Explanations for latitudinal diversity gradients must invoke rate variation

The latitudinal diversity gradient (LDG) describes the pattern of increasing numbers of species from the poles to the equator. Although recognized for over 200 years, the mechanisms responsible for the largest-scale and longest-known pattern in macroecology are still actively debated. I argue here that any explanation for the LDG must invoke differential rates of speciation, extinction, extirpation, or dispersal. These processes themselves may be governed by numerous abiotic or biotic factors. Hypotheses that claim not to invoke differential rates, such as ‘age and area’ or ‘time for diversification’, eschew focus from rate variation that is assumed by these explanations. There is still significant uncertainty in how rates of speciation, extinction, extirpation, and dispersal have varied regionally over Earth history. However, to better understand the development of LDGs, we need to better constrain this variation. Only then will the drivers of such rate variation – be they abiotic or biotic in nature – become clearer

Integrating ecology and evolution in deep time: using Ecological Niche Modeling to study species' evolutionary responses to climate change from the Pliocene to the present-day biodiversity crisis

The aim of my dissertation was to elucidate how environmental changes have influenced evolutionary and distributional patterns in the near-shore molluscan fauna of the Atlantic Coastal Plain (southeastern U.S.) over the past three million years. Disentangling the long-term evolutionary responses of species to environmental change is important for understanding the mechanisms controlling evolutionary processes and for assessing how current and future climate changes will impact Earth's biodiversity. My dissertation was comprised of three chapters that integrated both paleontological and neontological data to study the molluscan record of the Atlantic Coastal Plain. The first study in my dissertation focused on 14 extant marine mollusk species and their potential responses to future climate changes over the next ~100 years. Two hypotheses were tested: that suitable areas will shift northwards for these species, and that they will show varied responses to future climate change based on species-specific niche attributes. I found that species were not predicted to shift pole-ward, but rather showed varied responses to future warming. Many of the studied species will be hard hit by future climate changes, such that over 20% of their suitable area will disappear by the end of this century. The second study statistically analyzed whether the niches of mollusk species remained stable across three million years of profound environmental changes. Prior to this research, the long-term evolutionary dynamics of species' niches to differing climatic regimes remained uncertain, even though the question is vital to understanding the fate of biodiversity in a rapidly changing world. I found that species' tolerances were statistically similar from the Pliocene to the present-day, which suggest that species will respond to current and future warming by altering distributions to track suitable habitat, or, if the pace of change is too rapid, by going extinct. The last study tested whether niche breadth and/or geographic range size was a better predictor of extinction selectivity for mollusk species from the Pliocene. I hypothesized that species that went extinct post Pliocene would have smaller geographic ranges and smaller niche breadths compared with those species that are still extant. I found that only realized niche breadth (i.e., the breadth of the environment actually occupied by a species) and geographic range size, rather than fundamental niche breadth, are inversely related to extinction probability. This finding has implications for assessing which species are more at risk as a consequence of current and future climate changes, and helps to sharpen our understanding of which macroevolutionary processes shape patterns of diversity over evolutionary time scales. Together, these studies indicated that abiotic, environmental factors play a fundamental role in governing species' distributions in deep time. More specifically, species did not seem to rapidly evolve in response to new environmental conditions, but tracked preferred habitat or faced extirpation if conditions exceeded their tolerance limits. These findings can be used to ensure that paleobiology does not become the biology of the future

Biogeography and Evolution of the Araneae: A Synthetic Approach

Various methods are used to study the evolution and biogeography of the Araneae through time. Two new fossil spider species were described from Miocene Dominican amber and French Cretaceous amber. A preliminary biogeographic analysis was performed on the former in order to elucidate the biogeographic origins of the genus to which it belongs. Further, ecological niche modeling, a biogeographic technique used to delineate the set of tolerances and limits in multidimensional space that define where a species is potentially able to maintain populations, was undertaken on the brown recluse (Loxosceles reclusa) spider for extant distributions and potential future distributions given climate change. A methodological analysis addressing how error within species occurrence points influences model quality within ecological niche modeling was conducted. Results indicated that studies of lower spatial resolution are valid, if enough data are utilized; this has implications for using ecological niche modeling in the fossil record

