ArticleCell systems2018
Spatially Correlated Gene Expression in Bacterial Groups: The Role of Lineage History, Spatial Gradients, and Cell-Cell Interactions.
Article in Cell systems, 2018. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers, 1 of them a synthesis that pooled it.
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
41 citing papers in PubMed, 1 synthesis or guideline pooled it, 89 citations in OpenAlex.
- Guideline
- Host Prior Exposure Augments Gene Expression Heterogeneity of Both Host and Pathogen During In Vivo Infection.Molecular ecology · 2026Article
- Spatial structure: shaping the ecology and evolution of microbial communities.FEMS microbiology reviews · 2026Review
- Host prior exposure augments heterogeneity in gene expression in both host and pathogen duringbioRxiv : the preprint server for biology · 2025Article
- Cell-TRACTR: A transformer-based model for end-to-end segmentation and tracking of cells.PLoS computational biology · 2025Article
- Pseudomonas syringae subpopulations cooperate by coordinating flagellar and type III secretion spatiotemporal dynamics to facilitate plant infection.Nature microbiology · 2025Article
- Disentangling the feedback loops driving spatial patterning in microbial communities.NPJ biofilms and microbiomes · 2025Review
- Deconvolution and inference of spatial communication through optimization algorithm for spatial transcriptomics.Communications biology · 2025Article
- Diversification of single-cell growth dynamics under starvation influences subsequent reproduction in a clonal bacterial population.The ISME journal · 2025Article
- Proteomic profiling ofTurkish journal of biology = Turk biyoloji dergisi · 2025Article
- Single-cell phenotypic profiling and backtracing exposes and predicts clinically relevant subpopulations in isogenic Staphylococcus aureus communities.Communications biology · 2024Article
- Large field of view and spatial region of interest transcriptomics in fixed tissue.Communications biology · 2024Article
- Integrated multi-omics with machine learning to uncover the intricacies of kidney disease.Briefings in bioinformatics · 2024Review
- Single-cell level LasR-mediated quorum sensing response of Pseudomonas aeruginosa to pulses of signal molecules.Scientific reports · 2024Article
- Single-cell RNA sequencing reveals plasmid constrains bacterial population heterogeneity and identifies a non-conjugating subpopulation.Nature communications · 2024Article
- Quantitative microbiology with widefield microscopy: navigating optical artefacts for accurate interpretations.Npj imaging · 2024Article
- Mapping the topography of spatial gene expression with interpretable deep learning.bioRxiv : the preprint server for biology · 2023Article
- Tracking bacteria at high density with FAST, the Feature-Assisted Segmenter/Tracker.PLoS computational biology · 2023Article
- Spatial biology of Ising-like synthetic genetic networks.BMC biology · 2023Article
- Phenotypic heterogeneity in the bacterial oxidative stress response is driven by cell-cell interactions.Cell reports · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
6 authors at 3 institutions in 2 countries.
Funding
Abstract
Gene expression levels in clonal bacterial groups have been found to be spatially correlated. These correlations can partly be explained by the shared lineage history of nearby cells, although they could also arise from local cell-cell interactions. Here, we present a quantitative framework that allows us to disentangle the contributions of lineage history, long-range spatial gradients, and local cell-cell interactions to spatial correlations in gene expression. We study pathways involved in toxin production, SOS stress response, and metabolism in Escherichia coli microcolonies and find for all pathways that shared lineage history is the main cause of spatial correlations in gene expression levels. However, long-range spatial gradients and local cell-cell interactions also contributed to spatial correlations in SOS response, amino acid biosynthesis, and overall metabolic activity. Together, our data show that the phenotype of a cell is influenced by its lineage history and population context, raising the question of whether bacteria can arrange their activities in space to perform functions they cannot achieve alone.
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Identifiers
What Socratic holds
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 Socratic graph.