An integrative view of phylogenetic comparative methods: connections to population genetics, community ecology, and paleobiology
Abstract
Recent innovations in phylogenetic comparative methods (PCMs) have spurred a renaissance of research into the causes and consequences of large‐scale patterns of biodiversity. In this paper, we review these advances. We also highlight the potential of comparative methods to integrate across fields and focus on three examples where such integration might be particularly valuable: quantitative genetics, community ecology, and paleobiology. We argue that PCMs will continue to be a key set of tools in evolutionary biology, shedding new light on how evolutionary processes have shaped patterns of biodiversity through deep time.
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Current comparative methods are not designed to deal with abrupt shifts and discontinuities.
“But as recent controversies in phylogenetic comparative biology have highlighted, our current methods (reviewed in O'Meara 2012;Pennell and Harmon 2013;Garamszegi 2014) are not designed to deal with such dynamics.”
From Rethinking phylogenetic comparative methods (2018) · cites this paper as Pennell and Harmon 2013
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Rethinking phylogenetic comparative methods
Uyeda, J. C., Zenil-Ferguson, R., & Pennell, M. W. (2018) · Systematic Biology · doi:10.1093/sysbio/syy031 · Cited by 313 · see citing works
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- Authors
- Pennell, M. W., & Harmon, L. J.
- Affiliations
- University of Idaho (US)
- Corresponding author
- Harmon, Luke J.
- Venue
- Annals of the New York Academy of Sciences
- Publisher
- Wiley
- Published
- 2013-06
- Volume
- 1289
- Issue
- 1
- Pages
- 90-105
- ISSN
- 0077-8923 (ISSN-L)
- 1749-6632
- OpenAlex
- W1483090932
- Cited by
- 255
- References
- 9
- Citations by year
- 2026: 8 · 2025: 13 · 2024: 10 · 2023: 11 · 2022: 12 · 2021: 19 · 2020: 18 · 2019: 52 · 2018: 23 · 2017: 25 · 2016: 19 · 2015: 17 · 2014: 25 · 2013: 3
- FWCI
- 2.46
- Type
- journal article
- Language
- en
- Open access
- closed
- Locations
- Annals of the New York Academy of Sciences (publishedVersion)
- PubMed (publishedVersion)
- Topics
- Physical Sciences › Earth and Planetary Sciences › Paleontology › Evolution and Paleontology Studies
- Physical Sciences › Mathematics › Geometry and Topology › Morphological variations and asymmetry
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Evolution and Genetic Dynamics
- Keywords
- phylogenetic comparative analysis, quantitative genetics, community ecology, paleobiology, biodiversity patterns, evolutionary processes, deep time, population genetics
- MeSH terms
- Algorithms, Animals, Ecology, Biological Evolution, Fossils, Genetics, Genetics, Population, Models, Biological, Paleontology, Phylogeny, Software, Time Factors, Models, Statistical, Computational Biology, Biodiversity
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