On Google scholar

Uyeda, J.C., R. Zenil-Ferguson, and M.W. Pennell. In review. Rethinking phylogenetic comparative methods. [preprint]

Falster, D., R.G. FitzJohn, M.W. Pennell, and W.K. Cornwell. In review. Versioned data: why it is needed and how it can be achieved (easily and cheaply). [preprint] [repo]

Harmon, L.J., C.S. Andreazzi, F. Débarre, J. Drury, E.E. Goldberg, A.B. Martins, C.J. Melián, A. Narwani, S.L. Nuismer, M.W. Pennell, S.M. Rudman, O. Seehausen, D. Silverstro, M. Weber, and B. Matthews. In review. Detecting the Macroevolutionary Signal of Species Interactions.

Mazel, F., M.W. Pennell, M. Cadotte, S. Diaz, G.V. dalla Riva, R. Grenyer, F. Leprieur, A.O. Mooers, D. Mouillot, C.M. Tucker, and W. Pearse. In review. Is phylogenetic diversity a surrogate for functional diversity across clades and space?

Pennell, M.W., Judith E. Mank, and Catherine L. Peichel. In review. Transitions in sex determination and sex chromosomes across vertebrate species.

Mull, C.G., M.W. Pennell, K.E. Yopak, and N.K. Dulvy. In review. Maternal investment evolves with larger body sizes and higher diversification rate in sharks and rays.

Mazel, F., A.O. Mooers, G.V. dalla Riva, and M.W. Pennell. 2017. Conserving phylogenetic diversity can be a poor strategy for conserving functional diversity. Systematic Biology 66:1019-1027. [doi] [pdf]

Zenil-Ferguson, R. and M.W. Pennell. 2017. Trait-dependent diversification and its alternative (Digest). Evolution 71:1732-1734. [doi] [pdf]

D. Schluter and M.W. Pennell. 2017. Speciation gradients and the distribution of biodiversity. Nature 546:48-55. [doi] [pdf]

Pennell, M.W. and M.I. O’Connor. 2017. A modest proposal for unifying macroevolution and ecosystem ecology. The American Naturalist 189:ii-iii [doi] [pdf]

Uyeda, J.C., M.W. Pennell, E.T. Miller, R. Maia, and C.R. McClain. 2017. The evolution of energetic scaling across the vertebrate tree of life. The American Naturalist 190:185-199. [doi] [pdf]

Osmond, M.M., M.A. Barbour, J.R. Bernhardt, M.W. Pennell, J.M. Sunday, and M.I. O’Connor. 2017. Warming induced changes to body size stabilize consumer-resource dynamics. The American Naturalist 189:718-725. [doi] [pdf]

Pennell, M.W.*, R.G. FitzJohn*, and W.K. Cornwell*. 2016. A simple approach for maximizing the overlap of phylogenetic and comparative data. Methods in Ecology and Evolution 7:751-758. [doi] [pdf] [repo]

Tank, D.C., J.M. Eastman, M.W. Pennell, P.S. Soltis, D.E. Soltis, C.E. Hinchliff, J.W. Brown, E.B. Sessa, and L.J. Harmon. 2015. Nested radiations and the pulse of angiosperm diversification. New Phytologist 207:454-467. [doi] [pdf] [repo]

Pennell, M.W., R.G. FitzJohn, W.K. Cornwell, and L.J. Harmon. 2015. Model adequacy and the macroevolution of angiosperm functional traits. The American Naturalist 186: E33-E50. [doi] [pdf] [repo] [poster]

Pennell, M.W.*, M. Kirkpatrick*, S.P. Otto*, J.C. Vamosi, C.L. Piechel, N. Valenzuela, and J. Kitano. 2015. Y fuse? Sex chromosome fusions in fishes and reptiles. PLoS Genetics 11:e1005237 [doi] [pdf]

Uyeda, J.C., D.S. Caetano, and M.W. Pennell. 2015. Comparative analysis of principal components can be misleading. Systematic Biology 64:677-689. [doi] [pdf] [repo]

Pennell, M.W. 2015. Modern Phylogenetic Comparative Methods and Their Application in Evolutionary Biology: Concepts and Practice.—Edited by László Zsolt Garamszegi (Book Review). Systematic Biology 64:161-163. [doi] [pdf]

FitzJohn, R.G.*, M.W. Pennell*, A.E. Zanne, P.F. Stevens, D.C. Tank, and W.K. Cornwell. 2014. How much of the world is woody? Journal of Ecology 102:1266-1272. [doi] [pdf] [repo] [project website]

The Tree of Sex Consortium; T. Ashman, D. Bachtrog, H. Blackmon, E.E. Goldberg, M.W. Hahn, M. Kirkpatrick, J. Kitano, J.E. Mank, I. Mayrose, R. Ming, S.P. Otto, C.L. Peichel, M.W. Pennell, N. Perrin, L. Ross, N. Valenzuela, and J.C. Vamosi. 2014. Tree of Sex: a database of sexual systems. Scientific Data 1:140015. [doi] [pdf]

