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      An updated megaphylogeny of plants, a tool for generating plant phylogenies and an analysis of phylogenetic community structure

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      Journal of Plant Ecology

      Oxford University Press (OUP)

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          Most cited references 31

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          An update of the Angiosperm Phylogeny Group classification for the orders and families of flowering plants: APG III

          (2009)
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            Community diversity: relative roles of local and regional processes.

            The species richness (diversity) of local plant and animal assemblages-biological communities-balances regional processes of species formation and geographic dispersal, which add species to communities, against processes of predation, competitive exclusion, adaptation, and stochastic variation, which may promote local extinction. During the past three decades, ecologists have sought to explain differences in local diversity by the influence of the physical environment on local interactions among species, interactions that are generally believed to limit the number of coexisting species. But diversity of the biological community often fails to converge under similar physical conditions, and local diversity bears a demonstrable dependence upon regional diversity. These observations suggest that regional and historical processes, as well as unique events and circumstances, profoundly influence local community structure. Ecologists must broaden their concepts of community processes and incorporate data from systematics, biogeography, and paleontology into analyses of ecological patterns and tests of community theory.
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              Phylocom: software for the analysis of phylogenetic community structure and trait evolution.

              The increasing availability of phylogenetic and trait data for communities of co-occurring species has created a need for software that integrates ecological and evolutionary analyses. Capabilities: Phylocom calculates numerous metrics of phylogenetic community structure and trait similarity within communities. Hypothesis testing is implemented using several null models. Within the same framework, it measures phylogenetic signal and correlated evolution for species traits. A range of utility functions allow community and phylogenetic data manipulation, tree and trait generation, and integration into scientific workflows. Open source at: http://phylodiversity.net/phylocom/.
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                Author and article information

                Journal
                Journal of Plant Ecology
                JPECOL
                Oxford University Press (OUP)
                1752-9921
                1752-993X
                March 24 2016
                April 15 2016
                : 9
                : 2
                : 233-239
                Article
                10.1093/jpe/rtv047
                © 2016

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