Carlos E. González-Orozco

Phylogenetic measures of biodiversity and neo- and paleo-endemism in Australian Acacia

Understanding spatial patterns of biodiversity is critical for conservation planning, particularly given rapid habitat loss and human-induced climatic change. Diversity and endemism are typically assessed by comparing species ranges across regions. However, investigation of patterns of species diversity alone misses out on the full richness of patterns that can be inferred using a phylogenetic approach. Here, using Australian Acacia as an example, we show that the application of phylogenetic methods, particularly two new measures, relative phylogenetic diversity and relative phylogenetic endemism, greatly enhances our knowledge of biodiversity across both space and time. We found that areas of high species richness and species endemism are not necessarily areas of high phylogenetic diversity or phylogenetic endemism. We propose a new method called categorical analysis of neo- and paleo-endemism (CANAPE) that allows, for the first time, a clear, quantitative distinction between centres of neo- and paleo-endemism, useful to the conservation decision-making process.

Spatial distribution of species richness and endemism of the genus Acacia in Australia

The aim of this study is to identify and map the spatial distribution of species richness and endemism of the genus Acacia in Australia. A database of 171 758 geo-referenced herbarium records representing 1020 Acacia species was assembled and aggregated to a 0.25° grid cell resolution. A neighbourhood analysis of one-cell radius was applied to each of the grid cells to map the spatial patterns of species richness and endemism. The primary centres of species richness are in accordance with previous results, occurring in the South-West Botanical Province in Western Australia, the MacPherson-Macleay overlap and the Central Coast of the Sydney Sandstone region. We identify 21 centres of endemism, of which six were previously unrecognised. The primary centres of endemism are located in South-West Western Australia, the Kimberley District and the Wet Tropics in Queensland. The South-West Botanical Province in Western Australia contained the greatest number of regions with the highest number of endemic species of Acacia. A randomisation test showed that our 21 centres of endemism were significantly different from random. The majority of centres of Acacia endemism were incongruent with the centres of species richness, with only three grid cells in the top 1% for both measures. We also confirm that South-West Western Australia is a region of very high species richness and endemism, in accordance with its status as a global hotspot of biodiversity.

Phylodiversity to inform conservation policy: An Australian example

Phylodiversity measures summarise the phylogenetic diversity patterns of groups of organisms. By using branches of the tree of life, rather than its tips (e.g., species), phylodiversity measures provide important additional information about biodiversity that can improve conservation policy and outcomes. As a biodiverse nation with a strong legislative and policy framework, Australia provides an opportunity to use phylogenetic information to inform conservation decision-making. We explored the application of phylodiversity measures across Australia with a focus on two highly biodiverse regions, the south west of Western Australia (SWWA) and the South East Queensland bioregion (SEQ). We analysed seven diverse groups of organisms spanning five separate phyla on the evolutionary tree of life, the plant genera Acacia and Daviesia, mammals, hylid frogs, myobatrachid frogs, passerine birds, and camaenid land snails. We measured species richness, weighted species endemism (WE) and two phylodiversity measures, phylogenetic diversity (PD) and phylogenetic endemism (PE), as well as their respective complementarity scores (a measure of gains and losses) at 20 km resolution. Higher PD was identified within SEQ for all fauna groups, whereas more PD was found in SWWA for both plant groups. PD and PD complementarity were strongly correlated with species richness and species complementarity for most groups but less so for plants. PD and PE were found to complement traditional species-based measures for all groups studied: PD and PE follow similar spatial patterns to richness and WE, but highlighted different areas that would not be identified by conventional species-based biodiversity analyses alone. The application of phylodiversity measures, particularly the novel weighted complementary measures considered here, in conservation can enhance protection of the evolutionary history that contributes to present day biodiversity values of areas. Phylogenetic measures in conservation can include important elements of biodiversity in conservation planning, such as evolutionary potential and feature diversity that will improve decision-making and lead to better biodiversity conservation outcomes.

