The bii4africa dataset of faunal and floral population intactness estimates across Africa's major land uses.

Sub-Saharan Africa is under-represented in global biodiversity datasets, particularly regarding the impact of land use on species' population abundances. Drawing on recent advances in expert elicitation to ensure data consistency, 200 experts were convened using a modified-Delphi process to estimate 'intactness scores': the remaining proportion of an 'intact' reference population of a species group in a particular land use, on a scale from 0 (no remaining individuals) to 1 (same abundance as the reference) and, in rare cases, to 2 (populations that thrive in human-modified landscapes). The resulting bii4africa dataset contains intactness scores representing terrestrial vertebrates (tetrapods: ±5,400 amphibians, reptiles, birds, mammals) and vascular plants (±45,000 forbs, graminoids, trees, shrubs) in sub-Saharan Africa across the region's major land uses (urban, cropland, rangeland, plantation, protected, etc.) and intensities (e.g., large-scale vs smallholder cropland). This dataset was co-produced as part of the Biodiversity Intactness Index for Africa Project. Additional uses include assessing ecosystem condition; rectifying geographic/taxonomic biases in global biodiversity indicators and maps; and informing the Red List of Ecosystems.

Functional traits shape plant-plant interactions and recruitment in a hotspot of woody plant diversity.

Understanding and predicting recruitment in species-rich plant communities requires identifying functional determinants of both density-independent performance and interactions. In a common-garden field experiment with 25 species of the woody plant genus Protea, we varied the initial spatial and taxonomic arrangement of seedlings and followed their survival and growth during recruitment. Neighbourhood models quantified how six key functional traits affect density-independent performance, interaction effects and responses. Trait-based neighbourhood models accurately predicted individual survival and growth from the initial spatial and functional composition of species-rich experimental communities. Functional variation among species caused substantial variation in density-independent survival and growth that was not correlated with interaction effects and responses. Interactions were spatially restricted but had important, predominantly competitive, effects on recruitment. Traits increasing the acquisition of limiting resources (water for survival and soil P for growth) mediated trade-offs between interaction effects and responses. Moreover, resprouting species had higher survival but reduced growth, likely reinforcing the survival-growth trade-off in adult plants. Resource acquisition of juvenile plants shapes Protea community dynamics with acquisitive species with strong competitive effects suffering more from competition. Together with functional determinants of density-independent performance, this makes recruitment remarkably predictable, which is critical for efficient restoration and near-term ecological forecasts of species-rich communities.

The response of geophytes to continuous human foraging on the Cape south coast, South Africa and its implications for early hunter-gatherer mobility patterns.

Current ecological understanding of plants with underground storage organs (USOs) suggests they have, in general, low rates of recruitment and thus as a resource it should be rapidly exhausted, which likely had implications for hunter-gatherer mobility patterns. We focus on the resilience (defined here as the ability of species to persist after being harvested) of USOs to human foraging. Human foragers harvested all visible USO material from 19 plots spread across six Cape south coast (South Africa) vegetation types for three consecutive years (2015-2017) during the period of peak USO apparency (September-October). We expected the plots to be depleted after the first year of harvesting since the entire storage organ of the USO is removed during foraging, i.e. immediate and substantial declines from the first to the second harvest. However, over 50% of the total weight harvested in 2015 was harvested in 2016 and 2017; only after two consecutive years of harvesting, was there evidence of significantly lower yield (p = 0.034) than the first (2015) harvest. Novel emergence of new species and new individuals in year two and three buffered the decline of harvested USOs. We use our findings to make predictions on hunter-gatherer mobility patterns in this region compared to the Hadza in East Africa and the Alyawara in North Australia.

Guiding restoration of riparian ecosystems degraded by plant invasions: Insights from a complex social-ecological system in the Global South.

