This week’s reading, our last for the Fall 2013 semester, will again tackle the relationships between different short- to longer-term time scales and ‘proper’ methods in historical biogeography. And why this matters. Hopefully an apt ending to the semester’s suite of papers. Leading candidate topics for next semester are character coding, inference methods and their conceptual underpinnings, and comparative phylogenetic methods. To be decided on soon.
Wiens, J.J. 2012. Why biogeography matters: historical biogeography vs. phylogeography and community phylogenetics for inferring ecological and evolutionary processes. Frontiers of Biogeography 4(3): 1-8. Available on-line here.
Another weekly reading, an empirical paper focusing on a Mediterrranean tenebrionid beetle radiation – genus Blaps Fabricius – using the DEC model by Ree et al. Reference: Condamine, F.L., L. Laurent Soldati, A.-L. Clamens, J.-Y. Rasplus & G.J. Kergoat. 2013. Diversification patterns and processes of wingless endemic insects in the Mediterranean Basin: historical biogeography of the genus Blaps (Coleoptera: Tenebrionidae). Journal of Biogeography 40: 1899–1913. Available here.
This paper’s group leader Gael Kergoat participated in the Third International Tenebrionoidea Symposium held earlier this year at ASU.
This week’s reading, diving into geographic patterns below the species level: Lemey, P., A. Rambaut, A.J. Drummond & M.A. Suchard. 2009. Bayesian phylogeography finds its roots. PLoS Computational Biology 5(9): e1000520. Available here.
Last week’s reading was a trip “back to the future” into MacArthur & Wilson (1967) style island biogeography – subtracting phylogeny and area cladograms from the equation and concentrating instead on island species richness and carrying capacities as a function of, well…(likely not just history and phylogeny). All this in a Bayesian framework. There was some question whether the current version of MrBayes can support such analyses. Next up for this week, more overview of parametric approaches: Ree, R.H. & I. Sanmartín. 2009. Prospects and challenges for parametric models in historical biogeographical inference. Journal of Biogeography 36: 1211–1220. Available here.
Presentation sequence in development for the following TDWG 2013 presentation: Franz, N., C. Gries, T. Nash III & E. Gilbert. 2013. Crowd Sourcing and Community Management Capabilities Available within Symbiota Data Portals.
Continuing our theme of reviewing novel, parametric methods for historical biogeography, this week’s (lengthy) read is: Sanmartín, I., P. van der Mark & F. Ronquist. 2008. Inferring dispersal: a Bayesian, phylogeny-based approach to island biogeography, with special reference to the Canary Islands. Journal of Biogeography 35: 428–449. PDF available here.
Last week’s paper by Ree et al. (2005) introduced concepts and methods towards a likelihood framework for event-based historical biogeography (sensu Ronquist 1997). Area cladograms are no longer a central objective, and the assumptions of Ronquist’s (1997) parsimony-weighted model regarding absolute and relative rates of dispersal versus extinction in ancestral areas are exposed. This week’s reading is a direct follow-up which also introduces the software package lagrange: Ree, R.H. & S.A. Smith. 2008. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Systematic Biology 57: 4-14. Available here.
Moving gradually into the parametric world of historical biogeographic inference, this week’s reading is: Ree, R.H., B.R. Moore, C.O. Webb & M.J. Donoghue. 2005. A likelihood framework for inferring the evolution of geographic range on phylogenetic trees. Evolution 59: 2299-2311. Available here.