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Phylogenetic Diversity and the Greedy Algorithm [PDF]
Systematic Biology, 2005 Given a phylogenetic tree with leaves labeled by a collection of species, and with weighted edges, the "phylogenetic diversity" of any subset of the species is the sum of the edge weights of the minimal subtree connecting the species. This measure is relevant in biodiversity conservation where one may wish to compare different subsets of species ...
Mike Steel, Steel Mike
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Phylogenetic Resolution and Quantifying the Phylogenetic Diversity and Dispersion of Communities
PLoS ONE, 2009 Conservation biologists and community ecologists have increasingly begun to quantify the phylogenetic diversity and phylogenetic dispersion in species assemblages. In some instances, the phylogenetic trees used for such analyses are fully bifurcating, but in many cases the phylogenies being used contain unresolved nodes (i.e. polytomies).
Nathan G Swenson
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Phylogenetic diversity and the functioning of ecosystems
Ecology Letters, 2012Abstract Phylogenetic diversity ( PD ) describes the total amount of phylogenetic distance among species in a community. Although there has been substantial research on the factors that determine community PD , exploration of the ...
Diane S, Srivastava +4 more
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Computing Phylogenetic Diversity for Split Systems
IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2008In conservation biology it is a central problem to measure, predict, and preserve biodiversity as species face extinction. In 1992 Faith proposed measuring the diversity of a collection of species in terms of their relationships on a phylogenetic tree, and to use this information to identify collections of species with high diversity.
Andreas Spillner 0001 +2 more
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Functional and Phylogenetic Diversity of Cas10 Proteins
The CRISPR Journal, 2023Cas10 proteins are large subunits of type III CRISPR RNA (crRNA)-guided surveillance complexes, many of which have nuclease and cyclase activities. Here, we use computational and phylogenetic methods to identify and analyze 2014 Cas10 sequences from genomic and metagenomic databases.
Tanner Wiegand +5 more
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Modelling phylogenetic diversity
Resource and Energy Economics, 2004The paper proposes a model for measuring and valuing biodiversity based on evolutionary information, called the phylogenetic tree model. While avoiding the strong restrictions of Weitzman’s [Quart. J. Econ. 107 (1992) 363] “cladistic” approach, the phylogenetic tree model retains much of the mathematical simplicity of the cladistic model. In particular,
Nehring, Klaus, Puppe, Clemens
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A comparative test of phylogenetic diversity indices
Oecologia, 2008Traditional measures of biodiversity, such as species richness, usually treat species as being equal. As this is obviously not the case, measuring diversity in terms of features accumulated over evolutionary history provides additional value to theoretical and applied ecology.
Oliver, Schweiger +3 more
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1999
Abstract In the previous two chapters we examined the distribution of language diversity across the globe and through time. In this chapter we shift attention to diversity at a different level, that of the family of languages. As I pointed out in Section 1.3, there is no necessary correlation between diversity of languages and diversity ...
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Abstract In the previous two chapters we examined the distribution of language diversity across the globe and through time. In this chapter we shift attention to diversity at a different level, that of the family of languages. As I pointed out in Section 1.3, there is no necessary correlation between diversity of languages and diversity ...
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Maximizing the phylogenetic diversity of seed banks
Conservation Biology, 2014Abstract Ex situ conservation efforts such as those of zoos, botanical gardens, and seed banks will form a vital complement to in situ conservation actions over the coming decades. It is therefore necessary to pay the same attention to the biological diversity represented in ex situ conservation facilities as is often paid to ...
Kate E, Griffiths +5 more
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Phylogenetic diversity and ecology of environmental Archaea
Current Opinion in Microbiology, 2005On the basis of culture studies, Archaea were thought to be synonymous with extreme environments. However, the large numbers of environmental rRNA gene sequences currently flooding into databases such as GenBank show that these organisms are present in almost all environments examined to date. Large sequence databases and new fast phylogenetic software
Charles E, Robertson +3 more
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