERS IN CELLULAR NEUROSCIENCE
(2022)
Article
Chemistry, Analytical
Derrick Lau, James C. Walsh, Claire F. Dickson, Andrew Tuckwell, Jeffrey H. Stear, Dominic J. B. Hunter, Akshay Bhumkar, Vaibhav Shah, Stuart G. Turville, Emma Sierecki, Yann Gambin, Till Bocking, David A. Jacques
Summary: The study developed a fluorescence analysis method using HIV capsid as bait to screen for fluorescence-labeled binding molecules. By using a scanning stage, rapid detection was achieved without compromising sensitivity, providing a new approach for screening potential interactors.
ANALYTICAL CHEMISTRY
(2021)
Article
Virology
Nadishka Jayawardena, Linde A. Miles, Laura N. Burga, Charles Rudin, Matthias Wolf, John T. Poirier, Mihnea Bostina
Summary: Research shows that N-linked glycosylation in ANTXR1 is necessary for SVV attachment and entry, and could be a crucial factor for patient selection in future cancer therapy. Experimental validation indicates the essential role of this glycosylation in establishing stable interactions between SVV and ANTXR1.
Article
Multidisciplinary Sciences
Melissa M. Matthews, Tae Gyun Kim, Satoshi Shibata, Noriko Shibata, Christian Butcher, Jaekyung Hyun, Keon Young Kim, Theodore Robb, Siang Sheng Jheng, Masashi Narita, Tomoari Mori, Mary Collins, Matthias Wolf
Summary: A serological survey was conducted at the Okinawa Institute of Science and Technology Graduate University (OIST) in August 2020 to test for the presence of antibodies against SARS-CoV-2. Using a low-cost finger prick-based capillary blood collection kit and FDA-authorized ELISA protocol, the survey did not find any COVID-19 seropositive individuals among the OIST cohort, while reliably detecting positive control samples from a local hospital. This method demonstrated high serum antibody titers persisting for over 9 months post infection and showed promise for reliable seroprevalence assessment in larger populations.
SCIENTIFIC REPORTS
(2021)
Article
Biology
Bronwyn A. Lucas, Benjamin A. Himes, Liang Xue, Timothy Grant, Julia Mahamid, Nikolaus Grigorieff
Summary: The study emphasizes the importance of understanding molecular mechanisms within the broader context of the cell and introduces a 2D template matching method to address technical limitations. By implementing GPU acceleration in the cisTEM software, the approach becomes more scalable and accessible. Experimental results demonstrate that 2D template matching is a versatile tool for in situ visual proteomics and in situ structure determination, showcasing its precision and sensitivity in identifying molecular complexes.
Article
Biology
Masahiro Nakano, Yukihiko Sugita, Noriyuki Kodera, Sho Miyamoto, Yukiko Muramoto, Matthias Wolf, Takeshi Noda
Summary: Nakano et al. utilize high-speed AFM and cryo-EM to investigate the structure of influenza A virus vRNPs during RNA synthesis, revealing two distinct types of vRNP structures associated with newly synthesized RNAs: an intact, helical structure and a deformed structure.
COMMUNICATIONS BIOLOGY
(2021)
Article
Chemistry, Physical
Guillaume Longatte, Fabio Lisi, Padmavathy Bakthavathsalam, Till Bocking, Katharina Gaus, Richard D. Tilley, J. Justin Gooding
Summary: The study presents a theoretical model for investigating the influence of confinement on biomolecular binding at the single-molecule scale. It is found that the impact of confinement highly depends on the molecular structure and is significant for large molecules relative to the size of the container.
Review
Biophysics
Margaret J. Zhang, Jeffrey H. Stear, David A. Jacques, Till Bocking
Summary: This review explores the limitations in our understanding of the uncoating process of HIV and presents recently developed techniques that aim to understand the mechanisms behind this essential aspect of HIV infection.
BIOPHYSICAL REVIEWS
(2022)
Article
Chemistry, Multidisciplinary
James W. P. Brown, Rokiah G. Alford, James C. Walsh, Richard E. Spinney, Stephanie Y. Xu, Sophie Hertel, Jonathan F. Berengut, Lisanne M. Spenkelink, Antoine M. van Oijen, Till Bocking, Richard G. Morris, Lawrence K. Lee
Summary: By utilizing multivalent interactions to form stable DNA origami receptors capable of rapid subunit exchange, this study is expected to benefit future research in utilizing DNA origami structures for a wide range of possible kinetic behaviors.
