scholarly journals The evolutionary impact of population size, mutation rate and virulence on pathogen niche width

2021 ◽  
Author(s):  
Adam M Fisher
Keyword(s):  
Population Size ◽  
Mutation Rate ◽  
Niche Width

scholarly journals A phylogenetic estimator of effective population size or mutation rate.

Genetics ◽  
1994 ◽  
Vol 136 (2) ◽  
pp. 685-692 ◽  
Author(s):  
Y X Fu
Keyword(s):  
Population Size ◽  
Effective Population Size ◽  
Mutation Rate ◽  
Dna Sequences ◽  
High Efficiency ◽  
Minimum Variance ◽  
Population Subdivision ◽  
Effective Population ◽  
Fisher Model ◽  
Mitochondrial Sequences

Abstract A new estimator of the essential parameter theta = 4Ne mu from DNA polymorphism data is developed under the neutral Wright-Fisher model without recombination and population subdivision, where Ne is the effective population size and mu is the mutation rate per locus per generation. The new estimator has a variance only slightly larger than the minimum variance of all possible unbiased estimators of the parameter and is substantially smaller than that of any existing estimator. The high efficiency of the new estimator is achieved by making full use of phylogenetic information in a sample of DNA sequences from a population. An example of estimating theta by the new method is presented using the mitochondrial sequences from an American Indian population.

Effect of changes in population size on the correlation between mutation rate and heterozygosity

1979 ◽  
Vol 12 (4) ◽  
pp. 319-329 ◽  
Author(s):  
Wen-Hsiung Li
Keyword(s):  
Population Size ◽  
Mutation Rate

scholarly journals Estimating Effective Population Size or Mutation Rate With Microsatellites

Genetics ◽  
2004 ◽  
Vol 166 (1) ◽  
pp. 555-563 ◽  
Author(s):  
Hongyan Xu ◽  
Yun-Xin Fu
Keyword(s):  
Population Size ◽  
Effective Population Size ◽  
Mutation Rate ◽  
Effective Population

scholarly journals Entropic Equilibria Selection of Stationary Extrema in Finite Populations

Entropy ◽  
2018 ◽  
Vol 20 (9) ◽  
pp. 631
Author(s):  
Marc Harper ◽  
Dashiell Fryer
Keyword(s):  
Markov Process ◽  
Population Size ◽  
Mutation Rate ◽  
Stationary Distribution ◽  
Markov Processes ◽  
Local Maxima ◽  
Moran Process ◽  
The Stability ◽  
Definition Of ◽  
Selection Of

We propose the entropy of random Markov trajectories originating and terminating at the same state as a measure of the stability of a state of a Markov process. These entropies can be computed in terms of the entropy rates and stationary distributions of Markov processes. We apply this definition of stability to local maxima and minima of the stationary distribution of the Moran process with mutation and show that variations in population size, mutation rate, and strength of selection all affect the stability of the stationary extrema.

DIFFUSION OF A POPULATION OF INTERACTING REPLICATORS IN SEQUENCE SPACE

2002 ◽  
Vol 05 (04) ◽  
pp. 457-461 ◽  
Author(s):  
BÄRBEL M. R. STADLER
Keyword(s):  
Simple Model ◽  
Population Size ◽  
Computer Simulations ◽  
Mutation Rate ◽  
Sequence Space ◽  
Finite Population ◽  
Fitness Landscape ◽  
Diffusion Constant ◽  
Sequence Length

We consider a simple model for catalyzed replication. Computer simulations show that a finite population moves in sequence space by diffusion analogous to the behavior of a quasispecies on a flat fitness landscape. The diffusion constant depends linearly on the per position mutation rate and the ratio of sequence length and population size.

