A genomic basis of vocal rhythm in birds.

Vocal rhythm plays a fundamental role in sexual selection and species recognition in birds, but little is known of its genetic basis due to the confounding effect of vocal learning in model systems. Uncovering its genetic basis could facilitate identifying genes potentially important in speciation. Here we investigate the genomic underpinnings of rhythm in vocal non-learning Pogoniulus tinkerbirds using 135 individual whole genomes distributed across a southern African hybrid zone. We find rhythm speed is associated with two genes that are also known to affect human speech, Neurexin-1 and Coenzyme Q8A. Models leveraging ancestry reveal these candidate loci also impact rhythmic stability, a trait linked with motor performance which is an indicator of quality. Character displacement in rhythmic stability suggests possible reinforcement against hybridization, supported by evidence of asymmetric assortative mating in the species producing faster, more stable rhythms. Because rhythm is omnipresent in animal communication, candidate genes identified here may shape vocal rhythm across birds and other vertebrates.

Avian species functional diversity and habitat use: The role of forest structural attributes and tree diversity in the Midlands Mistbelt Forests of KwaZulu-Natal, South Africa.

Forest transformation has major impacts on biodiversity and ecosystem functioning. Identifying the influence of forest habitat structure and composition on avian functional communities is important for conserving and managing forest systems. This study investigated the effect of forest structure and composition characteristics on bird species community structure, habitat use and functional diversity in 14 Mistbelt Forest patches of the Midlands of KwaZulu-Natal in South Africa. We surveyed bird communities using point counts. We quantified bird functional diversity for each forest patch using three diversity indices: functional richness, functional evenness and functional divergence. We further assessed species-specific responses by focussing on three avian forest specialists, orange ground-thrush Geokichla gurneyi, forest canary Crithagra scotops and Cape parrot Poicephalus robustus. We found that bird community and forest-specialist species responses to forest structure and tree species diversity differed. Also, forest structural complexity, canopy cover and tree species richness were the main forest characteristics better at explaining microhabitat influence on bird functional diversity. Forest patches with relatively high structural complexity and tree species richness had higher functional richness. Different structural characteristics influenced habitat use by the three forest specialists. Tree species diversity influenced C. scotops and G. gurneyi positively, while P. robustus responded negatively to forest patches with high tree species richness. Our study showed that site-scale forest structure and composition characteristics are important for bird species richness and functional richness. Forest patches with high tree species diversity and structural complexity should be maintained to conserve forest specialists, bird species richness and functional richness.

The histology and growth rate of Nile crocodile (Crocodylus niloticus) claws.

The histology and growth of reptilian and crocodilian claws (ungues) have been extensively studied; however, Nile crocodile (Crocodylus niloticus) claws have not received adequate attention. Furthermore, age estimations for reptilian claws remain unexplored, despite Nile crocodile claws being used in long-term dietary reconstruction studies, assuming certain age-related patterns. In this study, we investigate the histology and growth patterns of Nile crocodile claws, aiming to infer axes for sampling cornified material for radiocarbon dating and establish age estimations for crocodilian claws. Our findings reveal that Nile crocodile claws exhibit growth patterns similar to other reptilians, presenting as modified scutes/scales with an age profile along the sagittal plane. This profile starts at the basal germ matrix and progressively expands in thickness and age dorsoventrally towards the apex or "tip." Consequently, the oldest corneous material is concentrated at the most dorsal point of the claw's apex. To validate previous dietary reconstruction assumptions, we conducted radiocarbon dating on this region of the claw, which supported the idea that retained corneous material in the claws is typically relatively young (5-10 years old) due to abrasion. Our study contributes insights into the histology and growth dynamics of Nile crocodile claws, shedding light on their use in dietary reconstruction studies and emphasizing the significance of considering age-related assumptions in such investigations.

Long-term concentration of tropical forest nutrient hotspots is generated by a central-place apex predator.

Apex predators typically affect the distribution of key soil and vegetation nutrients through the heterogeneous deposition of prey carcasses and excreta, leading to a nutrient concentration in a hotspot. The exact role of central-place foragers, such as tropical raptors, in nutrient deposition and cycling, is not yet known. We investigated whether harpy eagles (Harpia harpyja) in Amazonian Forests-a typically low soil fertility ecosystem-affect soil nutrient profiles and the phytochemistry around their nest-trees through cumulative deposition of prey carcasses and excreta. Nest-trees occurred at densities of 1.5-5.0/100 km2, and each nest received ~ 102.3 kg of undressed carcasses each year. Effects of nests were surprisingly negative over local soil nutrient profiles, with soils underneath nest-trees showing reductions in nutrients compared with controls. Conversely, canopy tree leaves around nests showed significant 99%, 154% and 50% increases in nitrogen, phosphorus and potassium, respectively. Harpy eagles have experienced a 41% decline in their range, and many raptor species are becoming locally extirpated. These are general examples of disruption in biogeochemical cycles and nutrient heterogeneity caused by population declines in a central-place apex predator. This form of carrion deposition is by no means an exception since several large raptors have similar habits.