Article
Biochemistry & Molecular Biology
Bronte A. Johnstone, Riya Joseph, Michelle P. Christie, Craig J. Morton, Conall McGuiness, James C. Walsh, Till Bocking, Rodney K. Tweten, Michael W. Parker
Summary: This review provides an overview of the characteristics and molecular mechanisms of cholesterol-dependent cytolysins (CDCs), and highlights the key questions that still need to be answered in order to better understand how these toxins kill cells.
Article
Biochemistry & Molecular Biology
Sunnie M. Yoh, Joao Mamede, Derrick Lau, Narae Ahn, Maria T. Sanchez-Aparicio, Joshua Temple, Andrew Tuckwell, Nina Fuchs, Gianguido C. Cianci, Laura Riva, Heather Curry, Xin Yin, Stephanie Gambut, Lacy M. Simons, Judd F. Hultquist, Renate Koenig, Yong Xiong, Adolfo Garcia-Sastre, Till Bocking, Thomas J. Hope, Sumit K. Chanda
Summary: This study reveals a two-factor authentication strategy by the innate surveillance machinery to selectively respond to low concentration of HIV-1 DNA, using the decoration of PQBP1 on the viral capsid and the recruitment of cGAS.
Article
Biology
Conall Mc Guinness, James C. Walsh, Charles Bayly-Jones, Michelle A. Dunstone, Michelle P. Christie, Craig J. Morton, Michael W. Parker, Till Bocking
Summary: This study investigates the assembly process of PFO in forming ring-shaped pores through single-molecule fluorescence imaging. The results show that the formation of PFO dimers promotes the growth of irreversible oligomers, and the insertion of oligomers and pore formation are influenced by the number of subunits.
Article
Microbiology
Lorena Zuliani-Alvarez, Morten L. Govasli, Jane Rasaiyaah, Chris Monit, Stephen O. Perry, Rebecca P. Sumner, Simon McAlpine-Scott, Claire Dickson, K. M. Rifat Faysal, Laura Hilditch, Richard J. Miles, Frederic Bibollet-Ruche, Beatrice H. Hahn, Till Boecking, Nikos Pinotsis, Leo C. James, David A. Jacques, Greg J. Towers
Summary: Innate immune evasion is crucial for the evolution of the pandemic lineage of HIV. The pandemic HIV-1(M) exhibits better replication and evasion of immune response compared to non-pandemic HIV strains.
NATURE MICROBIOLOGY
(2022)
Article
Dentistry, Oral Surgery & Medicine
Yuko Sasaki, Mikio Shoji, Takayuki Sueyoshi, Satoshi Shibata, Takehiro Matsuo, Hideharu Yukitake, Matthias Wolf, Mariko Naito
Summary: By using the Tet-on system, we established a conditional gene expression system in Porphyromonas gingivalis and successfully demonstrated the functionality of lipoprotein export signal in FimA and the effect of a proton motive force inhibitor on type 9 protein export.
MOLECULAR ORAL MICROBIOLOGY
(2023)
Article
Biology
Derrick Lau, Chantal L. Marquez, Michael W. Parker, Till Bocking
Summary: This study provides a protocol for permeabilizing the membrane of HIV-1 particles using a pore-forming toxin for negative staining of capsids, which are stabilized with inositol hexakisphosphate to prevent premature capsid disassembly. This approach reveals the pleomorphic nature of capsids with a partially intact membrane surrounding them.
Article
Chemistry, Physical
Guillaume Longatte, Fabio Lisi, Xueqian Chen, James Walsh, Wenqian Wang, Nicholas Ariotti, Till Boecking, Katharina Gaus, J. Justin Gooding
Summary: Single molecule experiments have gained significant attention recently. Many of these studies involve encapsulating a single molecule into nanoscale containers. The encapsulation efficiency of single molecules is an important parameter to consider, and previous theories have focused on encapsulating single molecules into perfectly sized monodispersed containers. However, experimental nanocontainers often have a size distribution and may require encapsulating a single binding pair instead of a single molecule. This study extends the Poisson distribution theory to predict the encapsulation efficiency of two different molecules in an association equilibrium, taking into account the container size distribution and the effect of adsorption to the container.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2022)