Lab 5 - Population Genetics online.doc - PCB 4674 Evolution...

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PCB 4674 Evolution Revised Feb 2017 Lab # 5: Population Genetics POPULATION GENETICS Reference chapters (in textbook): Ch. 6 Lab objectives: Explore population genetics assumptions. Understand how selection, mutation, migration and drift affect the evolutionary process. Explain the conditions under which beneficial or deleterious recessive alleles may (or may not) persist in a population depending on the evolutionary forces at work. Parameter Definitions Pop. Size : Size of each simulated population. Initial Frequency of A 1 a llele : The proportion of alleles in the population of individuals that are of a particular type when you start the simulation. E.g. originally 50% of alleles are A 1 , then the initial frequency of al allele will be p = 0.5. Notice that A 1 is not necessarily dominant – it will depend on its relative fitness values. # of Populations : Number of different populations to simulate at the same time. Number of Generations : Number of generations the simulation can run through. Fitness : Relative fitness of a genotype scaled such that the maximum fitness is 1.0. E.g. If A 2 A 2 individuals only have 80% of the fitness that A 1 A 1 individuals have, fitness for A 1 A 1 will be presented as w A1A1 = 1.0, and fitness for A 2 A 2 will be w A2A2 = 0.8. Migration Rate (in both Island and Source/Sink models) : Number of migrants from source population per generation to your population. Migration Freq. A 1 (in Source/Sink model) : The proportion of A 1 alleles in the source population. Mutation R ate : The rate at which alleles randomly mutate from either A 1 A 2 or A 2 A 1 . Bottleneck : Population undergoes a drastic reduction in size as a result of chance events. “Start” and “End” indicate the starting and ending generation of the event. BN Pop. indicates the population size remained within the bottleneck event. General Steps for Lab Activity First, go to this Radford University webpage . After you have accessed the program, take a few minutes to experiment with the various options on the top of the page. This stage should help you design your experiments and determine which tools are available to you (for more information, please see this Web PopGen page . Take your time! Once you have familiarized yourself with the layout, change the parameters and/or modules in order to work through the questions below. To submit this homework, scan and upload a copy of this document. Page 1 of 15

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