Journal Article10.1146/ANNUREV.ECOLSYS.33.010802.150448
Phylogenies and Community Ecology
TL;DR: A common pattern of phylogenetic conservatism in ecological character is recognized and the challenges of using phylogenies of partial lineages are highlighted and phylogenetic approaches to three emergent properties of communities: species diversity, relative abundance distributions, and range sizes are reviewed.
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Abstract: ▪ Abstract As better phylogenetic hypotheses become available for many groups of organisms, studies in community ecology can be informed by knowledge of the evolutionary relationships among coexisting species. We note three primary approaches to integrating phylogenetic information into studies of community organization: 1. examining the phylogenetic structure of community assemblages, 2. exploring the phylogenetic basis of community niche structure, and 3. adding a community context to studies of trait evolution and biogeography. We recognize a common pattern of phylogenetic conservatism in ecological character and highlight the challenges of using phylogenies of partial lineages. We also review phylogenetic approaches to three emergent properties of communities: species diversity, relative abundance distributions, and range sizes. Methodological advances in phylogenetic supertree construction, character reconstruction, null models for community assembly and character evolution, and metrics of community ...
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References
•Journal Article
Phylogenetic effects on morphological, life-history, behavioural and ecological traits of birds
TL;DR: It is concluded that phylogenetic effects do not reflect phylogenetic niche conservatism, and methods that intend to control for phylogenetically effects by working solely within families, among families, or among orders are not reliable in removing phylogenetics effects.
A phylogenetic approach to community assembly from a local species pool
TL;DR: The use of PICs resulted in a more test than if phylogeny had been ignored, allowing the detection of effects that would otherwise have been overlooked or underestimated, implying that dispersal limitation may operate in the community.
96
Distribution and abundance of parasite nematodes: ecological specialisation, phylogenetic constraint or simply epidemiology?
TL;DR: Both the bimodal distribution of parasite prevalence and the mean-variance power function simply result from demographic and stochastic patterns (highlighted by the sampling model), which present compelling evidence that nematode parasite species might adjust their spatial distribution and burden in mammal hosts for simple epidemiological reasons.
How organisms partition habitats : different types of community organization can produce identical patterns
TL;DR: The presence of particular types of organization was influenced by the kind of study organism, with shared preferences occurring more frequently than distinct preferences among autotrophs and among different-aged individuals of the same species.
95
Taxon size predicts rates of rarity in vascular plants
Mark W. Schwartz,Simberloff +1 more
TL;DR: It is demonstrated that taxonomic groups of plants with few species consistently contained fewer than the expected numbers of rare species.
92