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Rodents generate negative consequences for smallholder farmers in Africa that directly impact household and livestock damage, food security and public health. Ecologically Based Rodent Management (EBRM) seeks sustainable solutions for the mitigation of rodent damage through assessments of rodent population dynamics, agro-ecosystems and socio-cultural contexts. We adopt a comparative approach across three rural Afro-Malagasy smallholder farming regions in South Africa, Tanzania and Madagascar to assess the household impacts of rodent pests and current perceptions and preferences associated with several rodent control measures. We conducted focus groups questionnaires and interviews in different study site locations. Rodents assert multiple impacts on Afro-Malagasy farmers demonstrating recurrent and emerging agricultural and household costs, and public health impacts. We identify a significant knowledge gap in educating communities about the application of different EBRM approaches in favour of acute poisons that are perceived to be more effective. Cultural issues and taboos also have a significant impact on the social acceptance of rodent hunting as well as biological control using indigenous predators. We advocate for an enhanced investigation of the socio-cultural beliefs associated with different rodent practices to understand the factors underlying social acceptance. A collaborative approach that integrates the perspectives of target communities to inform the design of EBRM initiatives according to the specific agro-ecosystem and socio-cultural context is necessary to ensure programmatic success.

This work was supported by the Peace Parks Foundation; G.C.S. was funded by a doctoral grant from Fundacão para a Ciência e a Tecnologia (FCT: PD/BD/114037/2015); L.H.S. was supported by the National Research Foundation, South Africa (UID: 107099 and 115040) and by the African Institute for Conservation Ecology. Apex predator reintroductions have proliferated across southern Africa, yet their ecological effects and proposed umbrella benefits of associated management lack empirical evaluations. Despite a rich theory on top-down ecosystem regulation via mesopredator suppression, a knowledge gap exists relating to the influence of lions (Panthera leo) over Africa's diverse mesocarnivore (less than 20 kg) communities. We investigate how geographical variation in mesocarnivore community richness and occupancy across South African reserves is associated with the presence of lions. An interesting duality emerged: lion reserves held more mesocarnivore-rich communities, yet mesocarnivore occupancy rates and evenness-weighted diversity were lower in the presence of lions. Human population density in the reserve surroundings had a similarly ubiquitous negative effect on mesocarnivore occupancy. The positive association between species richness and lion presence corroborated the umbrella species concept but translated into small differences in community size. Distributional contractions of mesocarnivore species within lion reserves, and potentially corresponding numerical reductions, suggest within-community mesopredator suppression by lions, probably as a result of lethal encounters and responses to a landscape of fear. Our findings offer empirical support for the theoretical understanding of processes underpinning carnivore community assembly and are of conservation relevance under current large-predator orientated management and conservation paradigms. Postprint

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Conservation agriculture (CA), with reduced tillage, permanent soil cover and diversified cropping systems, is advocated in southern Africa to improve soil quality, reduce input costs and mitigate climate-induced risks. However, improvements in terms of yield and soil organic carbon (SOC) under CA are slow and variable and many small-scale farmers are unable to buffer themselves against potential short-term financial losses. In this study we examined the effects of CA-related management practices on SOC sequestration and productivity at two medium-term sites on a sandy soil (eight year trial) and clay soil (six years) in maize producing areas of South Africa. Using field data, current input costs and market prices for crops, we calculated the gross margin for each system. Treatments compared conventional ploughing under maize monoculture with reduced tillage, intercropping and crop rotation. On the clay soil, SOC was increased under reduced tillage (57.6 t C ha−1) compared to conventional tillage (54.9 t C ha−1) while there was no difference for the sandy soil (19.7 t C ha−1 average across treatments). Profitability was most strongly influenced by seasonal rainfall, but was higher on the sandy soil than the clay soil, with an average gross margin of R11,344 ha−1 and R5,686 ha−1, respectively. This study has demonstrated that while certain CA practices can create site-specific benefits for farmers, it is highly dependent on local weather and soil conditions. For the clay soil an additional payment scheme would be required to reward farmers in southern Africa for C-sequestration to make CA profitable and achieve increased C-mitigation through soil sequestration.

