Marked Strains for Competition Experiments and Bayesian Methods for Fitness Estimates.

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ID: 94837
2020
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Abstract
The filamentous fungus , a model microbial eukaryote, has a life cycle with many features that make it suitable for studying experimental evolution. However, it has lacked a general tool for estimating relative fitness of different strains in competition experiments. To remedy this need, we constructed strains that contain a modified locus and developed an assay for detecting the proportion of the marked strain using a post PCR high resolution melting assay. DNA extraction from spore samples can be performed on 96-well plates, followed by a PCR step, which allows many samples to be processed with ease. Furthermore, we suggest a Bayesian approach for estimating relative fitness from competition experiments that takes into account the uncertainty in measured strain proportions. We show that there is a fitness effect of the mating type locus, as mating type has a higher competitive fitness than A. The marker also has a small fitness effect, but is still a suitable marker for competition experiments. As a proof of concept, we estimate the fitness effect of the mutation, a gene in the RNA interference pathway, and show that its competitive fitness is lower than what would be expected from its mycelial growth rate alone.
Reference Key
kronholm2020markedg3 Use this key to autocite in the manuscript while using SciMatic Manuscript Manager or Thesis Manager
Authors Kronholm, Ilkka;Ormsby, Tereza;McNaught, Kevin J;Selker, Eric U;Ketola, Tarmo;
Journal g3 (bethesda, md)
Year 2020
DOI
g3.400632.2019
URL
Keywords
fungi high resolution melting competitive fitness experimental evolution

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