A stability property of the Ewens sampling formula

1983 ◽  
Vol 20 (03) ◽  
pp. 449-459
Author(s):  
Stanley Sawyer
Keyword(s):  
Population Size ◽  
Error Bound ◽  
Mutation Rate ◽  
Stability Property ◽  
Ewens Sampling Formula ◽  
Sampling Formula ◽  
Deleterious Alleles

An error bound for convergence to the Ewens sampling formula is given where the population size or mutation rate may vary from generation to generation, or the population is not yet at equilibrium. An application is given to a model of Hartl and Campbell about selectively-equivalent subtypes within a class of deleterious alleles, and a theorem is proven showing that the size of the deleterious class stays within bounds sufficient to apply the first result. Generalizations are discussed.

scholarly journals The erratic mitochondrial clock: variations of mutation rate, not population size, affect mtDNA diversity across birds and mammals

2009 ◽  
Vol 9 (1) ◽  
pp. 54 ◽  
Author(s):  
Benoit Nabholz ◽  
Sylvain Glémin ◽  
Nicolas Galtier
Keyword(s):  
Population Size ◽  
Mutation Rate ◽  
Mtdna Diversity

scholarly journals Genetic Algorithm for Teaching Distribution based on Lecturers’ Expertise

2019 ◽  
pp. 297-304
Author(s):  
Rizki Agung Pambudi ◽  
Wahyuni Lubis ◽  
Firhad Rinaldi Saputra ◽  
Hanif Prasetyo Maulidina ◽  
Vivi Nur Wijayaningrum
Keyword(s):  
Genetic Algorithm ◽  
Population Size ◽  
Mutation Rate ◽  
Learning Process ◽  
Teaching And Learning ◽  
Optimization Methods ◽  
Test Results ◽  
Optimal Parameters ◽  
Crossover Rate ◽  
Fitness Value

The teaching distribution for lecturers based on their expertise is very important in the teaching and learning process. Lecturers who teach a course that is in accordance with their interests and abilities will make it easier for them to deliver material in class. In addition, students will also be easier to accept the material presented. However, in reality, the teaching distribution is often not in accordance with the expertise of the lecturer so that the lecturers are not optimal in providing material to their students. This problem can be solved using optimization methods such as the genetic algorithm. This study offers a solution for teaching distribution that focuses on the interest of each lecturer by considering the order of priorities. The optimal parameters of the test results are crossover rate (cr) = 0.6, mutation rate (mr) = 0.4, number of generations = 40, and population size = 15. Genetic algorithm is proven to be able to produce teaching distribution solutions with a relatively high fitness value at 4903.3.

scholarly journals Critical Mutation Rate has an Exponential Dependence on Population Size for Eukaryotic-Length Genomes

2016 ◽  
Author(s):  
Elizabeth Aston ◽  
Alastair Channon ◽  
Roman Belavkin ◽  
Rok Krasovec ◽  
Christopher Knight
Keyword(s):  
Population Size ◽  
Mutation Rate ◽  
Exponential Dependence

An Empirical Study of the Effect of Parameter Combination on the Performance of Genetic Algorithms

2013 ◽  
Vol 1 (2) ◽  
pp. 43-55
Author(s):  
Pi-Sheng Deng
Keyword(s):  
Genetic Algorithms ◽  
Empirical Study ◽  
Population Size ◽  
Mutation Rate ◽  
Design Guidelines ◽  
Selection System ◽  
Genetic Operators ◽  
Research Results ◽  
Parameter Combination ◽  
Determinant Factor

Performance of genetic algorithms is affected not only by each genetic operator, but also by the interaction among genetic operators. Research on this issue still fails to converge to any conclusion. In this paper, the author focuses mainly on investigating, through a series of systematic experiments, the effects of different combinations of parameter settings for genetic operators on the performance of the author’s GA-based batch selection system, and compare the research results with the claims made by previous research. One of the major findings of the author’s research is that the crossover rate is not as a determinant factor as the population size or the mutation rate in affecting a GA’s performance. This paper intends to serve as an inquiry into the research of useful design guidelines for parameterizing GA-based systems.

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