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Danos, V.

Publications and source records attributed to Danos, V..

2 recordsLinked to original sources

Stochasticity of cellular growth: sources, propagation and consequences

Cellular growth impacts a range of phenotypic responses. Identifying the sources of fluctuations in growth and how they propagate across the cellular machinery can unravel mechanisms that underpin cell decisions. We present a stochastic cell model linking gene expression, metabolism and replication to predict growth dynamics in single bacterial cells. In addition to several population-averaged data, the model quantitatively recovers how growth fluctuations in single cells change across nutrient conditions. We develop a framework to analyse stochastic chemical reactions coupled with cell divisions and use it to identify sources of growth heterogeneity. By visualising cross-correlations we then determine how such initial fluctuations propagate to growth rate and affect other cell processes. We further study antibiotic responses and find that complex drug-nutrient interactions can both enhance and suppress heterogeneity. Our results provide a predictive framework to integrate single-cell and bulk data and draw testable predictions with implications for antibiotic tolerance, evolutionary biology and synthetic biology.

systems biology

Organoid And Tissue Patterning Through Phase Separation: Use Of A Vertex Model To Relate Dynamics Of Patterning To Underlying Biophysical Parameters

AO_SCPLOWBSTRACTC_SCPLOWExactly a century ago, DArcy Thompson set an agenda for understanding tissue development in terms of underlying biophysical, mathematically-tractable mechanisms. One such mechanism, discovered by Steinberg in the 1960s, is adhesion-mediated sorting of cell mixtures into homotypic groups. Interest in this phase separation mechanism has recently surged, partly because of its use to create synthetic biological patterning mechanisms and partly because it has been found to drive events critical to the formation of organoids from stem cells, making the process relevant to biotechnology as well as to basic development. Here, we construct quantitative model of patterning by phase separation, informed by laboratory data, and use it to explore the relationship between degree of adhesive difference and speed, type and extent of resultant patterning. Our results can be used three ways; to predict the outcome of mix-ing cells with known properties, to estimate the properties required to make some designed organoid system, or to estimate underlying cellular properties from observed behaviour.

developmental biology