The impacts of a global pandemic on the efficacy and stability of contemporary wildlife conservation: South Africa as a case study.

Conservationists speculated on potential benefits to wildlife of lockdown restrictions because of the COVID-19 pandemic but voiced concern that restrictions impeded nature conservation. We assessed the effects of lockdown restrictions on biodiversity conservation in South Africa, a biodiverse country with economic inequality and reliance on wildlife resources. We solicited expert opinion using the IUCN's Threats Classification Scheme to structure a questionnaire and illustrated responses with individual case studies from government parastatal and non-governmental conservation organisations. The most highly reported threats were biological resource use, residential/commercial developments, invasive species, and human intrusions. The trends reported by 90 survey respondents were supported by case studies using environmental compliance data from parastatal conservation organisations. Lack of tourism revenue and funding were cited as hindrances to conservation. Mechanisms to prevent environmental degradation in the face of global emergencies must be implemented and 'ring-fenced' to ensure conservation is not a casualty during future global crises.

Never smile at a crocodile: Gaping behaviour in the Nile crocodile at Ndumo Game Reserve, South Africa.

Gaping is a regularly observed behaviour in crocodilians globally but is still poorly understood in relation to external variables which could trigger this behaviour. The occurrence of gaping behaviour was investigated in a large wild population of Nile crocodiles (Crocodylus niloticus) during the dry and wet seasons at Nyamithi Pan, Ndumo Game Reserve, South Africa. This is one of the longest crocodile gaping behaviour studies conducted in the wild, with 300 h of observations conducted over two seasons resulting in 1120 gaping behaviours recorded. The most common size class observed was between 1.5 and 2.5 m (n = 697), which accounted for 62.2% of the gaping observations. A significant decrease in gaping duration was observed as ambient temperatures increased, and the gape duration was longer at a higher degree angle. In addition, an increase in gape duration was observed as the number of neighbouring crocodiles increased. These results suggest gaping behaviour occurs when there are other crocodiles nearby and when temperatures do not necessitate thermoregulation. The study suggests that gaping could be used as a form of thermoregulation and intra-species communication.

Human-wildlife interactions: presence of the ground-nesting Spotted Thick-knee across a South African mosaic urban landscape.

Urbanisation has increasingly encroached on numerous bird species' natural habitats, generally negatively affecting their persistence. Furthermore, increased human-wildlife interactions may benefit or be detrimental to the long term persistence of these species. The Spotted Thick-knee (Burhinus capensis), a ground-nesting species, persists in some mosaic urban landscapes in South Africa. We, therefore, assessed the presence of Spotted Thick-knees and their interactions with humans in the fragmented natural and human-modified landscape of Pietermaritzburg, KwaZulu-Natal. We conducted presence-only surveys at 52 locations between July 2019 and December 2020. 'Presence' locations for Spotted Thick-knee were identified via active surveying and public participation. Newspaper articles were distributed in June 2019, requesting information on Spotted Thick-knee sightings. Questionnaires were also sent to respondents to collect qualitative information regarding their perceptions and observations of this species in Pietermaritzburg. We established that the presence of Spotted Thick-knee's at known locations was not random. They were present at 30 out of 52 sites for 75% of this study's duration. Fewer sites had Spotted Thick-knees present during non-breeding months than breeding months. Respondents' feedback highlighted the pressures associated with Spotted Thick-knees persistence in human-modified mosaic landscapes, particularly predation and disturbance by domestic pets. Our study highlights that some ground-nesting birds, such as Spotted Thick-knees, persist in mosaic urban landscapes, despite the anthropogenic pressures. This study highlights the need to address the paucity of studies on ground-nesting birds in mosaic urban landscapes to determine general trends. Supplementary information: The online version contains supplementary material available at 10.1007/s11252-022-01254-3.

Developmental life stages of the Pickersgill's reed frog (Hyperolius pickersgilli) in an ex-situ environment at Johannesburg Zoo's captive breeding facility, South Africa.

