ArticleNature communications2019
Experimental and computational analyses reveal that environmental restrictions shape HIV-1 spread in 3D cultures.
Article in Nature communications, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 42 papers.
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Who cites it
42 citing papers in PubMed.
- A tissue-intrinsic mechanism sensitizes HIV-1 particles for TLR-triggered innate immune responses.Nature communications · 2026Article
- Multimodal data integration to determine viral and innate immune kinetics in human airway epithelium.PLoS computational biology · 2026Article
- Simulation-based inference of cell migration dynamics in complex spatial environments.NPJ systems biology and applications · 2026Article
- Spatially structured models of viral dynamics: a scoping review.Microbiology and molecular biology reviews : MMBR · 2025Article
- Partially-functional exhausted CD8+ T cells can contribute to short-term viral suppression: a computational prediction for children with perinatal HIV.bioRxiv : the preprint server for biology · 2025Article
- Intracellular and extracellular dynamics of herpes simplex virus 1 DNA and infectious particles in epithelial and neuronal cells.bioRxiv : the preprint server for biology · 2025Article
- Bottom-up synthetic immunology.Nature nanotechnology · 2024Review
- Spatial information allows inference of the prevalence of direct cell-to-cell viral infection.PLoS computational biology · 2024Article
- 3D human tissue models and microphysiological systems for HIV and related comorbidities.Trends in biotechnology · 2024Review
- Beyond Impairment of Virion Infectivity: New Activities of the Anti-HIV Host Cell Factor SERINC5.Viruses · 2024Review
- A wall-time minimizing parallelization strategy for approximate Bayesian computation.PloS one · 2024Article
- FitMultiCell: simulating and parameterizing computational models of multi-scale and multi-cellular processes.Bioinformatics (Oxford, England) · 2023Article
- Endosomal egress and intercellular transmission of hepatic ApoE-containing lipoproteins and its exploitation by the hepatitis C virus.PLoS pathogens · 2023Article
- Tissue-like environments shape functional interactions of HIV-1 with immature dendritic cells.EMBO reports · 2023Article
- Design and Development of Extracellular Matrix Protein-Based Microcapsules as Tools for Bacteria Investigation.Advanced healthcare materials · 2023Article
- 3D engineered tissue models for studying human-specific infectious viral diseases.Bioactive materials · 2023Review
- Hydrogel-based 3D human iPSC-derived neuronal culture for the study of rabies virus infection.Frontiers in cellular and infection microbiology · 2023Article
- A Novel Airway-Organoid Model Based on a Nano-Self-Assembling Peptide: Construction and Application in Adenovirus Infection Studies.International journal of nanomedicine · 2023Article
- Three-dimensional models of the cervicovaginal epithelia to study host-microbiome interactions and sexually transmitted infections.Pathogens and disease · 2022Article
- High resolution microfluidic assay and probabilistic modeling reveal cooperation between T cells in tumor killing.Nature communications · 2022Article
Corrections and comments
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Authors and funding
15 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pathogens face varying microenvironments in vivo, but suitable experimental systems and analysis tools to dissect how three-dimensional (3D) tissue environments impact pathogen spread are lacking. Here we develop an Integrative method to Study Pathogen spread by Experiment and Computation within Tissue-like 3D cultures (INSPECT-3D), combining quantification of pathogen replication with imaging to study single-cell and cell population dynamics. We apply INSPECT-3D to analyze HIV-1 spread between primary human CD4 T-lymphocytes using collagen as tissue-like 3D-scaffold. Measurements of virus replication, infectivity, diffusion, cellular motility and interactions are combined by mathematical analyses into an integrated spatial infection model to estimate parameters governing HIV-1 spread. This reveals that environmental restrictions limit infection by cell-free virions but promote cell-associated HIV-1 transmission. Experimental validation identifies cell motility and density as essential determinants of efficacy and mode of HIV-1 spread in 3D. INSPECT-3D represents an adaptable method for quantitative time-resolved analyses of 3D pathogen spread.
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