Climate change is an important predictor of extinction risk on macroevolutionary timescales

Anthropogenic climate change is increasing rapidly and already impacting biodiversity. Despite its importance in future projections, understanding of the underlying mechanisms by which climate mediates extinction remains limited. We present an integrated approach examining the role of intrinsic traits versus extrinsic climate change in mediating extinction risk for marine invertebrates over the past 485 million years. We found that a combination of physiological traits and the magnitude of climate change is necessary to explain marine invertebrate extinction patterns. Our results suggest that taxa previously identified as extinction resistant may still succumb to extinction if the magnitude of climate change is great enough.</p

Experimental evidence that clay inhibits bacterial decomposers: Implications for preservation of organic fossils

Exceptionally preserved organic fossils are commonly associated with clay-rich horizons or directly with clay minerals. It has been posited that interactions between clay minerals and organic tissues inhibit enzymatic reactions or protect carcasses in such a way that decay is impeded. However, interactions between clay minerals and the biological agents of decay, especially bacteria, may be at least as important to preservation potential. Here we show that clays of particle size <2 μmm in suspensions exceeding 10 mg/ml in concentration inhibit the growth of Pseudoalteromonas luteoviolacea, a marine heterotrophic bacterium involved in the decay of marine animals. Such clay-microbe interactions can contribute to exceptional preservation, and specific examples may play a role in shaping the distribution of Konservat- Lagerstätten through time.</p

New Orchestina Simon, 1882 (Araneae: Oonopidae) From Cretaceous Ambers Of Spain And France: First Spiders Described Using Phase-Contrast X-Ray Synchrotron Microtomography

This is the publisher's version of this article. An electronic version is also available from: http://dx.doi.org/10.1111/j.1475-4983.2011.01123.x.Two new species of Orchestina (Araneae: Oonopidae) are described as O. gappi sp. nov. and O. rabagensis sp. nov. from the Cretaceous of France and Spain, respectively. Two additional specimens from Spain are placed within Orchestina but not assigned to species. These formal descriptions are the oldest for the genus and the family Oonopidae. The discovery of these older Orchestina is not surprising, as the genus is considered a basal member of the Oonopidae and one of the most diverse and long-lived spider lineages. Two of the spiders were imaged at the European Synchrotron Radiation Facility using propagation phase-contrast X-ray synchrotron microtomography, demonstrating once again the enormous potential of this technique for studying fossil inclusions in amber

Acknowledging uncertainty in evolutionary reconstructions of ecological niches

Reconstructing ecological niche evolution can provide insight into the biogeography and diversification of evolving lineages. However, comparative phylogenetic methods may infer the history of ecological niche evolution inaccurately because (a) species' niches are often poorly characterized; and (b) phylogenetic comparative methods rely on niche summary statistics rather than full estimates of species' environmental tolerances. Here, we propose a new framework for coding ecological niches and reconstructing their evolution that explicitly acknowledges and incorporates the uncertainty introduced by incomplete niche characterization. Then, we modify existing ancestral state inference methods to leverage full estimates of environmental tolerances. We provide a worked empirical example of our method, investigating ecological niche evolution in the New World orioles (Aves: Passeriformes: Icterus spp.). Temperature and precipitation tolerances were generally broad and conserved among orioles, with niche reduction and specialization limited to a few terminal branches. Tools for performing these reconstructions are available in a new R package called nichevol

Acknowledging uncertainty in evolutionary reconstructions of ecological niches

Reconstructing ecological niche evolution can provide insight into the biogeography and diversification of evolving lineages. However, comparative phylogenetic methods may infer the history of ecological niche evolution inaccurately because (a) species' niches are often poorly characterized; and (b) phylogenetic comparative methods rely on niche summary statistics rather than full estimates of species' environmental tolerances. Here, we propose a new framework for coding ecological niches and reconstructing their evolution that explicitly acknowledges and incorporates the uncertainty introduced by incomplete niche characterization. Then, we modify existing ancestral state inference methods to leverage full estimates of environmental tolerances. We provide a worked empirical example of our method, investigating ecological niche evolution in the New World orioles (Aves: Passeriformes: Icterus spp.). Temperature and precipitation tolerances were generally broad and conserved among orioles, with niche reduction and specialization limited to a few terminal branches. Tools for performing these reconstructions are available in a new R package called nichevol