Restoring riparian ecosystems in human-dominated landscapes requires attention to complexity, and consideration of diverse drivers, social actors, and contexts. Addressing a Global North bias, this case study uses a mixed-method approach, integrating historical data, remote sensing techniques and stakeholder perceptions to guide restoration of a river in the Western Cape, South Africa. An analysis of aerial photographs of the riparian zone from 1953 to 2016 revealed that although anthropogenic land conversion happened primarily before the 1950s, several land use and land cover classes showed marked increases in area, including: waterbodies (+ 1074%), urban areas (+ 316%), alien weeds (+ 311%) and terrestrial alien trees (+ 79%). These changes have likely been driven by land fragmentation, disturbance, and agricultural intensification. Stakeholder interviews revealed that despite the clear need for restoration, several barriers exist to successful implementation; these stem from inadequate financial resources, inappropriate funding models, institutional challenges, and a lack of techno-scientific knowledge. We give several recommendations to overcome these barriers.

Mechanistic reconciliation of community and invasion ecology.

Community and invasion ecology have mostly grown independently. There is substantial overlap in the processes captured by different models in the two fields, and various frameworks have been developed to reduce this redundancy and synthesize information content. Despite broad recognition that community and invasion ecology are interconnected, a process-based framework synthesizing models across these two fields is lacking. Here we review 65 representative community and invasion models and propose a common framework articulated around six processes (dispersal, drift, abiotic interactions, within-guild interactions, cross-guild interactions, and genetic changes). The framework is designed to synthesize the content of the two fields, provide a general perspective on their development, and enable their comparison. The application of this framework and of a novel method based on network theory reveals some lack of coherence between the two fields, despite some historical similarities. Community ecology models are characterized by combinations of multiple processes, likely reflecting the search for an overarching theory to explain community assembly and structure, drawing predominantly on interaction processes, but also accounting largely for the other processes. In contrast, most models in invasion ecology invoke fewer processes and focus more on interactions between introduced species and their novel biotic and abiotic environment. The historical dominance of interaction processes and their independent developments in the two fields is also reflected in the lower level of coherence for models involving interactions, compared to models involving dispersal, drift, and genetic changes. It appears that community ecology, with a longer history than invasion ecology, has transitioned from the search for single explanations for patterns observed in nature to investigate how processes may interact mechanistically, thereby generating and testing hypotheses. Our framework paves the way for a similar transition in invasion ecology, to better capture the dynamics of multiple alien species introduced in complex communities. Reciprocally, applying insights from invasion to community ecology will help us understand and predict the future of ecological communities in the Anthropocene, in which human activities are weakening species' natural boundaries. Ultimately, the successful integration of the two fields could advance a predictive ecology that is urgently required in a rapidly changing world.

The loneliness of the long-distance ethnobotanist: a constructive critique of methods used in an ethnoveterinary study in Mongolia.

BACKGROUND: Fieldwork plays an important role in research projects across a variety of fields, especially in the multidisciplinary setting of natural and social science research. As is the nature of fieldwork, things do not always work out as planned, and yet this is not often written about. In response to the need for honest and transparent accounts of fieldwork, the purpose of this article is to review the methods used during fieldwork for the first author's dissertation research on ethnoveterinary knowledge. METHODS: To critically review and reflect on the fieldwork methods used for an ethnoveterinary study in Mongolia, we compare the theory underpinning each method with the practical reality of implementing the method in the field. From this comparison, we draw out and discuss a number of key themes. RESULTS: Eighteen methods and approaches used for the research project are reviewed and compared. From this, we distil and further discuss the following five overarching themes: reflections on specific data collection methods (free listing, semi-structured interviews with interpreters, voucher specimen collection); assumptions around involving local people; power dynamics; gender relations; and researcher well-being. CONCLUSION: By juxtaposing the theory and practical reality of the methods used, we highlight many potential fieldwork challenges and, within this context, offer general pointers, especially for novice female researchers doing fieldwork in foreign countries. A critical review of this type, where the experience and use of various methods, techniques, and approaches are openly shared and evaluated, is a contribution to selecting, adapting, and fine-tuning the methods best suited to a particular research context.