Quantifying Phytogeographical Regions of Australia Using Geospatial Turnover in Species Composition

The largest digitized dataset of land plant distributions in Australia assembled to date (750,741 georeferenced herbarium records; 6,043 species) was used to partition the Australian continent into phytogeographical regions. We used a set of six widely distributed vascular plant groups and three non-vascular plant groups which together occur in a variety of landscapes/habitats across Australia. Phytogeographical regions were identified using quantitative analyses of species turnover, the rate of change in species composition between sites, calculated as Simpsons beta. We propose six major phytogeographical regions for Australia: Northern, Northern Desert, Eremaean, Eastern Queensland, Euronotian and South-Western. Our new phytogeographical regions show a spatial agreement of 65% with respect to previously defined phytogeographical regions of Australia. We also confirm that these new regions are in general agreement with the biomes of Australia and other contemporary biogeographical classifications. To assess the meaningfulness of the proposed phytogeographical regions, we evaluated how they relate to broad scale environmental gradients. Physiographic factors such as geology do not have a strong correspondence with our proposed regions. Instead, we identified climate as the main environmental driver. The use of an unprecedentedly large dataset of multiple plant groups, coupled with an explicit quantitative analysis, makes this study novel and allows an improved historical bioregionalization scheme for Australian plants. Our analyses show that: (1) there is considerable overlap between our results and older biogeographic classifications; (2) phytogeographical regions based on species turnover can be a powerful tool to further partition the landscape into meaningful units; (3) further studies using phylogenetic turnover metrics are needed to test the taxonomic areas.

Species richness and endemism of Australian bryophytes

Abstract Although understanding the patterns of diversity is essential for conservation and environmental studies, an understanding of bryophyte distributions in Australia has been limited by the absence of continental-scale maps for patterns of bryophyte diversity. The aim of this study was to identify the patterns of species richness and endemism of hornworts, liverworts, and mosses in Australia. A database of 85 383 geo-referenced herbarium records was assembled and aggregated at a grid cell resolution of 0·5°. A one-cell radius neighbourhood analysis was applied to identify the spatial patterns of species richness and endemism. Primary centres of species richness were located on the east of the continent, with the highest number of species occurring in Queensland’s Wet Tropics, the Border Ranges near the Queensland–New South Wales border, the central coast of New South Wales, southern Victoria, and Tasmania. Endemism scores were high in the Wet Tropics, but highly endemic regions were scattered across the continent but not found in arid regions. The spatial patterns of diversity differed among hornworts, liverworts, and mosses, and areas of endemism and species richness did not always overlap. Comparisons with other taxa additionally indicated that areas of bryophyte diversity do not correspond with groups that are currently used as proxies in conservation.

Continental scale patterns and predictors of fern richness and phylogenetic diversity

Because ferns have a wide range of habitat preferences and are widely distributed, they are an ideal group for understanding how diversity is distributed. Here we examine fern diversity on a broad-scale using standard and corrected richness measures as well as phylogenetic indices; in addition we determine the environmental predictors of each diversity metric. Using the combined records of Australian herbaria, a dataset of over 60,000 records was obtained for 89 genera to infer richness. A molecular phylogeny of all the genera was constructed and combined with the herbarium records to obtain phylogenetic diversity patterns. A hotspot of both taxic and phylogenetic diversity occurs in the Wet Tropics of northeastern Australia. Although considerable diversity is distributed along the eastern coast, some important regions of diversity are identified only after sample-standardization of richness and through the phylogenetic metric. Of all of the metrics, annual precipitation was identified as the most explanatory variable, in part, in agreement with global and regional fern studies. However, precipitation was combined with a different variable for each different metric. For corrected richness, precipitation was combined with temperature seasonality, while correlation of phylogenetic diversity to precipitation plus radiation indicated support for the species-energy hypothesis. Significantly high and significantly low phylogenetic diversity were found in geographically separate areas. These separate areas correlated with different climatic conditions such as seasonality in precipitation. The phylogenetic metrics identified additional areas of significant diversity, some of which have not been revealed using traditional taxonomic analyses, suggesting that different ecological and evolutionary processes have operated over the continent. Our study demonstrates that it is possible and vital to incorporate evolutionary metrics when inferring biodiversity hotspots from large compilations of data.

Range‐weighted metrics of species and phylogenetic turnover can better resolve biogeographic transition zones

Understanding changes of biodiversity across the landscape underlies biogeography and ecology and is important in land management and conservation. Measures of species and phylogenetic turnover used to estimate the rate of change of assemblages between sets of locations are more often influenced by wide-ranging taxa. Transition zones between regions that are associated with range-restricted taxa can be obscured by wide-ranging taxa that span them. We present a set of new range-weighted metrics of taxon and phylogenetic turnover, as modifications of conventional metrics, where the range-restricted components of the assemblages are assigned greater weight in the calculations. We show how these metrics are derived from weighted endemism and phylogenetic endemism and demonstrate their properties using a continent-wide data set of Australian Acacia. The range-weighted metrics result in better delineated transition zones between regions, in that the rate of turnover is steeper than with conventional turnover measures. These metrics provide important complementary information for the interpretation of spatial turnover patterns derived from conventional turnover metrics. Additionally, the phylogenetic variant incorporates information about phylogenetic relatedness while also not saturating at high values of turnover, thus remaining useful for comparisons over greater distances than conventional turnover metrics.