Globally, the threats of habitat loss and disease on amphibian survival have necessitated the creation of ex-situ insurance populations as a conservation tool. We initiated a captive breeding project to create an insurance population for the endangered Pickersgill's reed frog (Hyperolius pickersgilli Raw, 1982) at the Johannesburg Zoo from parents collected from KwaZulu-Natal Province, South Africa, in 2017. We found that this species has seven developmental life stages, each with unique management requirements. The quiescent tadpoles hatched 6-8 days after the eggs were laid and remained at this stage for 2 days. The next stage, the developing tadpoles, showed no form of cannibalism or carrion feeding. The external appearance of the first leg (the right hind) occurred 5-6 weeks after the tadpoles hatched, and the metamorph stage was reached after 7-8 weeks. The metamorph stage lasted 3-5 days, after which tail resorption was complete and the froglet stage reached. Froglets could not be sexed externally, although body color changed based on the amount of light present at the resting place. Sub-adults were 6 months and older with adult coloration and sex differentiation visible even with color change. Adults were older than 18 months and fully developed and sexually mature, displaying amplexus, oviposition, and external fertilization. A greater understanding of Pickersgill's reed frog's developmental stages and physiological and environmental needs can improve captive breeding and subsequent release of the frogs, facilitate captive breeding elsewhere, and improve the species' conservation status.

Tropical deforestation induces thresholds of reproductive viability and habitat suitability in Earth's largest eagles.

Apex predators are threatened globally, and their local extinctions are often driven by failures in sustaining prey acquisition under contexts of severe prey scarcity. The harpy eagle Harpia harpyja is Earth's largest eagle and the apex aerial predator of Amazonian forests, but no previous study has examined the impact of forest loss on their feeding ecology. We monitored 16 active harpy eagle nests embedded within landscapes that had experienced 0 to 85% of forest loss, and identified 306 captured prey items. Harpy eagles could not switch to open-habitat prey in deforested habitats, and retained a diet based on canopy vertebrates even in deforested landscapes. Feeding rates decreased with forest loss, with three fledged individuals dying of starvation in landscapes that succumbed to 50-70% deforestation. Because landscapes deforested by > 70% supported no nests, and eaglets could not be provisioned to independence within landscapes > 50% forest loss, we established a 50% forest cover threshold for the reproductive viability of harpy eagle pairs. Our scaling-up estimate indicates that 35% of the entire 428,800-km2 Amazonian 'Arc of Deforestation' study region cannot support breeding harpy eagle populations. Our results suggest that restoring harpy eagle population viability within highly fragmented forest landscapes critically depends on decisive forest conservation action.

Modification of the third phase in the framework for vertebrate species persistence in urban mosaic environments.

Urbanisation is rapidly transforming natural landscapes with consequences for biodiversity. Little is documented on the response of African wildlife to urbanisation. We reviewed case studies of vertebrate species' responses to urbanisation in KwaZulu-Natal, South Africa to determine trends. Connected habitat mosaics of natural and anthropogenic green spaces are critical for urban wildlife persistence. We present a novel modification to the final of three phases of the framework described by Evans et al. (2010), which documents this sequence for vertebrate species persistence, based on the perspective of our research. Species in suburbia exhibit an initial phase where behavioural and ecological flexibility, life-history traits and phenotypic plasticity either contribute to their success, or they stay at low numbers. Where successful, the next phase is a rapid increase in populations and distribution; anthropogenic food resources and alternate breeding sites are effectively exploited. The modified third phase either continues to spread, plateau or decline.

Indigenous knowledge of South African bird and rangeland ecology is effective for informing conservation science.

South Africa's communal rangelands constitute ~25% of the country's land cover and are largely managed for livestock grazing. These habitats play an important role in rural livelihoods and cultural practices. Using semi-structured interviews, we documented indigenous local ecological knowledge (LEK) held by rural dwellers linked to natural resource utilisation, environmental health and cultural keystone indicator species (CKIS) in the grassland communities of southern KwaZulu-Natal, South Africa. Our main objective was to examine the ability for LEK to inform conservation management. We found that people who were heavily reliant on natural resources attained a higher LEK score, indicating a greater breadth of ecological knowledge, which in turn shaped their perceptions of environmental change. Community members confirmed the presence of conservation concern species within this area, highlighting the limitations of only using citizen science databases for conservation management, as their observations within these databases are biased towards major road routes and protected or urban areas. LEK can play an important role in identifying habitats crucial to species' persistence and delineating population trends over time. Our surveys highlighted the importance of the Southern Ground-hornbill Bucorvus leadbeateri as a CKIS that acts as an early warning system of changing weather, notably rain. However, LEK is context-specific, and some CKIS species such as the Southern Ground-hornbill have wide distribution ranges. Consequently, the cultural associations and implications differ based on local belief systems that are often defined by the language spoken and the community's geographical location. Our study demonstrated the importance of including indigenous LEK in conservation planning for threatened species and habitats and the importance of traditional family values responsible for transferring oral knowledge.