The current geographical distribution of the Egyptian Mongoose or Large Grey Mongoose, Herpestes ichneumon (Linnaeus, 1758), in South Africa is limited to the south-eastern coastal and eastern sections of the country. One recent sighting in the central part of the country suggested a wider geographical distribution. In this study, we report on confirmed sightings of the Egyptian Mongoose on consecutive years in the central part (at Sasol’s Synfuels Plant in Secunda) of the country. Our sightings thus expand the distribution of the Egyptian Mongoose in South Africa to include some sections of the central to eastern part of the country.

This dataset includes data derived from camera trap surveys and questionnaire surveys relating to small carnivores in agro-ecosystems in the Vhembe Biosphere Reserve, South Africa. The data were collected as part of the study “Predation by small mammalian carnivores in rural agro-ecosystems: An undervalued ecosystem service?” (Williams et al., 2017a) [1]. Camera trap locations were stratified by land use: settlement, crops, and grazing areas. The camera trap data provide an insight into the ecology of the nine species of small carnivores that were recorded: striped polecat (Ictonyx striatus), honey badger (Mellivora capensis), large-spotted genet (Genetta maculata), African civet (Civettictis civetta), slender mongoose (Galerella sanguinea), Meller's mongoose (Rhynchogale melleri), Selous' mongoose (Paracynictis selousi), white tailed mongoose (Ichneumia albicauda), and dwarf mongoose (Helogale parvula). We also recorded domesticated animals such as domestic cats (Felis catus), domestic dogs (Canis lupus familiaris), and cattle (Bos taurus) on the camera traps. The questionnaire data are comprised of responses of stakeholders to questions regarding the impacts of these species on rural farming communities. In the accompanying data repository hosted on Figshare (doi 10.6084/m9.figshare.4750807, (Williams et al., 2017b) [2]) we provide raw data, along with processed data and R code used to analyse these data to determine the impact of land use and domestic animals on the species richness and occupancy of small carnivores in rural agro-ecosystems (Williams et al., 2017a) [1].

Africa is endowed with a diverse guild of small carnivores, which could benefit stakeholders by providing ecosystem services while fostering conservation tolerance for carnivores. To investigate the potential of small carnivores for the biological control of rodents within agro-ecosystems, we assessed both the ecological and social landscapes within two rural villages in the Vhembe Biosphere Reserve, South Africa. We employed a camera trapping survey underpinned by an occupancy modelling framework to distinguish between ecological and observation processes affecting small carnivore occupancy. We also used questionnaires to investigate perceptions of small carnivores and their role in pest control. We found the greatest diversity of small carnivores in land used for cropping in comparison to grazing or settlements. Probability of use by small carnivores was influenced negatively by the relative abundance of domestic dogs and positively by the relative abundance of livestock. Greater carnivore diversity and probability of use could be mediated through habitat heterogeneity, food abundance, or reduced competition from domestic carnivores. Village residents failed to appreciate the role of small carnivores in rodent control. Our results suggest that there is significant, although undervalued, potential for small carnivores to provide ecosystem services in agro-ecosystems.

Conservation agriculture (CA) is advocated as a sustainable farming method to improve soil health, increase crop yields and food security, while reducing input costs. In South Africa, a country wit...

Intra-guild interactions related to facilitation and competition can be strong forces structuring ecological communities and have been suggested as particularly prominent for large carnivores. The African lion (Panthera leo) is generally thought to be a dominant predator where it occurs and can be expected to have broad effects on sympatric carnivore communities. We used data from two small game reserves in northern South Africa to relate the presence of African lions to abundance, habitat use, diet, and prey selection of two sympatric large carnivores, brown hyaenas (Parahyaena brunnea) and leopards (Panthera pardus). Our results offered some support for the facilitative effects of lions on brown hyaenas, and competitive effects on leopards. However, differences between populations living without and with lions were restricted to broad diet composition and appear not to have permeated into differences in either prey selection, abundance or habitat use. Therefore, we suggest that the potential effects of lions on the predator–prey interactions of sympatric predators may have been context dependent or absent, and subsequently argue that lions may not necessarily influence the predator–prey dynamics in the landscapes they live in beyond those caused by their own predatory behaviour., This research was funded by the National Geographic/Wait’s Foundation (grant number W32-08 to FD), the National Research Foundation in South Africa (grant numbers SFP2008072900003 to FD, IFR2011032400087 and UID 115040 to LS), and the Ministry of Economy and Competitiveness in Spain (grant number RYC2013-14662 to FD).

