Systematic Conservation Planning Protected areas around the world have typically been established in areas of low competing interests, which is not ideal from the perspective of biodiversity conservation (Pressey et al. 1993). Such biased allocation may even lead to existing protected areas performing worse than randomly chosen areas in representing diversity (Ferrier 2002). The realization that conservation would benefit from cost-effective practices led to the development of the field of Systematic conservation planning (Box 1, Margules and Pressey 2000; Margules and Sarkar 2007). More than 20 years of development have led to the integration of numerous aspects to the approach adding to its realism. In particular, the spatial prioritization for assessing the existing conservation areas and selecting new ones have become comprehensive and efficient, and nowadays they also provide more user-friendly graphical user interfaces, which has facilitated their broad use for practical conservation planning purposes (Ball et al. 2009; Moilanen et al. 2009).

Evolutionary History in Conservation Phylogenetic diversity or species originality are often mentioned as important for conservation (Rosauer and Mooers 2013; Winter et al. 2013), and the history of such discussion goes back already a few decades (Vane-Wright et al. 1991; Faith 1992). Evolutionary history is often quantified in community ecology for the purpose of understanding the diversity of current species distributions (Davies and Buckley 2011; Fritz and Rahbek 2012) or the potential functioning of ecosystems (Cadotte et al. 2012), whereas applications to conservation have remained limited.

Numerous indices have been developed to measure the originality of species (Vane-Wright et al. 1991; Pavoine et al. 2005a; Isaac et al. 2007), or phylogenetic diversity (Faith 1992; Schweiger et al. 2008; Pavoine and Bonsall 2011; Faith chapter “The PD Phylogenetic Diversity Framework: Linking Evolutionary History to Feature Diversity for BiodiversityConservation”). The former measures assign a value for each species based on their dissimilarity from other species, whereas the latter look at an assemblage of species as a whole.

Both types can be used in spatial conservation prioritization (Arponen 2012). Originality can be used for weighting species differently, whereas diversity indices can be used at different scales: either for measuring the diversity of all species across a network of protected areas, or for preferentially selecting areas with high local, alpha-level diversity of the community. Their use has been rare in published studies of spatial conservation prioritization. Arponen et al. (2005) used species weights based on species originality in conservation prioritization for plants in Finnish herb-rich forests. There are also some examples of considering assemblagelevel phylogenetic diversity across a network of sites: The “Phylogenetic Diversity” of Faith (1992) has been used for conservation prioritization with birds (Rodrigues and Gaston 2002) and plants (Forest et al. 2007) in South Africa, as well as in a global analysis for mammals (Rodrigues et al. 2011). Instead of spatial prioritization of areas for protection, evolutionary history has been considered much more commonly in other kinds of conservation contexts (reviewed in Arponen 2012), such as creating priority lists of species for conservation. For example, Isaac et al. (2007) introduced the “Evolutionary distinctiveness” measure for species and used it in combination with extinction risk data to assign priorities for species in the EDGE program (see also May-Collado et al. chapter “Global Spatial Analyses of Phylogenetic Conservation Priorities for Aquatic Mammals”; Schnell and Safi chapter “Metapopulation Capacity Meets Evolutionary Distinctness: Spatial Fragmentation Complements Phylogenetic Rarity in Prioritization”).

To our knowledge, phylogenetic diversity has not been used at the scale of local communities in spatial conservation prioritization. The use of alpha-level phylogenetic diversity is based on the assumption that it would correlate with ecological processes better than species richness of the community (Forest et al. 2007), and therefore work as an indicator for functional diversity when species traits data are missing. This is based on the idea that phylogenetically distinct species are likely to be functionally different (Cadotte et al. 2008), although this assumption has also been challenged (Mouquet et al. 2012). For this purpose, phylogenetic diversity indices that account for species abundances (Chao et al. 2010; Chao et al. chapter “Phylogenetic Diversity Measures and Their Decomposition: A Framework Based on Hill Numbers”) might be more suitable than the ones that consider only presences and absences of species (such as Faith 1992): from the perspective of ecosystem function, viable populations and sparse individuals of a species should not be considered equally important.

Case Study on European Mammals Mammals are a fairly well known group of species regarding their ecology, distributions as well as phylogeny. Nevertheless, their phylogenies are not fully resolved, but contain polytomies. Resolving the polytomies randomly results in variation among different trees, but having good spatial distribution data provides a good opportunity for investigating the influence of such uncertainty on spatial conservation prioritization. Mammals are also considered to be of high conservation interest due to their public appeal (Smith et al. 2012). They were the first focal taxon of the EDGE programme (Isaac et al. 2007), which was a pioneering endeavor to bring highly threatened and evolutionarily unique species to the limelight and to improve their conservation.

We conducted spatial prioritizations for European mammal conservation with the Zonation conservation planning software. We compared traditional, species based prioritization to one where alpha-level phylogenetic diversity, measured as the equivalent number of Rao's quadratic entropy, was allowed to influence site value through using its inverse as cost in the analyses. Because a continental scale analysis may not be politically feasible, we repeated both analyses at national scales, where Zonation performs identical prioritization but for each country separately. For mammals there is still some uncertainty related to the structure of the phylogeny. We acquired 100 different trees and ran Zonation analyses for each of them, comparing the similarities of outcomes to each other. We analyzed the trade-offs between species representation and the equivalent number of Rao's quadratic entropy in the solutions. Finally, we analyzed the performance of the current protected area network in representing hotspots of evolutionary history for mammals, as well as in representing species, both at the European and at national scales.

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