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Large-scale perturbations in the microbiome constitution are strongly correlated, whether as a driver or a consequence, with the health and functioning of human physiology. However, understanding the difference in the microbiome profiles of…
Spatially explicit models have been widely used in today's mathematical ecology and epidemiology to study persistence and extinction of populations as well as their spatial patterns. Here we extend the earlier work--static dispersal between…
New observations are opening the possibility of characterising habitable environments in exoplanetary systems, with the recent example of the candidate hycean world K2-18 b. This motivates an exploration of the possible ecological…
The spreading of evolutionary novelties across populations is the central element of adaptation. Unless population are well-mixed (like bacteria in a shaken test tube), the spreading dynamics not only depends on fitness differences but also…
Ecological networks are theoretical abstractions that represent ecological communities. These networks are usually defined as static entities, in which the occurrence of a particular interaction between species is considered fixed despite…
In spatially distributed cellular systems, it is often convenient to represent complicated auxiliary pathways and spatial transport by time-delayed reaction rates. Furthermore, many of the reactants appear in low numbers necessitating a…
We develop a trait-based model founded on the hypothesis that biological systems evolve and organize to maximize entropy production by dissipating chemical and electromagnetic potentials over longer time scales than abiotic processes by…
We develop a set of equations to describe the population dynamics of many interacting species in food webs. Predator-prey interactions are non-linear, and are based on ratio-dependent functional responses. The equations account for…
Methods for predicting the probability and timing of a species' extinction are typically based on a combination of theoretical models and empirical data, and focus on single species population dynamics. Of course, species also interact with…
This study explores the application of elongated particle interaction models, traditionally used in liquid crystal phase research, in the context of early bacterial biofilm development. Through computer simulations using an agent-based…
Estimation of division and death rates of lymphocytes in different conditions is vital for quantitative understanding of the immune system. Deuterium, in the form of deuterated glucose or heavy water, can be used to measure rates of…
Seed formation is part of the reproductive cycle, leading to the accumulation of resistance stages that can withstand harsh environmental conditions for long periods of time. At the community level, multiple species with such long-lasting…
We investigate evolutionary dynamics related to periodicity fossil biodiversity. Coherent periodic fluctuation in origination/extinction of marine genera that survive <45 million years is the source of an observed ~62 million year…
A novel mathematical framework is proposed to describe the ecological and evolutionary consequences of consumer--resource interactions. Both the consumer and resource are assumed to consist of several (sub)species, which interact between…
Infectious disease dynamics operate across multiple biological scales, with within-host viral dynamics being a key driver of between-host transmission. However, while models that explicitly link these scales exist, none have been developed…
At Alife VI, Mark Bedau proposed some evolutionary statistics as a means of classifying different evolutionary systems. Ecolab, whilst not an artificial life system, is a model of an evolving ecology that has advantages of mathematical…
Populations of species in ecosystems are often constrained by availability of resources within their environment. In effect this means that a growth of one population, needs to be balanced by comparable reduction in populations of others.…
An active area of research interest is the inference of ecological models of complex microbial communities. Inferring such ecological models entails understanding the interactions between microbes and how they affect each other's growth.…
The search for biosignatures necessitates developing our understanding of life under different conditions. If life can influence the climate evolution of its planet then understanding the behaviour of life-climate feedbacks under extreme…
Ecological interactions among phytoplankton occur in a moving fluid environment. Oceanic flows can modulate the competition and coexistence between phytoplankton populations, which in turn can affect ecosystem function and biogeochemical…