A global horizon scan of the future impacts of robotics and autonomous systems on urban ecosystems.

Technology is transforming societies worldwide. A major innovation is the emergence of robotics and autonomous systems (RAS), which have the potential to revolutionize cities for both people and nature. Nonetheless, the opportunities and challenges associated with RAS for urban ecosystems have yet to be considered systematically. Here, we report the findings of an online horizon scan involving 170 expert participants from 35 countries. We conclude that RAS are likely to transform land use, transport systems and human-nature interactions. The prioritized opportunities were primarily centred on the deployment of RAS for the monitoring and management of biodiversity and ecosystems. Fewer challenges were prioritized. Those that were emphasized concerns surrounding waste from unrecovered RAS, and the quality and interpretation of RAS-collected data. Although the future impacts of RAS for urban ecosystems are difficult to predict, examining potentially important developments early is essential if we are to avoid detrimental consequences but fully realize the benefits.

Habitat preferences of Southern Ground-hornbills in the Kruger National Park: implications for future conservation measures.

Understanding how a species utilises its habitat, and the processes that give rise to its movements and patterns of space use, is critical for its conservation. Southern Ground-hornbills Bucorvus leadbeateri are listed as Endangered in South Africa, as a result of habitat loss and persecution. The National Species Recovery Plan lists reintroductions as a suitable conservation action, but highlights "understanding the exact habitat requirements of Southern Ground-hornbills" as a knowledge gap. In this study, we used tracking data from six Southern Ground-hornbill groups (a total of 37,060 GPS locations) in the Kruger National Park to investigate their seasonal home range differences and habitat preferences. We used first-passage time analysis to determine the scale at which Southern Ground-hornbills concentrate their foraging efforts and whether specific movement behaviours were linked to habitat types. We found marked differences in seasonal home ranges, with all groups showing a range contraction during the breeding season. Grassland and open woodland habitat types were used throughout the year in accordance with their availability within the territory, with grassland, open woodland and dense thicket being favoured habitats for foraging. Our habitat preference results, based on longitudinal GPS data, allowed us to determine ideal habitat ratios (grassland:open woodland:low shrubland of 1.00:6.10:0.09 ha) to assist with the selection of suitable reintroduction sites for Southern Ground-hornbills. With an increasing number of species being threatened with extinction, reintroductions into suitable habitats may be a useful conservation mitigation measure. However, our findings highlight the importance of a thorough understanding of a species' movement and space use prior to the selection of areas for reintroduction to ensure the establishment and sustainability of these species at these sites.

High moon brightness and low ambient temperatures affect sloth predation by harpy eagles.

BACKGROUND: Climate plays a key role in the life histories of tropical vertebrates. However, tropical forests are only weakly seasonal compared with temperate and boreal regions. For species with limited ability to control core body temperature, even mild climatic variation can determine major behavioural outcomes, such as foraging and predator avoidance. In tropical forests, sloths are the arboreal vertebrate attaining the greatest biomass density, but their capacity to regulate body temperature is limited, relying on behavioural adaptations to thermoregulate. Sloths are largely or strictly nocturnal, and depend on crypsis to avoid predation. The harpy eagle (Harpia harpyja) is a sloth-specialist and exerts strong top-down control over its prey species. Yet the role of environmental variables on the regulation of predator-prey interactions between sloths and harpy eagles are unknown. The harpy eagle is considered Near Threatened. This motivated a comprehensive effort to reintroduce this species into parts of Mesoamerica. This effort incidentally enabled us to understand the prey profile of harpy eagles over multiple seasons. METHODS: Our study was conducted between 2003 and 2009 at Soberanía National Park, Panamá. Telemetered harpy eagles were seen hunting and feeding on individual prey species. For each predation event, field assistants systematically recorded the species killed. We analysed the effects of climatic conditions and vegetation phenology on the prey species profile of harpy eagles using generalised linear mixed models. RESULTS: Here we show that sloth predation by harpy eagles was negatively affected by nocturnal ambient light (i.e. bright moonshine) and positively affected by seasonally cool temperatures. We suggest that the first ensured low detectability conditions for sloths foraging at night and the second posed a thermally unsuitable climate that forced sloths to forage under riskier daylight. We showed that even moderate seasonal variation in temperature can influence the relationship between a keystone tropical forest predator and a dominant prey item. Therefore, predator-prey ecology in the tropics can be modulated by subtle changes in environmental conditions. The seasonal effects shown here suggest important demographic consequences for sloths, which are under top-down regulation from harpy eagle predation, perhaps limiting their geographic distribution at higher latitudes.