Understanding resource selection and quantifying habitat connectivity are fundamental to conservation planning for both land-use and species management plans. However, datasets available to management authorities for resource selection and connectivity analyses are often highly limited and fragmentary. As a result, measuring connectivity is challenging, and often poorly integrated within conservation planning and wildlife management. To exacerbate the challenge, scale-dependent resource use makes inference across scales problematic, resource use is often modelled in areas where the species is not present, and connectivity is typically measured using a source-to-sink approach, erroneously assuming animals possess predefined destinations. Here, we used a large carnivore, the leopard Panthera pardus, to characterise resource use and landscape connectivity across a vast, biodiverse region of southern Africa. Using a range of datasets to counter data deficiencies inherent in carnivore management, we overcame methodological limitations by employing occupancy modelling and resource selection functions across three orders of selection, and estimated landscape-scale habitat connectivity – independent of a priori source and sink locations – using circuit theory. We evaluated whether occupancy modelling on its own was capable of accurately informing habitat connectivity, and identified conservation priorities necessary for applied management. We detected markedly different scale-dependent relationships across all selection orders. Our multi-data, multi-scale approach accurately predicted resource use across multiple scales and demonstrates how management authorities can more suitably utilise fragmentary datasets. We further developed an unbiased landscape-scale depiction of habitat connectivity, and identified key linkages in need of targeted management. We did not find support for the use of occupancy modelling as a proxy for landscape-scale habitat connectivity and further caution its use within a management context. Synthesis and applications. Maintaining habitat connectivity remains a fundamental component of wildlife management and conservation, yet data to inform these biological and ecological processes are often scarce. We present a robust approach that incorporates multi-scale fragmentary datasets (e.g. mortality data, permit data, sightings data), routinely collected by management authorities, to inform wildlife management and land-use planning. We recommend that management authorities employ a multi-data, multi-scale connectivity approach—as we present here—to identify management units at risk of low connectivity.

Frugivory and seed dispersal contribute to the maintenance and regeneration of plant communities through transportation of seeds and enhancing germination through seed processing mechanisms. The effects of mammalian frugivore seed processing mechanisms on seed germination are generally well studied and the potential benefits include disinhibition (pulp removal), scarification (gut passage) and fertilisation (from faecal matrix). Nevertheless, our review found that there is bias in the comparative treatments included in seed dispersal studies through exclusion of entire fruit control groups and the fertiliser effect. In this study, we aimed to address such bias by using ecologically relevant experiments to investigate the influence of seed processing mechanisms on germination probability and latency of selected locally abundant fleshy-fruiting plant species, common in the diet of samango monkeys (Cercopithecus albogularis schwarzi), and who are seed-spitters (disinhibition) and seed-swallowers (gut-passage and fertiliser effects). We designed experiments to isolate the cumulative effects of seed processing mechanisms and tested the effects of five treatments and one control treatment (entire fruit). We further assessed if exclusion of ecologically relevant seed treatments or relevant controls would affect our interpretation of the impact of the disperser on seed germination. Comparing gut passage and disinhibition indicated negative effects, whereas comparing gut passage and entire fruit controls indicated neutral effects in one species. Compared with gut passage alone, the fertiliser effects indicated positive or neutral benefits on germination probability. Our study demonstrated that the impacts of mammalian frugivores on germination may be under- or over-estimated in ecological literature where relevant treatments and meaningful controls are excluded.

Due to the strong individual cost of being predated, potential prey species alter their behavior and physiology in response to predation risk. Such alterations may cause major indirect consequences on prey populations that are additive to the direct demographic effects caused by prey being killed. However, although earlier studies showed strong general effects of the presence of apex predators, recent data suggest that indirect effects may be highly context dependent and not consistently present. We combined behavioral data with data on endocrine stress and stable isotopes to assess landscape level effects of lion (Panthera leo) presence on two prey species in South Africa, impala (Aepyceros melampus) and blue wildebeest (Connochaetes taurinus). We also evaluated if there was any seasonal variation in such effects. In addition, we provide results from a physiological validation for an enzyme-linked immunoassay (EIA) that can be used for non-invasive monitoring of glucocorticoid stress metabolite concentrations in impala from fecal pellets. We did not find any significant differences in vigilance behavior, fecal glucocorticoid metabolite concentrations, δ13C values or isotope niche breadth between animals living with and without lions for either species. However, wildebeest living in a reserve with lions spent more time foraging compared to wildebeest in a lion-free environment, but only during the wet season. Values of fecal δ15N suggest a shift in habitat use, with impala and wildebeest living with lions potentially feeding in less productive areas compared to animals living without lions. For both species, characteristics of the social groups appeared to be more important than individual characteristics for both foraging and vigilance behavior. Our results highlight that antipredator responses may be highly dynamic and scale-dependent. We urge for further studies that quantify at what temporal and spatial scales predation risk is causing indirect effects on prey populations.