Stansbury, C.R., D.E. Ausband, P. Zager, C.M. Mack, C.R. Miller, M.W. Pennell, and L.P. Waits. 2014. A long term population monitoring approach to a wide-ranging carnivore: noninvasive genetic sampling of gray wolf rendezvous sites in Idaho, U.S.A. Journal of Wildlife Management 78:1040-1049. [doi] [pdf]

Lanfear, R. and M.W. Pennell. 2014. Open access is worth considering. Trends in Plant Sciences 19:340-341. [doi] [pdf] [data]

Pennell, M.W.*, J.M. Eastman*, G.J. Slater, J.W. Brown, J.C. Uyeda, R.G. FitzJohn, M.E. Alfaro, and L.J. Harmon. 2014. geiger v2.0: an expanded suite of methods for fitting macroevolutionary models to phylogenetic trees. Bioinformatics 15:2216-2218.. [doi] [pdf]

Slater, G.J. and M.W. Pennell. 2014. Robust regression and posterior predictive simulation increase power to detect early bursts of trait evolution. Systematic Biology 63:293-308. [doi] [pdf]

Cornwell, W.K., M. Westoby, D.S. Falster, R.G. FitzJohn, B.C. O’Meara, M.W. Pennell, D.J. McGlinn, J.M. Eastman, A.T. Moles, P.B. Reich, D.C. Tank, I.J. Wright, L.Aarssen, J.M. Beaulieu, R.M. Kooyman, M.R. Leishman, E.T. Miller, U. Niinemets, J. Oleksyn, A. Ordonez, D.L. Royer, S.A. Smith, P.F. Stevens, L. Warman, P. Wilf, and A.E. Zanne. 2014. Functional distinctiveness of major plant lineages. Journal of Ecology 102:345-356. [doi] [pdf]

Pennell, M.W., L.J. Harmon, and J.C. Uyeda. 2014. Speciation is unlikely to drive divergence rates. Trends in Ecology & Evolution 29:72-73. [doi] [pdf]

Pennell, M.W., L.J. Harmon, and J.C. Uyeda. 2014. Is there room for punctuated equilibrium in macroevolution? Trends in Ecology & Evolution 29:23-32. [doi] [pdf]

Maliska, M.E., M.W. Pennell, and B.J. Swalla. 2013. Developmental mode influences diversification in ascidians. Biology Letters 9:20130068. [doi] [pdf]

Pennell, M.W. and L.J. Harmon. 2013. An integrative view of phylogenetic comparative methods: connections to population genetics, community ecology, and paleobiology. Annals of the New York Academy of Sciences 1289:90-105. [doi] [pdf]

Stoltzfus, A., H. Lapp, N. Matasci, H. Deus, B. Sidlauskas, C.M. Zmasek, G. Vaidya, E. Pontelli, K. Cranston, R. Vos, C.O. Webb, L.J. Harmon, M. Pirrung, B. O’Meara, M.W. Pennell, S. Mirarab, M.S. Rosenberg, J.P. Balhoff, H.M. Bik, T.A. Heath, P.E. Midford, J.W. Brown, E.J. McTavish, J. Sukumaran, M. Westneat, M.E. Alfaro, A. Steele, and G. Jordan. 2013. Phylotastic! Making tree-of-life knowledge accessbile, reusable and convenient. BMC Bioinformatics 14:158. [doi] [pdf]

Pennell, M.W. 2012. Biology in the light of phylogeny. Trends in Ecology & Evolution 27:657-658. [doi] [pdf]

Pennell, M.W., C.R. Stansbury, L.P. Waits, and C.R. Miller. 2012. Capwire: a R package for estimating population census size from non-invasive genetic sampling. Molecular Ecology Resources 13:154-157. [doi] [pdf]

Pennell, M.W., B.A.J. Sarver, and L.J. Harmon. 2012. Trees of unusual size: biased inference of early bursts from large molecular phylogenies. PLOS ONE 7:e43348. [doi] [pdf]

Rosenblum, E.B., B.A.J. Sarver, J.W. Brown, S. Des Roches, K.M. Hardwick, T.D. Hether, J.M. Eastman, M.W. Pennell, and L.J. Harmon. 2012. Goldilocks meets Santa Rosalia: an emphemeral speciation model explains patterns of diversification across time scales. Evolutionary Biology 39:255-261. [doi] [pdf]

Green, D.J., K.B. Loukes, M.W. Pennell, J. Jarvis, and W.E. Easton. 2011. Reservoir water levels do not influence daily mass gain of warblers at a riparian stopover site. Journal of Field Ornithology 82:11-24. [doi] [pdf]

* indicates equal contribution

Additional writings

Essay inducting Joseph Felsenstein as a honorary lifetime member of the American Society of Naturalists (co-written with Jonathan Losos and Sally Otto) [doi]


PhD Exit Seminar, Moscow, ID. Models, meanings, & macroevolution [slides]

Evolution 2014, Raleigh, NC. The adequacy of phylogenetic trait models (SSB Symposium: The Dark Side of Phylogenetic Comparative Methods) [slides]