List of Figures:

• Fig. 1: selection coefficient
• Fig. 2: first step, no correlation, alpha_1 bar as function of gamma
• Fig. 3: first step, no correlation, alpha_1 bar as function of n (complexity)
• Fig. 4: first step, no correlation, histograms
• Fig. 6: first step, no correlation, heat plot
• Fig. 7: selectional correlation, all steps, alpha_1 bar
• Fig. 8: selectional correlation, all steps, rho_alpha
• Fig. 9: selectional correlation, first step, heat plot and histograms
• Fig. 10: selectional correlation, fitness gradient
• Fig. 11: selectional correlation, diving kite
• Fig. 11a: selectional correlation, time series, flying kite
• Fig. 12: mutational correlation, all steps, various measures, n = 2
• Fig. 12: mutational correlation, all steps, various measures, n = 3
• Fig. 14: mutational correlation, first step, heat plots
• Fig. 15: mutational correlation, time series, flying kite
• Fig. 16: mutational and selective correlation, rho_alpha

Ideas (25 Jan 2013):

• Deadline is April 2!
• Main topic is climate change, adaptation, and plasticity, not necessarily evolutionary rescue
• Unclear to what degree the article will be a review or a modeling paper
• Need to read up recent reviews, especially Chevin
• One idea: explain assumptions behind and consequences of Bürger & Lynch model

Moving optimum model

• Key idea: Calculate evolutionary rates in haldanes;
  • choose reasonable set of genetic parameters
  • focus on varying ecological parameters (N, B, v, omega, theta)
• Preliminary observations in small populations
  • Rates of evolution generally increase as the optimum pulls away
  • Genetic variances stay high until just before extinction; may even reach a big shortly before extinction
  • Initial rate of evolution low even with strong selection? Requires analysis of allele frequencies (→ standing variation project)
• To do: find way to compactly visualize evolutionary rates
  • over which time window?
  • haldanes calculates over which interval?

Potential topics

• Focus on evolutionary rates might be justified, since models tend to be dynamic
• Phenotypic adaptation by genetic evolution: all of quantitative genetics:-), starting with breeders/Lande equation
• Evolution of plasticity: been reviewed several times
• Evolutionary rates: Andrew should know all about those
• Maybe here our simulations fit in
• Evolutionary rescue: note exactly the topic
• Evolutionary rescue and plasticity: Good review in Chevin et al. 2012
• Plasticity facilitates genetic adaptation: West-Eberhard etc., some more concrete models showing this to be the case
• Something about the expected contribution from genetics and plasticity? Is this possible? (Ghalambor 2007)
• Different kinds of environmental change (sudden, moving, fluctuating; kinds of noise)
• Plasticity vs. tolerance
• Constraints and limits to adaptive evolution
• Costs and limits of plasticity
• Evolvability ↔ environmental variability

Interesting topics:

• parapatric speciation
• female preferences
• genomic islands
• mixed geographic modes
• interaction between magic and non-magic traits (see van Doorn and Weissing 2004)
• plasticity

Sources of inspiration:

• List of questions in Nosil book
• Butlin et al review
• To some degree Smadja and Butlin review

Potential topic: Phenotypic plasticity and speciation

• Reviews: Pfennig et al. 2010, Fitzpatrick 2012, Minelli & Fusco 2012
• Start with more specific review about classification of scenarios and links to theory (complementary to Pfennig et al. 2010)? – Focus on evolution of RI; classify according to types of plasticity, type of plastic traits, …
• Make a list of proposed theoretical scenarios
  • The clearest concepts seem to the developmental plasticity hypothesis of speciation and the flexible stem hypothesis for adaptive radiations
• Make a list of proposed empirical examples
  • arctic charr
  • cichlids
  • sticklebacks?
  • tiger salamanders?
  • examples from WE book
• Use Thibert-Plante and Hendry (2011) as starting point (see my review on it), but focus more on evolution of female preferences? (Or use assortative mating instead?)
• Some potential model ingredients/variants:
  • female preference vs. assortative mating
  • automatic vs. classic plastic magic trait
  • linear reaction norm vs. threshold characters
  • geographic setting (but two-island model seems the most natural choice)
  • counter-gradient variation (non-adaptive plasticity)?
• Try to model the arctic charr scenario?
• See list of questions in Fitzpatrick 2012
• Use Draghi and Whitlock approach to model plasticity?
• Plastic magic traits…
• Key question: Interaction between evolution of non-random mating and genetic assimilation
• Interaction between evolution of plastic and non-plastic barriers?

• Is this a critique of W-E's theory of speciation, or rather of her theory phenotypic evolution per se?
• Describe the DPHS in more details (as in Pfennig et al. 2010, Fitzpatrick 2012)?