Paleoecological Datasets Research Articles

The PATCH Lab v1.0: A database and workspace for Cenozoic terrestrial paleoclimate and environment reconstruction

In the last two decades, analytical advances and a growing interest in relevant research questions has brought a rapid increase in the amount of stable isotope data used for reconstructing terrestrial paleoclimates and environments. As the spatial and temporal resolution of proxy data continues to improve, the quantitative interpretation of these data is becoming increasingly common. These advances in data resolution and theory bring opportunities for multi-proxy comparisons, synthesis and modeling of large datasets, integration with paleoecological datasets, improved climate model benchmarking, and more. Here, in an effort to support these growing avenues of research, we present <i>The PATCH Lab</i> (Paleo-Analysis of Terrestrial Climate and Hydrology)—an online portal to discover, download, and quantitatively analyze deep time (<math xmlns="http://www.w3.org/1998/Math/MathML" id="u1" display="inline" overflow="scroll"><mrow><mo>&gt;</mo><mn>1</mn></mrow></math> Ma) terrestrial stable isotope data. The PATCH Lab portal hosts a new database that currently includes 27009 stable isotope measurements from 211 publications spanning multiple terrestrial proxies, and quantitative models for interpreting water isotope and soil carbonate data. Data query, download, and modeling results are organized into user-friendly graphical interfaces that export datasets as .csv files. New data can be easily submitted to the PATCH Lab curators through the portal by completing a data submission template. The PATCH Lab, with the help of community engagement, serves as a resource for archiving terrestrial stable isotope data, building paleo “isoscapes”, and increasing accessibility to quantitative methods of investigating terrestrial stable isotopes in paleoclimate.

Examining paleobotanical databases: Revisiting trends in angiosperm folivory and unlocking the paleoecological promise of propensity score matching and specification curve analysis

Paleobotany is at a crossroads. Long-term trends in the fossil record of plants, encompassing their interactions with herbivores and with the environment, are of the utmost relevance for predicting global change as pCO2 continues to rise. Large data compilations with the potential to elucidate those trends are increasingly easy to assemble and access. However, in contrast to modern ecology and unlike various other paleontological disciplines, paleobotany has a limited history of “big data” meta-analyses. Debates about how much data are needed to address particular questions, and about how to control for potential confounding variables, have not examined paleobotanical data. Here I demonstrate the importance of analytical best practices by applying them to a recent meta-analysis of fossil angiosperms. Two notable analytical methods discussed here are propensity score matching and specification curve analysis. The former has been used in the biomedical and behavioral sciences for decades; the latter is a more recent method of examining relationships between, and inherent biases among, models. Propensity score matching allows one to account for potential confounding variables in observational studies, and more fundamentally, provides a way to quantify whether it is possible to account for them. Specification curve analysis provides the opportunity to examine patterns across a variety of schemes for partitioning data—for example, whether fossil assemblages are binned temporally by stage, epoch, or period. To my knowledge, neither of these methods has been used previously in paleontology, however, their use permits more robust analysis of paleoecological datasets. In the example provided here, propensity score matching is used to separate latitudinal trends from differences in age, climate, and plant community composition. Specification curve analysis is used to examine the robustness of apparent latitudinal trends to the schema used for assigning fossil assemblages to latitudinal bins. These analytical methods have the potential to further unlock the promise of the plant fossil record for elucidating long-term ecological and evolutionary change.