Grit and consequence.

Grit is implicated in several biological phenomena-it wears teeth, it fractures teeth, it drives tooth evolution, it elicits complex manual manipulations-any one of which could be described as a central topic in evolutionary anthropology. But what is grit? We hardly know because we tend to privilege the consequences of grit (it is abrasive) over its formal features, all but ignoring crucial variables such as mineral composition, material properties, and particle geometry (size, angularity), not to mention natural variation in the habitats of primates and their food surfaces. Few topics have animated so much debate and invited such cool indifference at the same time. Our goal here is to shine a light on grit, to put a philosophical lens on the nature of our discourse, and to call attention to large empirical voids that should be filled and folded into our understanding of primate natural history and evolution.

Typologies of collaborative governance for scaling nature-based solutions in two strategic South African river systems.

Scaled up planning and implementation of nature-based solutions requires better understanding of broad characteristics (typologies) of the current governance and financing landscape, collaborative approaches amidst local complexities, and factors of scalability. An inventory was compiled of water-related ecological infrastructure intervention projects in two river systems in South Africa, incorporating actor, environmental, social, and financial dimensions and benefits. Qualitative participatory analysis revealed eight typologies. Post-hoc classification analysis determined similarities and/or unique characteristics of seven quantitative typologies. Key characterising factors included the complexity/size of financial flows, complexity of partnership/governance arrangements, mandates/goals of actors, type of ecological infrastructure, trade-offs in investment in ecological/built infrastructure, and the model used for social benefits. Identified scalable typologies offer structures suited to increased investment, with other typologies offering specialised local value. A range of ecological infrastructure intervention typologies with differing biophysical and socioeconomic outcomes provide choices for investors with specific goals, and benefits to landscape actors.

The dominating influence of efficacy above management strategy in the long-term success of alien plant clearing programmes.

Conservation managers are required to make decisions in complex and uncertain contexts. To strengthen the robustness of conservation decisions, several approaches have been proposed to facilitate stakeholder engagement in the setting of conservation objectives and priority actions. While such processes have led to the formulation of several invasive alien plant management strategies to achieve specific objectives, the long-term consequences and trade-offs inherent in these strategies have not been tested. The performance of five of these strategies over 50 years was tested in the protected area context using empirical data from Table Mountain National Park, South Africa. A simulation model based on data for invasive Acacia species in a fire-driven ecosystem, focused on the interaction between strategy performance and clearing efficacy in achieving a management goal or reducing Acacia density to below 1 plant per hectare. At near perfect levels of clearing efficacy, all strategies converged towards reaching the management goal, while at lower efficacy levels the strategies diverged in their ability to achieve desired outcomes. Despite working across the largest area, strategies that focussed on clearing low density invasions, maintained the least area in a maintenance state over time. In contrast, strategies that focussed on a mix of post-fire, low density areas and high altitude areas cleared less area annually, but maintained a much larger area in a maintenance state. At higher levels of efficacy, strategies that return to previously worked areas were more successful than a post-fire strategy. Strategies that focused solely on securing water, performed poorly in maintaining low overall density of aliens. However, the influence of efficacy was significant and substantial and a much larger difference in area reaching the management goal was achieved by varying efficacy than varying strategy. As such, improving quality of work and implementation will have a far greater effect than which areas are prioritized or how this prioritization is done. While acacias are likely to persist in the long-term, improving work quality coupled with correct strategy selection will ensure continued gains in the area under maintenance and improved return on investment over time.

Mismatches between demographic niches and geographic distributions are strongest in poorly dispersed and highly persistent plant species.

