Related papers: Extending the Monod Model of Microbial Growth with…
Metabolism and evolution are closely connected: if a mutation incurs extra energetic costs for an organism, there is a baseline selective disadvantage that may or may not be compensated for by other adaptive effects. A long-standing, but to…
Most cells possess the capacity to locomote. Alone or collectively, this allows them to adapt, to rearrange, and to explore their surroundings. The biophysical characterization of such motile processes, in health and disease, has so far…
The marine microbial food web plays a central role in the global carbon cycle. Our mechanistic understanding of the ocean, however, is biased towards its larger constituents, while rates and biomass fluxes in the microbial food web are…
How morphogenesis depends on cell properties is an active direction of research. Here, we focus on mechanical models of growing plant tissues, where microscopic (sub)cellular structure is taken into account. In order to establish links…
A major challenge in plant developmental biology is to understand how plant growth is coordinated by interacting hormones and genes. To meet this challenge, it is important to not only use experimental data, but also formulate a…
Nutrient limitation is one of the most common triggers of antibiotic tolerance and persistence. Here, we present two microfluidic setups to study how spatial and temporal variation in nutrient availability lead to increased survival of…
Organisms adapt to volatile environments by integrating sensory information with internal memory, yet their information processing is constrained by resource limitations. Such limitations can fundamentally alter optimal estimation…
Flow cytometry is a valuable technique that measures the optical properties of particles at a single-cell resolution. When deployed in the ocean, flow cytometry allows oceanographers to study different types of photosynthetic microbes…
Dense Associative Memories or modern Hopfield networks permit storage and reliable retrieval of an exponentially large (in the dimension of feature space) number of memories. At the same time, their naive implementation is non-biological,…
Active systems across scales, ranging from molecular machines to human crowds, are usually modeled as assemblies of self-propelled particles driven by internally generated forces. However, these models often assume memoryless dynamics and…
Models of tissue growth are now well established, in particular in relation to their applications to cancer. They describe the dynamics of cells subject to motion resulting from a pressure gradient generated by the death and birth of cells,…
Adaptation to changing environments is a universal feature of life and can involve the organism modifying itself in response to the environment as well as actively modifying the environment to control selection pressures. The latter case…
In this paper, a single population model with memory effect and the heterogeneity of the environment, equipped with the Neumann boundary, is considered. The global existence of a spatial nonhomogeneous steady state is proved by the method…
Experimental and empirical observations on cell metabolism cannot be understood as a whole without their integration into a consistent systematic framework. However, the characterization of metabolic flux phenotypes is typically reduced to…
Cellular Potts models are broadly applied across developmental biology and cancer research. We overcome limitations of the traditional approach, which reinterprets a modified Metropolis sampling as ad hoc dynamics, by introducing a physical…
We formulate general plant-herbivore interaction models with monotone plant growth functions (rates). We study the impact of monotone plant growth functions in general plant-herbivore models on their dynamics. Our study shows that all…
We address a novel approach for stochastic individual-based modelling of a single species population. Individuals are distinguished by their remaining lifetimes, which are regulated by the interplay between the inexorable running of time…
Bloom filters are widely used data structures that compactly represent sets of elements. Querying a Bloom filter reveals if an element is not included in the underlying set or is included with a certain error rate. This membership testing…
We revisit the modeling of the diauxic growth of a pure microorganism on two distinct sugars which was first described by Monod. Most available models are deterministic and make the assumption that all cells of the microbial ecosystem…
The characterisation of the spatial and temporal distribution of the root system in a cultivated field depends on the soil volume occupied by the root systems (the scatter), and the local intensity of the root colonisation in the field (the…