Advanced Electron Microscopy Techniques and Applications

MagIC-Cryo-EM: Structural determination on magnetic beads for scarce macromolecules in heterogeneous samples

The paper introduces MagIC-cryo-EM, a technique that enables structural analysis of scarce macromolecules in heterogeneous samples with lower concentration requirements, and applies it to study H1.8-associated nucleosomes.

Ensemble Refinement of mismodeled cryo-EM RNA Structures Using All-Atom Simulations

The paper refines cryo-EM RNA structures using all-atom simulations and metainference to account for structural flexibility, revealing inaccuracies in single-structure approaches.

Matters arising: Forced Symmetry Artifacts in a Prohibitin Complex Structure

The paper challenges a previously proposed structure of the prohibitin complex by showing that symmetry assumptions led to incorrect modeling of an asymmetric conformation.

Contextual High-throughput 3D Volume Electron Microscopy Data Acquisition Using Artificial Intelligence

The paper introduces an AI-driven method to improve 3D volume electron microscopy data acquisition by dynamically adjusting resolution, reducing acquisition time across various organisms and tissues.

CoVET: Cryo-Electron Tomography guided by optical electrophysiology

The paper develops CoVET, a technique correlating electrophysiological properties with cryo-ET to analyze neuronal molecular structures and translational landscapes.

Uromodulin velcro sheets and their interaction with uropathogenic E. coli

The paper shows Uromodulin forms salt-dependent velcro-like sheets that interact with UPEC pili, revealing structural mechanisms for UTI protection.

Evaluating ultrastructural preservation quality in banked brain tissue

The paper evaluates ultrastructural preservation quality in postmortem brain tissue using EM and light microscopy to identify artifacts and assess their impact on research applications.

Quantitative Spatial Analysis of Chromatin Biomolecular Condensates using Cryo-Electron Tomography

The paper develops methods to analyze chromatin condensates using cryo-electron tomography and deep learning, revealing nucleosome structures and interactions in both reconstituted and native systems.

Liposome Encapsulation Enables Near-Native Cryo-EM Structural Determination by Shielding Macromolecules from Non-Physiological Interfaces

This paper introduces a method using liposome encapsulation to improve cryo-EM structural determination by preserving macromolecules in a near-native environment, reducing disassembly and orientation artifacts.

pytom-match-pick: a tophat-transform constraint for automated classification in template matching

pytom-match-pick improves template matching in cryo-ET by reducing false positives and enhancing macromolecule detection through PSF weighting and tophat transform techniques.

Recovering high-resolution information using energy filtering in MicroED

This study shows energy filtering in MicroED improves data quality by reducing noise, sharpening Bragg peaks, and recovering high-resolution information despite increased radiation damage.

Cryo-ET of actin cytoskeleton and membrane structure in lamellipodia formation using optogenetics

The paper uses optogenetics and cryo-ET to visualize actin cytoskeleton dynamics during lamellipodia formation, revealing distinct structural phases and actin turnover mechanisms.

MotorBench: A Cryo-Electron Tomography Dataset of Bacterial Flagellar Motors for Testing Detection Algorithms

The paper introduces MotorBench, a dataset of bacterial flagellar motors for testing automated detection algorithms in cryo-ET.

Real-space heterogeneous reconstruction, refinement, and disentanglement of CryoEM conformational states with HetSIREN

HetSIREN is a deep learning method for CryoEM conformational state reconstruction and refinement, improving structural accuracy by decoupling pose and CTF information from conformational landscapes.

A toolkit to characterize protein polymerization from cryo-electron tomography data

The paper introduces a MATLAB script package for unbiased analysis of protein polymerization from cryo-ET data, demonstrating its application to Rubisco in -carboxysomes.

Chronobot: Deep learning guided time-resolved cryo-EM captures molecular choreography of RecA in homology search

Chronobot improves cryo-EM sample quality by 11-fold using deep learning for ice thickness quantification, enabling visualization of transient RecA-dsDNA intermediates during homology search.

Mapping the ultrastructural topology of the corynebacterial cell surface

This study maps the ultrastructural topology of the corynebacterial cell surface using electron cryotomography and single particle cryomicroscopy, revealing the S-layer composition and its evolutionary uniqueness.

Preparation of oxygen-sensitive proteins for high-resolution cryoEM structure determination using (an)aerobic blot-free vitrification

This paper presents a streamlined method for (an)aerobic vitrification of oxygen-sensitive proteins using an automated device, enabling high-resolution cryoEM structure determination.

Unifying the Electron Microscopy Multiverse through a Large-scale Foundation Model

This paper introduces EM-DINO and OmniEM, a foundation model and architecture for EM image analysis, improving restoration and segmentation across diverse datasets.

AutoLEI: An XDS-based Graphical User Interface for Automated Real-time and Offline Batch 3D ED/MicroED Data Processing

AutoLEI provides a GUI for automated real-time and offline batch processing of 3D ED/MicroED data, improving efficiency and reducing redundant work.

High-resolution Cryo-EM visualises hydrated type I and IV pilus structures from enterotoxigenic Escherichia coli

This study uses cryo-EM to determine high-resolution structures of type I and IV pili from enterotoxigenic Escherichia coli, revealing subunit interactions and hydrated water molecules.

VP-CLEM-Kit: An accessible pipeline for visual proteomics using super resolution volume correlative light and electron microscopy (SR-vCLEM)

The paper introduces VP-CLEM-Kit, a cost-effective SR-vCLEM pipeline for visual proteomics, achieving 5-fold resolution improvement at 7-fold lower cost.

Correlative light and electron microscopy for human brain and other biological models

This paper provides a protocol for correlative light and electron microscopy (CLEM) optimized for analyzing human brain tissue, enabling detailed ultrastructural analysis and characterization of subcellular features.

Counting particles could give wrong probabilities in Cryo-Electron Microscopy

The paper warns that counting particle images in cryo-EM can lead to biased estimates of conformational state populations due to noise and orientation uncertainty, and suggests using full image datasets for more accurate modeling.

Structure of the lens MP20 mediated adhesive junction

This study determines the structure of MP20, a lens membrane protein, revealing its tetrameric assembly and adhesive function in forming thin junctions essential for lens transparency.

Serendipity and the slime mold: a visual survey of megadalton protein assemblies reveals the structure of the polyketide synthase Pks16

This study uses shotgun-EM to identify and characterize three protein complexes, including the first experimentally determined structure of Pks16 in D. discoideum.

Complex Water Networks Visualized through 2.2-2.3 Angstrom Cryogenic Electron Microscopy of RNA

Two Tetrahymena ribozyme cryo-EM maps (2.2 and 2.3 Å) reveal cross-validated ordered waters and Mg2+ ions, plus reproducible diffuse solvent density resembling molecular dynamics water networks.

Uncovering synaptic and cellular nanoarchitecture of brain tissue via seamless in situ trimming and milling for cryo-electron tomography

This paper introduces SISTM to map 3D synaptic nanoarchitecture in brain tissue across species using cryo-ET and STA, revealing conserved structural features in human postmortem tissue.

Xenon plasma focused ion beam lamella fabrication on high-pressure frozen specimens for structural cell biology

This paper demonstrates xenon plasma focused ion beam milling for preparing high-pressure frozen specimens, achieving a 4.0 Å E. coli ribosome structure with minimal structural damage beyond 45 nm.

Energy filtering enables macromolecular MicroED data at sub-atomic resolution

This study shows that energy filtering improves MicroED data quality, enabling sub-atomic resolution and better structure modeling of proteinase K crystals.