ArticleNature methods2020
Time-resolved imaging-based CRISPRi screening.
Article in Nature methods, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
53 citing papers in PubMed, 89 citations in OpenAlex.
- Engineering Bacillus Subtilis for Efficient Biosynthesis of Riboflavin: Current Knowledge and Future Perspectives.Applied biochemistry and biotechnology · 2026Review
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- Extremal events dictate population growth rate inference.PLoS computational biology · 2026Article
- Molecular kinetics dictate population dynamics in CRISPR-based plasmid defense.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
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- Essentialome-Wide Multigenerational Imaging Reveals Mechanistic Origins of Cell Growth Laws.bioRxiv : the preprint server for biology · 2025Article
- AI-powered high-throughput digital colony picker platform for sorting microbial strains by multi-modal phenotypes.Nature communications · 2025Article
- Culture-free detection of bacteria from blood for rapid sepsis diagnosis.NPJ digital medicine · 2025Article
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- Pooled optical screening in bacteria using chromosomally expressed barcodes.Communications biology · 2025Article
- Phenotypic drug susceptibility testing for Mycobacterium tuberculosis variant bovis BCG in 12 hours.Nature communications · 2025Article
- Perturb-tracing enables high-content screening of multi-scale 3D genome regulators.Nature methods · 2025Article
- A platform for multimodalbioRxiv : the preprint server for biology · 2025Article
- Three-dimensional localization and tracking of chromosomal loci throughout the Escherichia coli cell cycle.Communications biology · 2024Article
- The rise and future of CRISPR-based approaches for high-throughput genomics.FEMS microbiology reviews · 2024Review
- The Escherichia coli chromosome moves to the replisome.Nature communications · 2024Article
- Emerging tools for uncovering genetic and transcriptomic heterogeneities in bacteria.Biophysical reviews · 2024Review
- Application of functional genomics for domestication of novel non-model microbes.Journal of industrial microbiology & biotechnology · 2024Review
- High-throughput functional genomics: A (myco)bacterial perspective.Molecular microbiology · 2023Review
Corrections and comments
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Authors and funding
7 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Our ability to connect genotypic variation to biologically important phenotypes has been seriously limited by the gap between live-cell microscopy and library-scale genomic engineering. Here, we show how in situ genotyping of a library of strains after time-lapse imaging in a microfluidic device overcomes this problem. We determine how 235 different CRISPR interference knockdowns impact the coordination of the replication and division cycles of Escherichia coli by monitoring the location of replication forks throughout on average >500 cell cycles per knockdown. Subsequent in situ genotyping allows us to map each phenotype distribution to a specific genetic perturbation to determine which genes are important for cell cycle control. The single-cell time-resolved assay allows us to determine the distribution of single-cell growth rates, cell division sizes and replication initiation volumes. The technology presented in this study enables genome-scale screens of most live-cell microscopy assays.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.