Rate-of-change analysis in paleoecology revisited: A new approach

Dynamics in the rate of compositional change (rate-of-change; RoC), preserved in paleoecological sequences, are thought to reflect changes due to exogenous (climate and human forcing) or endogenous (local dynamics and biotic interactions) drivers. However, changes in sedimentation rates and sampling strategies can result in an uneven distribution of time intervals and are known to affect RoC estimates. Furthermore, there has been relatively little exploration of the implications of these challenges in quantifying RoC in paleoecology.Here, we introduce R-Ratepol – an easy-to-use R package – that provides a robust numerical technique for detecting and summarizing RoC patterns in complex multivariate time-ordered stratigraphical sequences. First, we compare the performance of common methods of estimating RoC and detecting periods of high RoC (peak-point) using simulated pollen-stratigraphical data with known patterns of compositional change and temporal resolution. In addition, we propose a new method of binning with a moving window, which shows a more than 5-fold increase in the correct detection of peak-points compared to the more traditional way of using individual levels.Next, we apply our new methodology to four representative European pollen sequences and show that our approach also performs well in detecting periods of significant compositional change during known onsets of human activity, early land-use transformation, and changes in fire frequency.Expanding the approach using R-Ratepol to open-access paleoecological datasets in global databases, such as Neotoma, will allow future paleoecological and macroecological studies to quantify major changes in biotic composition or in sets of abiotic variables across broad spatiotemporal scales.

The influence of collection method on paleoecological datasets: In-place versus surface-collected fossil samples in the Pennsylvanian Finis Shale, Texas, USA.

There are multiple common methods for collecting fossil material in the field for paleoecological analyses, so it is important to determine if and how different methods may affect the similarities and differences among taxonomic samples. Here, we evaluate the influence of two fossil collection field methods (stratigraphically in-place bulk-sediment versus picking up weathered-out fossils from the ground surface) on paleoecological results, using the Pennsylvanian marine invertebrate assemblages of the Finis Shale in Texas. Based on an informal review of recent paleoecology papers, we observed that the lithology of the study material and the nature of the research question correspond to choice of field collection protocols; however, collection protocols are not always clearly explained or justified in the text of the papers. For the present case study, we collected stratigraphically equivalent samples from three outcrops using both the surface pick-up and in-place bulk sediment methods. We found a difference in the abundance and composition of paleocommunities between these two collection methods. Evidence to support this includes the significant differences between samples using PERMANOVA (p < 0.001), the clear separation in ordination space of samples clustered by sampling method, the significantly higher richness in the surface samples (p < 0.001), and the considerable variation in relative abundances of various taxa and taxonomic groups. Richness and evenness were higher among the surface-collected samples, possibly due to collector bias, weathering artifacts, or spatial and temporal variability. Paleontologists strive to do the best science possible with the material available. Often, paleoecological research methods are limited by time, funding, or the nature of the material. In such cases, we recommend examining both collection methods, even if for only a fraction of the sampling. If only one method is possible, we recommend the use in-place, bulk-collected samples.

The Burgess Shale paleocommunity with new insights from Marble Canyon, British Columbia

AbstractThe middle (Wuliuan Stage) Cambrian Burgess Shale is famous for its exceptional preservation of diverse and abundant soft-bodied animals through the “thick” Stephen Formation. However, with the exception of the Walcott Quarry (Fossil Ridge) and the stratigraphically older Tulip Beds (Mount Stephen), which are both in Yoho National Park (British Columbia), quantitative assessments of the Burgess Shale have remained limited. Here we first provide a detailed quantitative overview of the diversity and structure of the Marble Canyon Burgess Shale locality based on 16,438 specimens. Located 40 km southeast of the Walcott Quarry in Kootenay National Park (British Columbia), Marble Canyon represents the youngest site of the “thick” Stephen Formation. We then combine paleoecological data sets from Marble Canyon, Walcott Quarry, Tulip Beds, and Raymond Quarry, which lies approximately 20 m directly above the Walcott Quarry, to yield a combined species abundance data set of 77,179 specimens encompassing 234 species-level taxa. Marble Canyon shows significant temporal changes in both taxonomic and ecological groups, suggesting periods of stasis followed by rapid turnover patterns at local and short temporal scales. At wider geographic and temporal scales, the different Burgess Shale sites occupy distinct areas in multivariate space. Overall, this suggests that the Burgess Shale paleocommunity is far patchier than previously thought and varies at both local and regional scales through the “thick” Stephen Formation. This underscores that our understanding of Cambrian diversity and ecological networks, particularly in early animal ecosystems, remains limited and highly dependent on new discoveries.