Surgical implantation of radio tags in three eel species (Anguilla spp.) in South Africa.

Studies have reported poor survival of surgically tagged freshwater fishes in warm African waters. This study aimed to assess the applicability of using radio telemetry (and surgical implantation of tags) for Anguilla spp. Nineteen yellow eels (Anguilla bengalensis, A. marmorata and A. mossambica) were surgically implanted with radio tags between October 2018 and January 2019 in the Thukela River, South Africa. Most eels were alive 6 months after tagging, and recaptured eels displayed advanced or complete healing at the incision site. Therefore, this method appears suitable for African freshwater eels.

Implications of the movement behaviour of African tigerfish Hydrocynus vittatus for the design of freshwater protected areas.

African tigerfish Hydrocynus vittatus (n = 35) were tagged with external radio-transmitters in the Kavango River, Namibia, to determine whether freshwater protected areas could be an effective tool for the management and conservation of this species. They were manually tracked in the core study area of 33 km every c. 12 days from July-October 2016 to May 2017 for between 123 to 246 days. In addition, 14 extended surveys were carried out for up to 680 km to determine the total area use of the tagged individuals. Tigerfish displayed at least two behavioural patterns either having high site fidelity with shorter movements or using larger areas with longer movements. Twenty-three (66%) of the tigerfish had high site fidelity using an area of less than 33 km of river, whereas 12 tigerfish (34%) undertook long distance movements of up to 397 km upstream and 116 km downstream from their tagging locations. During the long-distance movements tigerfish crossed the territorial boundaries of Angola, Namibia and Botswana. Of the 35 fish that were monitored, 14 (40%) spent more than 80% of the monitored time in the 33 km study area and 18 (51%) stayed within the study area for at least 50% of the monitored time. These findings suggest that freshwater protected areas may be a useful management tool and we predict that a protected river area of 2-5 km river length could protect 25.9-34.6% of the population for at least 75% of the time whereas protection of 10 km river length could protect at least 50% of tigerfish for at least 75% of the time.

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.

Novel predators and anthropogenic disturbance influence spatio-temporal distribution of forest antelope species.

Understanding the effects of anthropogenic disturbance on species' behaviour is crucial for conservation planning, considering the extent of habitat loss. We investigated the influence of anthropogenic disturbances including agriculture, urbanisation, protected areas, and the presence of novel predators, on the temporal and spatial behaviour of sympatric forest antelope (Tragelaphus scriptus, Philantomba monticola, Sylvicapra grimmia, and Cephalophus natalensis) in an anthropogenic matrix containing forest fragments in the Indian Ocean Coastal Belt of South Africa. We integrated land-use types with camera-trap data and compared activity patterns using circular statistics and occupancy modelling. Antelope species overlapped in temporal and spatial distribution and exhibited diurnal activity for 50% of the time. All species exhibited nocturnal activity for ∼25-33% of all observations, except for C. natalensis. Nocturnal activity varied between species and land-use types. The predators Canis familiaris, C. mesomelas and Caracal caracal negatively influenced occupancy of P. monticola, S. grimmia and C. natalensis. Humans negatively influenced temporal activity of P. monticola, and spatial distribution of T. scriptus and S. grimmia. C. familiaris had an overall negative influence on S. grimmia. We found spatial, and to a lesser extent temporal, segregation between species. However, plasticity in activity patterns existed, which varied in response to anthropogenic effects and novel predators.

Using Parasitic Load to Measure the Effect of Anthropogenic Disturbance on Vervet Monkeys.

Vervet monkeys, Chlorocebus pygerythrus, thrive in urban areas of KwaZulu-Natal, South Africa, and present a suitable model to assess parasitic load as a measure of anthropogenic disturbance, such as urbanization. We collected vervet monkey faecal samples from four study sites representing a gradient of land use and urbanization. We assessed faecal parasites using the faecal flotation method calculating eggs per gram and parasite richness. Overall, the more urban vervet monkey populations had a significantly higher parasite richness and abundance. Our study shows the applicability of using parasite load to measure the effect of urbanization on wildlife.