A guide to phylogenetic metrics for conservation, community ecology and macroecology.

Biological Reviews of the Cambridge Philosophical Society
Caroline M TuckerFlorent Mazel

Abstract

The use of phylogenies in ecology is increasingly common and has broadened our understanding of biological diversity. Ecological sub-disciplines, particularly conservation, community ecology and macroecology, all recognize the value of evolutionary relationships but the resulting development of phylogenetic approaches has led to a proliferation of phylogenetic diversity metrics. The use of many metrics across the sub-disciplines hampers potential meta-analyses, syntheses, and generalizations of existing results. Further, there is no guide for selecting the appropriate metric for a given question, and different metrics are frequently used to address similar questions. To improve the choice, application, and interpretation of phylo-diversity metrics, we organize existing metrics by expanding on a unifying framework for phylogenetic information. Generally, questions about phylogenetic relationships within or between assemblages tend to ask three types of question: how much; how different; or how regular? We show that these questions reflect three dimensions of a phylogenetic tree: richness, divergence, and regularity. We classify 70 existing phylo-diversity metrics based on their mathematical form within these three dimensions and...Continue Reading

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Citations

Jul 8, 2016·Proceedings. Biological Sciences·Michael StaabAlexandra-Maria Klein
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Mar 14, 2018·Proceedings of the National Academy of Sciences of the United States of America·Charles ThéveninFrançois Sarrazin

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Methods Mentioned

BETA
PCA

Software Mentioned

MNTD
R package geiger
scape
R package pez

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