The ecological niche of a species describes the variation in population growth rates along environmental gradients that drives geographic range dynamics. Niches are thus central for understanding and forecasting species' geographic distributions. However, theory predicts that migration limitation, source-sink dynamics, and time-lagged local extinction can cause mismatches between niches and geographic distributions. It is still unclear how relevant these niche-distribution mismatches are for biodiversity dynamics and how they depend on species life-history traits. This is mainly due to a lack of the comprehensive, range-wide demographic data needed to directly infer ecological niches for multiple species. Here we quantify niches from extensive demographic measurements along environmental gradients across the geographic ranges of 26 plant species (Proteaceae; South Africa). We then test whether life history explains variation in species' niches and niche-distribution mismatches. Niches are generally wider for species with high seed dispersal or persistence abilities. Life-history traits also explain the considerable interspecific variation in niche-distribution mismatches: poorer dispersers are absent from larger parts of their potential geographic ranges, whereas species with higher persistence ability more frequently occupy environments outside their ecological niche. Our study thus identifies major demographic and functional determinants of species' niches and geographic distributions. It highlights that the inference of ecological niches from geographical distributions is most problematic for poorly dispersed and highly persistent species. We conclude that the direct quantification of ecological niches from demographic responses to environmental variation is a crucial step toward a better predictive understanding of biodiversity dynamics under environmental change.

Horizon scanning for South African biodiversity: A need for social engagement as well as science.

A horizon scan was conducted to identify emerging and intensifying issues for biodiversity conservation in South Africa over the next 5-10 years. South African biodiversity experts submitted 63 issues of which ten were identified as priorities using the Delphi method. These priority issues were then plotted along axes of social agreement and scientific certainty, to ascertain whether issues might be "simple" (amenable to solutions from science alone), "complicated" (socially agreed upon but technically complicated), "complex" (scientifically challenging and significant levels of social disagreement) or "chaotic" (high social disagreement and highly scientifically challenging). Only three of the issues were likely to be resolved by improved science alone, while the remainder require engagement with social, economic and political factors. Fortunately, none of the issues were considered chaotic. Nevertheless, strategic communication, education and engagement with the populace and policy makers were considered vital for addressing emerging issues.

Seed survival of Australian Acacia in the Western Cape of South Africa in the presence of biological control agents and given environmental variation.

Studies of invasive Australian Acacia have shown that many seeds are still produced and accumulate in soil stored seed banks regardless of the presence of seed-targeting biological control agents. This is despite claims of biological control success, although there is generally a lack of data on the seed production of invasive Australian Acacia before and after the release of the respective agents. We aimed to quantify seed production and seed survival of invasive Australian Acacia currently under biological control. The seed production and survival (proportion of aborted, predated and surviving seeds) of A. longifolia, A. pycnantha and A. saligna were each studied at four to five sites in the Western Cape of South Africa. The relationships between seed production and stand characteristics were determined and the relative effects of seed predation and abortion on seed survival were established. The investigated invasive Australian Acacia produced many seeds that survived the pre-dispersal stage despite long-term presence of released biological control agents. It was shown that seed crop size is the only significant factor influencing seed survival of the studied Australian Acacia species. Furthermore, the seeds surviving per tree and per square meter were related to tree size. No quantitative evidence was found to suggest that seed-reducing biological control agents are having an impact on the population dynamics of their Australian Acacia hosts. This study illustrates the importance of studying the seed ecology of invasive plants before biological control agents are selected and released.

Scenarios for the management of invasive Acacia species in a protected area: Implications of clearing efficacy.

