Master’s Thesis in Bioinformatics
Bioinformatics Research Center at Aarhus University
June 24, 2024
Genomic offsets
A set of statistical tools that predict the maladaptation of populations to rapid environmental change based on genotypes \(\times\)environment association models
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Comparison of different methods under different scenarios
Identifying putatively adaptive loci
Measuring uncertainty
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\[ w(z| \mathbf{x}^*) = \exp\left(\frac{-\left(z - z_{\text{opt}}(\mathbf x ^*) \right)^2}{2V_S}\right) \]
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We have to assume all individuals are within their adaptive optimum and we can measure the QTLs!
\[ G^2(\mathbf{x}, \mathbf{x}^*) = \frac{\left(\sum _l ^L \hat y_l(\mathbf x) - \hat y_l(\mathbf x^*)\right)^2}{L} \]
Under Gaussian stabilizing selection we would find that a relationship between the genomic offset and shifted fitness:
\[ \mathbb E[-\log (w(\mathbf{x}, \mathbf{x}^*)] \approx \frac{a^2\mathcal G^2(\mathbf{x}, \mathbf{x}^*)}{2V_s} \]
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Hypothesis testing approach based on genotype\(\times\) environment association model
Other options?
Figure 7: Weak and strong asymmetry refer to the difference in relative importance of the two adaptive phenotypes.
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Lind and collaborators found that randomly selected were as good as putatively adaptive loci.
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Genomic offsets are an effective approach if you have external evidence of populations being locally optimal
Identifying putatively adaptive loci using hypothesis-testing improves performance, but not be too strict
Measuring the uncertainty of your estimates using bootstrapped ranked genomic offsets is a promising strategy
Simulate specific data to show the method could work in theory, or if it will fail (non-continuous phenotypes, migration …)
Different methods rely on different genotype \(\times\) environment association model and define slightly different metrics
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## Selecting environmental variables
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Bioinformatics Research Center at Aarhus University