A versatile automated pipeline for quantifying virus infectivity by label-free light microscopy and artificial intelligence

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: June 15, 2024

Abstract Virus infectivity is traditionally determined by endpoint titration in cell cultures, and requires complex processing steps human annotation. Here we developed an artificial intelligence (AI)-powered automated framework for ready detection of virus-induced cytopathic effect (DVICE). DVICE uses the convolutional neural network EfficientNet-B0 transmitted light microscopy images infected including coronavirus, influenza virus, rhinovirus, herpes simplex vaccinia adenovirus. robustly measures effects (CPE), as shown class activation mapping. Leave-one-out cross-validation different types demonstrates high accuracy viruses, SARS-CoV-2 saliva. Strikingly, exhibits virus specificity, with adenovirus, herpesvirus, SARS-CoV-2. In sum, provides unbiased scores infectious agents causing CPE, can be adapted to laboratory diagnostics, drug screening, serum neutralization or clinical samples.

Language: Английский

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Imaging analysis of adenovirus particles during the cell entry and intracellular trafficking

Elsevier eBooks, Journal Year: 2025, Volume and Issue: unknown, P. 501 - 544

Published: Jan. 1, 2025

Language: Английский

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Machine learning for cross-scale microscopy of viruses

Cell Reports Methods, Journal Year: 2023, Volume and Issue: 3(9), P. 100557 - 100557

Published: Aug. 17, 2023

Despite advances in virological sciences and antiviral research, viruses continue to emerge, circulate, threaten public health. We still lack a comprehensive understanding of how cells individuals remain susceptible infectious agents. This deficiency is part due the complexity viruses, including cell states controlling virus-host interactions. Microscopy samples distinct cellular infection stages multi-parametric, time-resolved manner at molecular resolution increasingly enhanced by machine learning deep learning. Here we discuss state-of-the-art artificial intelligence (AI) augments light electron microscopy research cells. describe current procedures for image denoising, object segmentation, tracking, classification, super-resolution showcase examples AI has improved acquisition analyses data. The power AI-enhanced will help unravel virus mechanisms, develop agents, improve viral vectors.

Language: Английский

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Spatiotemporal visualization of DNA replication by click chemistry reveals bubbling of viral DNA in virion formation

bioRxiv (Cold Spring Harbor Laboratory), Journal Year: 2024, Volume and Issue: unknown

Published: Jan. 16, 2024

Abstract The organisation of human chromosomes reversibly changes in cell division, and irreversibly apoptosis or erythropoiesis by DNA condensation fragmentation processes. Yet, how viral replication the nucleus affects host chromatin remains poorly understood. Here we used dual-color click chemistry to image adenovirus replication, demonstrating compaction during active expansion compartment (VRC). Early-replicated (vDNA) segregated from VRC lost phospho-serine5-RNA Pol-II DNA-binding protein (DBP), while late-replicated vDNA retained RNA Pol-II, besides RNA-splicing DNA-packaging proteins. Depending on assembly 52K, late-stage VRCs gave rise progeny droplet formation with GFP-tagged virion V into 52K biomolecular condensates. study reveals distinct functions early provides insight passive liquid phase separated zones conducive selective genome packaging nascent virions.

Language: Английский

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Automated Dynamic Inlet Microfluidics System: Cost-effective Biaxial Nanoliter Droplet on Demand Generation Platform and Its Application in Agglutination Assays

Lab on a Chip, Journal Year: 2024, Volume and Issue: unknown

Published: Jan. 1, 2024

The paper presents a Prusa Mini+ 3D printer's adaptation for lab-in-tubing system with an integration of printed modules, capable producing varied monodispersed droplets from multiple Eppendorf tubes desired volumes and frequency.

Language: Английский

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Seeing beyond Labels: Optical Technologies Reshaping Cell Culture Monitoring in Biomedicine

ACS Applied Engineering Materials, Journal Year: 2024, Volume and Issue: unknown

Published: Dec. 4, 2024

Language: Английский

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