Assessing biodiversity and endemism using phylogenetic methods across multiple taxonomic groups

Abstract Identifying geographical areas with the greatest representation of the tree of life is an important goal for the management and conservation of biodiversity. While there are methods available for using a single phylogenetic tree to assess spatial patterns of biodiversity, there has been limited exploration of how separate phylogenies from multiple taxonomic groups can be used jointly to map diversity and endemism. Here, we demonstrate how to apply different phylogenetic approaches to assess biodiversity across multiple taxonomic groups. We map spatial patterns of phylogenetic diversity/endemism to identify concordant areas with the greatest representation of biodiversity across multiple taxa and demonstrate the approach by applying it to the Murray–Darling basin region of southeastern Australia. The areas with significant centers of phylogenetic diversity and endemism were distributed differently for the five taxonomic groups studied (plant genera, fish, tree frogs, acacias, and eucalypts); no strong shared patterns across all five groups emerged. However, congruence was apparent between some groups in some parts of the basin. The northern region of the basin emerges from the analysis as a priority area for future conservation initiatives focused on eucalypts and tree frogs. The southern region is particularly important for conservation of the evolutionary heritage of plants and fishes.

Do soil and climate properties drive biogeography of the Australian proteaceae

AimsThe Proteaceae are a diverse family of approximately 80 genera and 1700 species with a mostly southern-hemisphere distribution. While distributional patterns of various subsets of the Proteaceae have been studied, no quantitative continental-scale study of species-level spatial biodiversity patterns of the Australian Proteaceae has been conducted. The aim of this study is to identify and examine patterns of distribution, diversity and endemism for the Proteaceae (at family, genera and species levels) of continental Australia and to investigate the environmental drivers for the observed patterns.MethodsUsing 151,899 herbarium records for 1179 Australian Proteaceae species, we investigate taxon richness, endemism, and compositional turnover along with climatic and soil correlates.ResultsSpecies richness and endemism was highest in the Southwest phytogeographical region, as well as the Atherton and Southeastern subregions. Genus richness was highest in the Northeastern and Atherton subregions. Highest species turnover occured in the Southwestern region and the Southeastern subregion while lowest species turnover occured in the Northern, Northern Desert and Eremaean regions. Over the entire continent, soil geochemistry and climate explain 37% of the variation in species turnover; however, in areas of high species richness, they account for >75% of the variation in species turnover.ConclusionsThese results suggest that the biogeographic patterns of the Proteaceae are impacted by climate and soils, where Proteaceae specialization has filled novel environmental niches associated with low nutrient and low water availability soils, particularly in southwestern Australia.

Climate and geochemistry as drivers of eucalypt diversification in Australia

Eucalypts cover most of Australia. Here, we investigate the relative contribution of climate and geochemistry to the distribution and diversity of eucalypts. Using geostatistics, we estimate major element concentrations, pH, and electrical conductivity at sites where eucalypts have been recorded. We compare the median predicted geochemistry and reported substrate for individual species that appear associated with extreme conditions; this provides a partial evaluation of the predictions. We generate a site-by-species matrix by aggregating observations to the centroids of 100-km-wide grid cells, calculate diversity indices, and use numerical ecology methods (ordination, variation partitioning) to investigate the ecology of eucalypts and their response to climatic and geochemical gradients. We find that β-diversity coincides with variations in climatic and geochemical patterns. Climate and geochemistry together account for less than half of the variation in eucalypt species assemblages across Australia but for greater than 80% in areas of high species richness. Climate is more important than geochemistry in explaining eucalypts species distribution and change in assemblages across Australia as a whole but there are correlations between the two sets of environmental variables. Many individual eucalypt species and entire taxonomic sections (Aromatica, Longistylus of subgenus Eucalyptus, Dumaria, and Liberivalvae of subgenus Symphyomyrtus) have distributions affected strongly by geochemistry. We conclude that eucalypt diversity is driven by steep geochemical gradients that have arisen as climate patterns have fluctuated over Australia over the Cenozoic, generally aridifying since the Miocene. The diversification of eucalypts across Australia is thus an excellent example of co-evolution of landscapes and biota in space and time and challenges accepted notions of macroecology.