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We revisit the model by Wiser, Ribeck, and Lenski (Science textbf{342} (2013), 1364--1367), which describes how the mean fitness increases over time due to beneficial mutations in Lenskis long-term evolution experiment. We develop the model further both conceptually and mathematically. Conceptually, we describe the experiment with the help of a Cannings model with mutation and selection, where the latter includes diminishing returns epistasis. The analysis sheds light on the growth dynamics within every single day and reveals a runtime effect, that is, the shortening of the daily growth period with increasing fitness; and it allows to clarify the contribution of epistasis to the mean fitness curve. Mathematically, we explain rigorous results in terms of a law of large numbers (in the limit of infinite population size and for a certain asymptotic parameter regime), and present approximations based on heuristics and supported by simulations for finite populations.
Taking into account an evolutionary model of mutations in term of Levy Fights that was previously constructed, we designed an algorithm to reproduce the evolutionary dynamics of the Long-Term Evolution Experiment (LTEE) with E. Coli bacteria. The alg
We present the latest improvements in the Center for Radiative Shock Hydrodynamics (CRASH) code, a parallel block-adaptive-mesh Eulerian code for simulating high-energy-density plasmas. The implementation can solve for radiation models with either a
The evolutionary process has been modelled in many ways using both stochastic and deterministic models. We develop an algebraic model of evolution in a population of asexually reproducing organisms in which we represent a stochastic walk in phenotype
Noise dominates every aspect of near-term quantum computers, rendering it exceedingly difficult to carry out even small computations. In this paper we are concerned with the modelling of noise in NISQ computers. We focus on three error groups that re
Time series analysis of fossil biodiversity of marine invertebrates in the Paleobiology Database (PBDB) shows a significant periodicity at approximately 63 My, in agreement with previous analyses based on the Sepkoski database. I discuss how this res