A Holocene paleoenvironmental record based on ungulate stable isotopes from Lukenya Hill, Kenya

Investigating the development of Holocene behavioral adaptations requires knowing how and why different human groups are distributed on the landscape. An expanded dataset of site-specific environmental and habitat reconstructions from eastern Africa are crucial contextual components necessary for pushing this line of inquiry forward. This paper provides localized paleoenvironmental data from Holocene deposits at the multi-site Lukenya Hill archaeological complex on the Athi-Kapiti Plains of Kenya. Lukenya Hill preserves two temporal units, an early-mid Holocene (~9.0–4.6 ka) and a late Holocene (~2.3–1.2 ka), which span the end of the African Humid Period and the onset of late Holocene aridification. Carbon isotope analysis of herbivore tooth enamel (n = 22) indicates an increase in open grasslands over time with the early-mid Holocene having a woodier signal than the late Holocene and Recent populations in the Athi ecosystem. This pattern deviates from local environmental sequences in the Lake Victoria and Lake Turkana basins, providing additional evidence of heterogeneous habitat conditions during the Holocene of eastern Africa. The expansion of locally specific paleoecological datasets in eastern Africa allows for an examination of the role climate and ecology played in human economic and behavioral development during the Holocene.

Assessing the links between resilience, disturbance and functional traits in paleoecological datasets

Assessing the links between resilience, disturbance and functional traits in paleoecological datasets

Human settlement and Mid-Late Holocene coastal environmental change at Cape Krusenstern, Northwest Alaska

Archaeologists hypothesize that mid-late Holocene environmental variability played a role in several significant western Arctic cultural developments including population fluctuations, the evolution of Arctic maritime adaptations, and Arctic-wide migrations. Further evaluation of these hypotheses requires higher resolution archaeological and paleoecological datasets than are currently available. In response, we undertook an interdisciplinary study at Cape Krusenstern, a large coastal site complex in northwest Alaska, which was occupied over the last ca. 5000–6000 years. Our goals were to refine local cultural and paleoenvironmental chronologies and to explore the question of how local environmental change may have influenced local settlement history. The resulting revised chronology and depositional units confirm and refine prior interpretation of the local archaeological settlement history. New geomorphological data on coastal environmental change and post-depositional modification of the Cape Krusenstern beach ridge system also provide information about patterns of archaeological site preservation, indicating periods of potentially poorer site preservation around 3990 cal BP; this informs interpretation of forager settlement data. Furthermore, our findings suggest that climate-driven changes in the coastal environment at Cape Krusenstern may not be as determinative in terms of landscape evolution as previously thought. Future work should focus on further investigating the relationship between beach ridge development and regional climatic patterns on a regional scale, as this has implications for use of beach ridges as a mid-late Holocene climate proxy. Continued efforts to build paleoenvironmental reconstructions of higher temporal and spatial resolution for the region will help address remaining questions about the relationship between local coastal environmental changes and regional patterns, and the impacts of these environmental shifts on local residents.

Orbital-scale environmental and climatic changes recorded in a new ∼200,000-year-long multiproxy sedimentary record from Padul, southern Iberian Peninsula

