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Johnny Yang

Publications and source records attributed to Johnny Yang.

2 recordsLinked to original sources

Dormancy stabilizes non-transitive competitive dynamics

Competitive interactions can maintain diversity, yet coexistence is often fragile in well-mixed populations, where stochastic fluctuations can lead to extinction. This is the case in non-transitive systems, such as rock-paper-scissors dynamics, where no single type dominates globally. While spatial structure can stabilize these systems by providing refuges in space, it remains unclear whether analogous mechanisms can operate in time in well-mixed environments. Here, we develop a population-genetic framework showing that dormancy can act as a temporal refuge, preserving lineages and preventing collapse to fixation under interaction-driven fluctuations. We introduce a discrete-time Wright-Fisher model that combines generalized seed-banks with frequency-dependent interactions, allowing individuals to inherit their type from potential parents sampled across multiple past generations. This construction provides a tractable framework in which dormancy stores and later reintroduces lost types. In the case of either weak or moderate selection, we prove a multidimensional diffusion limit for the resulting type-frequency process and use it to analyze complex selective interactions. In non-transitive systems, dormancy stabilizes trajectories that would otherwise collapse through stochastic extinction, extends fixation times, and sustains coexistence. These effects cannot be explained solely by an increase in effective population size. Our results show that dormancy introduces temporal memory that qualitatively alters competitive dynamics, stabilizing otherwise fragile systems and enabling long-term coexistence.

q-bio.PE

Patch formation driven by stochastic effects of interaction between viruses and defective interfering particles

Defective interfering particles (DIPs) are virus-like particles that occur naturally during virus infections. These particles are defective, lacking essential genetic materials for replication, but they can interact with the wild-type virus and potentially be used as therapeutic agents. However, the effect of DIPs on infection spread is still unclear due to complicated stochastic effects and nonlinear spatial dynamics. In this work, we develop a model with a new hybrid method to study the spatial-temporal dynamics of viruses and DIPs co-infections within hosts. We present two different scenarios of virus production and compare the results from deterministic and stochastic models to demonstrate how the stochastic effect is involved in the spatial dynamics of virus transmission. We quantitatively study the spread features of the virus, including the formation and the speed of virus spread and the emergence of stochastic patchy patterns of virus distribution. Our simulations simultaneously capture observed spatial spread features in the experimental data, including the spread rate of the virus and its patchiness. The results demonstrate that DIPs can slow down the growth of virus particles and make the spread of the virus more patchy.

q-bio.QM