As the environment becomes increasingly altered by human development, the importance of understanding the ways in which wildlife interact with modified landscapes is becoming clear. Areas such as industrial sites are sometimes presumed to have little conservation value, but many of these sites have areas of less disturbed habitats around their core infrastructure, which could provide ideal conditions to support some species, such as mesocarnivores. We conducted the first assessments of the density of serval (Leptailurus serval) at the Secunda Synfuels Operations plant, South Africa. We ran three camera trap surveys to estimate serval density using a spatially explicit capture recapture framework. Servals occurred at densities of 76.20-101.21 animals per 100 km2, which are the highest recorded densities for this species, presumably due to high abundance of prey and the absence of persecution and/or competitor species. Our findings highlight the significant conservation potential of industrialised sites, and we suggest that such sites could help contribute towards meeting conservation goals.

As the global road network expands, roads pose an emerging threat to wildlife populations. One way in which roads can affect wildlife is wildlife-vehicle collisions, which can be a significant cause of mortality through roadkill. In order to successfully mitigate these problems, it is vital to understand the factors that can explain the distribution of roadkill. Collecting the data required to enable this can be expensive and time consuming, but there is significant potential in partnering with organisations that conduct existing road patrols to obtain the necessary data. We assessed the feasibility of using roadkill data collected daily between 2014 and 2017 by road patrol staff from a private road agency on a 410 km length of the N3 road in South Africa. We modelled the relationship between a set of environmental and anthropogenic variables on the number of roadkill carcasses, using serval (Leptailurus serval) as a model species. We recorded 5.24 serval roadkill carcasses/100 km/year. The number of carcasses was related to season, the amount of wetland, and the number of owls killed on the roads, but was not related to any of the anthropogenic variables we included. This suggests that roadkill patterns may differ greatly depending on the ecology of species of interest, but targeting mitigation measures where roads pass through wetlands may help to reduce serval roadkill. Partnering with road agencies for data collection offers powerful opportunities to identify factors related to roadkill distribution and reduce the threats posed by roads to wildlife.

Human-dominated landscapes comprise the bulk of the world’s terrestrial surface and Africa is predicted to experience the largest relative increase over the next century. A multi-scale approach is required to identify processes that maintain diversity in these landscapes. Here we identify scales at which animal diversity responds by partitioning regional diversity in a rural African agro-ecosystem between one temporal and four spatial scales. Human land use practices are the main driver of diversity in all seven animal assemblages considered, with medium sized mammals and birds most affected. Even the least affected taxa, bats and non-volant small mammals (rodents), responded with increased abundance in settlements and agricultural sites respectively. Regional turnover was important to invertebrate taxa and their response to human land use was intermediate between that of the vertebrate extremes. Local scale (< 300 m) heterogeneity was the next most important level for all taxa, highlighting the importance of fine scale processes for the maintenance of biodiversity. Identifying the triggers of these changes within the context of functional landscapes would provide the context for the long-term sustainability of these rapidly changing landscapes.