Padul is one of the few wetland sites in southern Europe and the Mediterranean region that exhibits an unusually large temporal span (>100 kyr) and continuous Quaternary sedimentary record. Previous core-based studies from Padul yielded paleoecological datasets (i.e., pollen and organic geochemistry), but with a poor age control that resulted in rather arbitrary climate inferences. Therefore, precise age control and a multidisciplinary approach is necessary to understand long-term regional environmental and climate change and the associated local response of the Padul wetland environment. Here we present a new long sediment record (Padul-15-05) from this wetland in the southern Iberian Peninsula with the aim of improving the age control of the sedimentary sequence and carrying out up-to-date high-resolution multiproxy analyses. In this study the age control is based on 61 AMS radiocarbon dates for the last ca. 50 kyr BP and on the extent of amino acid racemization (AAR) in mollusc shells extending back ∼118 kyr BP. No numerical ages are available for the bottom part of the core but the sediment accumulation rates (SAR) and the cyclostratigraphic analysis of the multiproxy data suggest that the core preserves a continuous record of the last ∼197 kyr (from late MIS 7 to present) with millennial-scale time resolution. Sedimentological (lithology, magnetic susceptibility, XRD, color), geochemical (XRF, TOC, C/N, % carbonate content) and paleontological (pollen, charophytes, gastropods) data show co-varying cyclical paleoenvironmental changes linked to orbital-scale climatic variability. Silicon, magnetic susceptibility (MS) and total organic carbon (TOC) data show periodicities between ∼26.2–19.6 kyr linked to insolation, which is strongly dominated by precession cycles at this latitude. High values of Si and MS data have been related to high siliciclastic/detrital input from Sierra Nevada range during minima in insolation due to enhanced soil weathering/erosion during regional aridity and lower forest cover recorded by the arboreal pollen, which could also be favored by a minor biogenic productivity. In addition, warm climate conditions during maxima in insolation mostly resulted in negative precipitation/evapotranspiration balance and low lake levels, while cold glacial and stadial periods were mainly characterized by positive precipitation/evapotranspiration balance, and therefore, high lake levels. The improved chronology of the Padul sedimentary sequence along with a multiproxy study permitted us to better relate environmental and vegetation changes to climatic events and to demonstrate how both local (i.e., lake level, sedimentation) and regional (i.e., vegetation) environments responded to orbital-scale climate changes.

Ecological consequences of human niche construction: Examining long-term anthropogenic shaping of global species distributions

The exhibition of increasingly intensive and complex niche construction behaviors through time is a key feature of human evolution, culminating in the advanced capacity for ecosystem engineering exhibited by Homo sapiens. A crucial outcome of such behaviors has been the dramatic reshaping of the global biosphere, a transformation whose early origins are increasingly apparent from cumulative archaeological and paleoecological datasets. Such data suggest that, by the Late Pleistocene, humans had begun to engage in activities that have led to alterations in the distributions of a vast array of species across most, if not all, taxonomic groups. Changes to biodiversity have included extinctions, extirpations, and shifts in species composition, diversity, and community structure. We outline key examples of these changes, highlighting findings from the study of new datasets, like ancient DNA (aDNA), stable isotopes, and microfossils, as well as the application of new statistical and computational methods to datasets that have accumulated significantly in recent decades. We focus on four major phases that witnessed broad anthropogenic alterations to biodiversity—the Late Pleistocene global human expansion, the Neolithic spread of agriculture, the era of island colonization, and the emergence of early urbanized societies and commercial networks. Archaeological evidence documents millennia of anthropogenic transformations that have created novel ecosystems around the world. This record has implications for ecological and evolutionary research, conservation strategies, and the maintenance of ecosystem services, pointing to a significant need for broader cross-disciplinary engagement between archaeology and the biological and environmental sciences.

Hydroclimatic variability drives episodic expansion of a floating peat mat in a North American kettlehole basin

The coming century is predicted to feature enhanced climatic variability, including increased frequency, intensity, and duration of extreme climatic events. Ecologists are faced with the critical challenge of anticipating potentially nonlinear ecosystem responses to these changes. High-resolution paleoecological data sets that capture past ecosystem responses to climate variability provide valuable long-term perspectives on the sensitivity of ecosystems to climate-forced state shifts. We used a suite of paleoecological analyses at Titus Bog in northwestern Pennsylvania, USA, to test the hypothesis that the development and expansion of floating peatlands in kettlehole basins represents a threshold response to hydroclimate variability. In contrast with expectations of gradual autogenic peat mat expansion, our results indicate that peat mat expansion at Titus Bog was highly episodic and occurred in three distinct pulses centered on 800, 650, and 400 cal yr BP. Each of these expansion events coincided with or immediately followed decadal-to-mutlidecadal droughts recorded in regional paleoclimate reconstructions. These patterns indicate that peatland development in kettlehole basins can follow nonlinear trajectories, with episodes of rapid advancement triggered by climatic forcing. Future climate changes may increase the likelihood of peatland expansion in kettlehole basins, potentially leading to abrupt changes in adjacent lake ecosystems.

