I have a series of root growth rate measurements of Arabidopsis lines carrying a single KO in gene x or gene y, and a series of measurements of lines carrying a double KO in both gene x and y. I would like to determine if there is a genetic interaction between gene x and gene y, i.e. if the root growth rate of the lines carrying a KO in both genes is different from what is expected based on the lines carrying a KO in either gene x or gene y separately.
This is very similar to what has been done in the Su et al paper Article A double‐mutant collection targeting MAP kinase related gene...
. However, the way they calculated whether or not there is a genetic interaction does not seem right to me. They determined whether the growth rate of the double mutant is significantly different from the growth rate of the single mutants, so not calculating if there is a difference between the expected and the observed growth rate.I have not found a proper way to calculate the expected phenotype based on the single mutants for root growth rate. Most GI studies are done on yeast (Article Defining genetic interaction
) and I'm not sure these can directly be applied to plants or which GI model is most appropriate (min, log, product etc...).Does anyone have any suggestions on how to approach this?
Thanks!
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