In many protected areas in South Africa, invasive Australian Acacia species pose on-going management challenges, perpetuating high long-term management costs. Due to limited availability of resources, conservation actions need to be prioritised within and across Protected Areas (PA). We draw on comprehensive datasets spanning over 20 years from the Table Mountain National Park to model long-term outcomes of clearing Acacia species at different levels of management clearing efficacy. We test a 50 year outlook based on current and 38 incremental levels of management efficacy, ranging from 5 to 100%, to assess under which scenarios a management goal of reducing Acacia density to below 1 plant per hectare for the 22,671 ha protected area is achieved. With the current clearing resources and maximum clearing efficacy (100% control), it would take between 32 and 42 years to attain the management goal. The modelling revealed two main drivers of Acacia persistence. Firstly, germination of seeds added to the seedbank from standing plants made a significantly larger contribution to future clearing requirements than fire stimulated seed germination or the existing (pre-management) seedbank. Secondly the relationship between the number of hectares and management units that could be treated and the efficacy of the treatment was non-linear. When clearing efficacy was decreased from 100% to the current project minimum target of 80% efficacy, the goal was not achieved in all areas, but the area that reached a density of <1 plant per hectare was significantly reduced to 53% of the PA for the simulated 50 years. Results emphasize the need to differentiate between increasing financial resources and increasing efficacy. While increasing financial resources allows for increased effort, this is of little value for Acacia management in the absence of an increase in clearing efficacy, as low quality implementation perpetuates the need for large budgets over time. Conversely, improving efficacy allows for decreased budget requirements over time, allowing fund re-direction to additional areas of alien species management such as the early detection and rapid control of newly introduced species.

Quantification of water purification in South African palmiet wetlands.

Despite the importance of water purification to society, it is one of the more difficult wetland ecosystem services to quantify. It remains an issue in ecosystem service assessments where rapid estimates are needed, and poor-quality indicators are overused. We attempted to quantify the water purification service of South African palmiet wetlands (valley-bottom peatlands highly threatened by agriculture). First, we used an instantaneous catchment-scale mass balance sampling approach, which compared the fate of various water quality parameters over degraded and pristine sections of palmiet wetlands. We found that pristine palmiet wetlands acted as a sink for water, major cations, anions, dissolved silicon and nutrients, though there was relatively high variation in these trends. There are important limitations to this catchment-scale approach, including the fact that at this large scale there are multiple mechanisms (internal wetland processes as well as external inputs) at work that are impossible to untangle with limited data. Therefore, secondly, we performed a small field-scale field survey of a wetland fragment to corroborate the catchment-scale results. There was a reasonable level of agreement between the results of the two techniques. We conclude that it appears possible to estimate the water purification function of these valley-bottom wetlands using this catchment-scale approach.

Plant functional trait data and reflectance spectra for 22 palmiet wetland species.

We provide reflectance spectra for 22 South African palmiet wetland species collected in spring 2015 from three wetlands throughout the Cape Floristic Region. In addition, we provide summarized plant functional trait data, as well as supporting and meta-data. Reflectance spectra were collected with a portable ASD Fieldspec Pro using standard methods. The 14 plant functional traits were measured on 10 replicates of each species, following standard protocols. We provide tables detailing these standard methods, as well a table with hypotheses on how these 14 continuous traits, as well as an additional 9 categorical traits, may affect ecosystem service provision. In addition, tables are attached which detail which functional and spectral groups these species belong to, according to the data. Finally, we include a photographic plate of the species data are provide for. We make these data available in an effort to assist in research on the understanding of how traits affect ecosystem service provision in wetlands, and particularly of whether remote sensing can be used to map these traits in wetlands.

Invasive Australian Acacia seed banks: Size and relationship with stem diameter in the presence of gall-forming biological control agents.

Australian Acacia are invasive in many parts of the world. Despite significant mechanical and biological efforts to control their invasion and spread, soil-stored seed banks prevent their effective and sustained removal. In response South Africa has had a strong focus on employing seed reducing biological control agents to deal with Australian Acacia invasion, a programme that is considered as being successful. To provide a predictive understanding for their management, seed banks of four invasive Australian acacia species (Acacia longifolia, A. mearnsii, A. pycnantha and A. saligna) were studied in the Western Cape of South Africa. Across six to seven sites for each species, seed bank sizes were estimated from dense, monospecific stands by collecting 30 litter and soil samples. Average estimated seed bank size was large (1017 to 17261 seed m-2) as was annual input into the seed bank, suggesting that these seed banks are not residual but are replenished in size annually. A clear relationship between seed bank size and stem diameter was established indicating that mechanical clearing should be conducted shortly after fire-stimulated recruitment events or within old populations when seed banks are small. In dense, monospecific stands seed-feeding biological control agents are not effective in reducing seed bank size.