Predator-prey theory suggests that generalist predators are linked to demographic stability of prey whereas specialists are destabilizing. We overview the demographic consequences of different predation strategies and hypothesize that subsistence hunting occurs opportunistically, persecution hunters behave like specialist predators, and recreational hunters behave like generalist predators. Under this hypothesis, persecution hunting would have destabilizing effects, whereas the effects of subsistence and recreational hunting would be neutral or stabilizing. We found poor empirical support for this hypothesis, but there was scarce empirical data. Recreational hunters mainly hunted opportunistically and hunting as managed persecution followed a type III functional response, i.e. with low hunting intensity at low game abundances and a switch to an increased intensity at some level of abundance. We suggest that recreational hunters have limited destabilizing effects on game populations and that hunting may be an ineffective way of complete the removal of invasive species. We urge for further studies quantifying the responses of hunters to game abundances, in particular studies evaluating the responses of subsistence hunters and illegal persecution., La teoría depredador-presa sugiere que los depredadores generalistas están vinculados a la estabilidad demográfica de las presas, mientras que los especialistas son desestabilizadores. En este artículo hemos hecho una revisión general de las consecuencias demográficas de diferentes estrategias de depredación y hemos intentado testar la hipótesis de que la caza de subsistencia se produce de forma oportunista, la caza de persecución sería la realizada por depredadores especializados y la caza recreativa por depredadores generalistas. Desde esta hipótesis, la caza de persecución tendría efectos desestabilizadores, mientras que los efectos de la caza de subsistencia y recreativa serían neutrales o estabilizadores. Hemos encontrado poco apoyo empírico para esta hipótesis, pero también es cierto que contamos con escasa información de campo. Los cazadores de recreo principalmente cazan de forma oportunista y la caza de persecución muestra una respuesta funcional de tipo III, es decir, disminuye la intensidad de presas cuando lo hace la abundancia de presas y aumenta dicha intensidad ante cierto nivel de abundancia de presas. Sugerimos que los cazadores de recreo limitan los efectos desestabilizadores sobre las poblaciones de caza y que la caza no es un método eficaz de eliminación completa de especies invasoras. Instamos a la realización de nuevos estudios que cuantifiquen las respuestas de los cazadores a la abundancia de presas, en particular estudios que evalúen las respuestas de los cazadores de subsistencia y la persecución ilegal.

Rodent pests are especially problematic in terms of agriculture and public health since they can inflict considerable economic damage associated with their abundance, diversity, generalist feeding habits and high reproductive rates. To quantify rodent pest impacts and identify trends in rodent pest research impacting on small-holder agriculture in the Afro- Malagasy region we did a systematic review of research outputs from 1910 to 2015, by developing an a priori defined set of criteria to allow for replication of the review process. We followed the Preferred Reporting Items for Systematic Reviews and Meta-Analyses guidelines. We reviewed 162 publications, and while rodent pest research was spatially distributed across Africa (32 countries, including Madagascar), there was a disparity in number of studies per country with research biased towards four countries (Tanzania [25%], Nigeria [9%], Ethiopia [9%], Kenya [8%]) accounting for 51% of all rodent pest research in the Afro- Malagasy region. There was a disparity in the research themes addressed by Tanzanian publications compared to publications from the rest of the Afro-Malagasy region where research in Tanzania had a much more applied focus (50%) compared to a more basic research approach (92%) in the rest of the Afro-Malagasy region. We found that pest rodents have a significant negative effect on the Afro-Malagasy small-holder farming communities. Crop losses varied between cropping stages, storage and crops and the highest losses occurred during early cropping stages (46% median loss during seedling stage) and the mature stage (15% median loss). There was a scarcity of studies investigating the effectiveness of various management actions on rodent pest damage and population abundance. Our analysis highlights that there are inadequate empirical studies focused on developing sustainable control methods for rodent pests and rodent pests in the Africa-Malagasy context is generally ignored as a research topic.

Worldwide rodent pests are of significant economic and health importance. Controlling rodent pests will, therefore, not only benefit food security but also human and animal health. While rodent pests are most often chemically controlled, there is increased interest in biological control through avian predation. A rich body of research has addressed the impact of avian predators on wild rodent populations, but little is known about the effectiveness of avian predators as biological control agents of rodent pests in agricultural systems. In this study, we systematically reviewed research that investigated different aspects of avian predation on rodent pest populations in order to increase our understanding of the impact and effectiveness of avian predation on rodent pests. Several avian predators (Tyto alba, Elanus axillaris, Falco tinnunculus, Falco cenchroides, Bubo bengalensis, Buteo rufinus) were commonly cited in the biological control of rodents; however, barn owls (T. alba) are the most cited species (86% of studies). We found some support that the use of avian predators produced positive, measurable effects where increased presence of avian predators tended to lower rodent pest numbers, resulting in lower crop damage. However, our review highlighted several shortcomings related to research on avian predation of rodent pests. First, research concerning rodent pest control through avian predation was limited (1.86 articles per year). Secondly, we found that studies lack statistical rigor to detect and measure change in rodent pest species abundance. Finally, the majority of studies were short term and therefore not able to evaluate long term sustainable rodent pest population suppression. We suggest that current shortcomings could be adequately addressed with control-treatment studies that quantitatively investigate the effects of avian predation on rodent pest populations and agricultural impact. Such research could help develop recommendations regarding the use of avian predators in rodent pest management.