Disparities in the analysis of morphological disparity

Analyses of morphological disparity have been used to characterize and investigate the evolution of variation in the anatomy, function and ecology of organisms since the 1980s. While a diversity of methods have been employed, it is unclear whether they provide equivalent insights. Here, we review the most commonly used approaches for characterizing and analysing morphological disparity, all of which have associated limitations that, if ignored, can lead to misinterpretation. We propose best practice guidelines for disparity analyses, while noting that there can be no ‘one-size-fits-all’ approach. The available tools should always be used in the context of a specific biological question that will determine data and method selection at every stage of the analysis

BioDeepTime : a database of biodiversity time series for modern and fossil assemblages

We thank the Paleosynthesis Project and the Volkswagen Stiftung for funding that supported this project (Az 96 796). M.C.R. acknowledges the German Research Foundation (DFG) for funding through the Cluster of Excellence ‘The Ocean Floor – Earth's Uncharted Interface’ (EXC 2077, grant no. 390741603). E.E.S. acknowledges funding from Leverhulme Trust grant RPG-201170, the Leverhulme Prize and the National Science Research Council grant NE/V011405/1. Q.J.L. and L.N. acknowledge support from the Youth Innovation Promotion Association (2019310) and the Chinese Academy of Sciences (CAS-WX2021SF-0205). A.M.P. acknowledges funding from the Leverhulme Trust through research grant RPG-2019-402. M.D. acknowledges funding from Leverhulme Trust through the Leverhulme Centre for Anthropocene Biodiversity (RC-2018-021) and a research grant (RPG-2019-402), and the European Union (ERC coralINT, 101044975). L. H. L. acknowledges funding from the European Research Council (macroevolution.abc ERC grant no. 724324). K.H.P acknowledges funding from the National Science Foundation Graduate Research Fellowship Program (DGE-2139841). H.H.M.H. acknowledges support from Peter Buck Postdoc Fellowship, Smithsonian Institution. A.T. acknowledges funding from the Slovak Research and Development Agency (APVV 22-0523) and the Slovak Scientific Grant Agency (VEGA 02/0106/23).Motivation We have little understanding of how communities respond to varying magnitudes and rates of environmental perturbations across temporal scales. BioDeepTime harmonizes assemblage time series of presence and abundance data to help facilitate investigations of community dynamics across timescales and the response of communities to natural and anthropogenic stressors. BioDeepTime includes time series of terrestrial and aquatic assemblages of varying spatial and temporal grain and extent from the present-day to millions of years ago. Main Types of Variables Included BioDeepTime currently contains 7,437,847 taxon records from 10,062 assemblage time series, each with a minimum of 10 time steps. Age constraints, sampling method, environment and taxonomic scope are provided for each time series. Spatial Location and Grain The database includes 8752 unique sampling locations from freshwater, marine and terrestrial ecosystems. Spatial grain represented by individual samples varies from quadrats on the order of several cm2 to grid cells of ~100 km2. Time Period and Grain BioDeepTime in aggregate currently spans the last 451?million years, with the 10,062 modern and fossil assemblage time series ranging in extent from years to millions of years. The median extent of modern time series is 18.7?years and for fossil series is 54,872?years. Temporal grain, the time encompassed by individual samples, ranges from days to tens of thousands of years. Major Taxa and Level of Measurement The database contains information on 28,777 unique taxa with 4,769,789 records at the species level and another 271,218 records known to the genus level, including time series of benthic and planktonic foraminifera, coccolithophores, diatoms, ostracods, plants (pollen), radiolarians and other invertebrates and vertebrates. There are to date 7012 modern and 3050 fossil time series in BioDeepTime. Software Format SQLite, Comma-separated values.Publisher PDFPeer reviewe