Foraging potential of underground storage organ plants in the southern Cape, South Africa.

Underground storage organs (USOs) serve as a staple source of carbohydrates for many hunter-gatherer societies and they feature prominently in discussions of diets of early modern humans. While the way of life of hunter-gatherers in South Africa's Cape no longer exists, there is extensive ethnographic, historical, and archaeological evidence of hunter-gatherers' use of USOs. This is to be expected, given that the Cape supports the largest concentration of plant species with USOs globally. The southern Cape is the location of several Middle Stone Age sites that are highly significant to research on the origins of behaviourally modern humans, and this provided the context for our research. Here, we evaluate the foraging potential of USOs by identifying how abundant edible biomass is in the southern Cape, how easily it is gathered, and how nutritious it is. One hundred 5 × 5 m plots were assessed in terms of USO species and abundance. Nearly all of the sites sampled (83%) contained edible USOs and some had high concentrations of edible biomass. Extrapolating from these sites suggests that the edible USO biomass falls within the range of biomass observed in areas supporting extant hunter-gatherer communities. The nutritional content for six USO species was assessed; these contained between 40 and 228 calories/100 g. Furthermore, foraging events were staged to provide an indication of the potential return rates for the same six USOs. The target species grow near the soil surface, mostly in sandy soils, and were gathered with minimal effort. Some 50% of the foraging events conducted yielded enough calories to meet the daily requirements of a hunter-gatherer within two hours. In conclusion, we demonstrate that USOs are a readily available source of carbohydrates in the southern Cape landscape and, therefore, there is a strong possibility that USOs played a critical role in providing food for early humans.

Impact of alien pines on local arbuscular mycorrhizal fungal communities-evidence from two continents.

The introduction of alien plants can influence biodiversity and ecosystems. However, its consequences for soil microbial communities remain poorly understood. We addressed the impact of alien ectomycorrhizal (EcM) pines on local arbuscular mycorrhizal (AM) fungal communities in two regions with contrasting biogeographic histories: in South Africa, where no native EcM plant species are present; and in Argentina, where EcM trees occur naturally. The effect of alien pines on AM fungal communities differed between these regions. In South Africa, plantations of alien EcM pines exhibited lower AM fungal richness and significantly altered community composition, compared with native fynbos. In Argentina, the richness and composition of local AM fungal communities were similar in plantations of alien EcM pines and native forest. However, the presence of alien pines resulted in slight changes to the phylogenetic structure of root AM fungal communities in both regions. In pine clearcut areas in South Africa, the richness and composition of AM fungal communities were intermediate between the native fynbos and the alien pine plantation, which is consistent with natural regeneration of former AM fungal communities following pine removal. We conclude that the response of local AM fungal communities to alien EcM pines differs between biogeographic regions with different histories of species coexistence.

A new research strategy for integrating studies of paleoclimate, paleoenvironment, and paleoanthropology.

Paleoanthropologists (scientists studying human origins) universally recognize the evolutionary significance of ancient climates and environments for understanding human origins. Even those scientists working in recent phases of human evolution, when modern humans evolved, agree that hunter-gatherer adaptations are tied to the way that climate and environment shape the food and technological resource base. The result is a long tradition of paleoanthropologists engaging with climate and environmental scientists in an effort to understand if and how hominin bio-behavioral evolution responded to climate and environmental change. Despite this unusual consonance, the anticipated rewards of this synergy are unrealized and, in our opinion, will not reach potential until there are some fundamental changes in the way the research model is constructed. Discovering the relation between climate and environmental change to human origins must be grounded in a theoretical framework and a causal understanding of the connection between climate, environment, resource patterning, behavior, and morphology, then move beyond the strict correlative research that continues to dominate the field.