Shifting adaptive landscapes: Progress and challenges in reconstructing early hominid environments

Since Darwin situated humans in an evolutionary framework, much discussion has focused on environmental factors that may have shaped or influenced the course of human evolution. Developing adaptive or causal perspectives on the morphological and behavioral variability documented in the human fossil record requires establishing a comprehensive paleoenvironmental context. Reconstructing environments in the past, however, is a complex undertaking, requiring assimilation of diverse datasets of varying quality, scale, and relevance. In response to these difficulties, human evolution has traditionally been interpreted in a somewhat generalized framework, characterized primarily by increasing aridity and seasonality periodically punctuated by pulses or intervals of environmental change, inferred largely from global climatic records. Although these broad paradigms provide useful heuristic approaches for interpreting human evolution, the spatiotemporal resolution remains far too coarse to develop unambiguous causal links. This challenge has become more acute as the emerging paleoenvironmental evidence from equatorial Africa is revealing a complex pattern of habitat heterogeneity and persistent ecological flux throughout the interval of human evolution. In addition, recent discoveries have revealed significant taxonomic diversity and substantially increased the geographic and temporal range of early hominids. These findings raise further questions regarding the role of the environment in mediating or directing the course of human evolution. As a consequence, it is imperative to critically assess the environmental criteria on which many theories and hypotheses of human evolution hinge. The goals here are to 1) compile, review, and evaluate relevant paleoecological datasets from equatorial Africa spanning the last 10 Ma, 2) develop a hierarchical perspective for developing and evaluating hypotheses linking paleoecology to patterns and processes in early hominid evolution, and 3) suggest a conceptual framework for modeling and interpreting environmental data relevant to human evolution in equatorial Africa.

Numerical and taxonomic scale of analysis in paleoecological data sets: Examples from neo-tropical Pleistocene reef coral communities

I investigated the degree to which the interpretation of reef coral distribution data is influenced by the numerical and taxonomic scale of analysis in Pleistocene coral communities from the Caribbean Sea. Patterns of community differentiation analyzed at both species and genus levels showed only small differences using different numerical scales (relative abundance, rank abundance and species presence and absence). Whereas some differences were observed between species and genus level patterns, they had little effect on paleoecological interpretations. The greatest differences occurred when presence and absence analyses of assemblages sampled along 40-m transects were compared with those sampled along 40-m transects augmented by a one-hour search for rare taxa. These results suggest that paleoecological interpretations of Quaternary coral communities are robust to numerical scale of analysis at the species and genus level, and to taxonomic scale between the species and genus level. However, interpretations of community structure are sensitive to sampling intensity, geographic scale, and sample size.

Analysis of Benthic Communities in the Cyclades Plateau (Aegean Sea) Using Ecological and Paleoecological Data Sets.

. In the Cyclades plateau (Aegean Sea), a qualitative and quantitative analysis of macro‐benthic fauna was carried out in 1986. Standard multivariate analysis techniques were applied to both ecological (living benthic fauna) and paleoecological data sets in order to distinguish distribution patterns.Results showed that caution must prevail in drawing conclusions from a limited data set. The clearest classification was obtained using total living fauna, while the dead molluscan fauna gave a similar pattern; this indicates similar response to the environmental conditions of the area. In the analysis of the living molluscan fauna, the groups failed to show any clusters, probably as an effect of some impoverished sites.In the two groups delineated, depth seems to be the major factor in the distribution of species.The fact that two distinct data sets (subfossil assemblages and living communities), when treated separately, produce similar grouping indicates that the subfossil assemblages could be reliably used as a first approach for determination of the living communities' distribution patterns.

Stochasticity in Stream Fish Communities: An Alternative Interpretation

Stochasticity in Stream Fish Communities: An Alternative Interpretation