Ecosystem function and resilience is determined by the interactions and independent contributions of individual species. Apex predators play a disproportionately determinant role through their influence and dependence on the dynamics of prey species. Their demographic fluctuations are thus likely to reflect changes in their respective ecological communities and habitat. Here, we investigate the historical population dynamics of the killer whale based on draft nuclear genome data for the Northern Hemisphere and mtDNA data worldwide. We infer a relatively stable population size throughout most of the Pleistocene, followed by an order of magnitude decline and bottleneck during the Weichselian glacial period. Global mtDNA data indicate that while most populations declined, at least one population retained diversity in a stable, productive ecosystem off southern Africa. We conclude that environmental changes during the last glacial period promoted the decline of a top ocean predator, that these events contributed to the pattern of diversity among extant populations, and that the relatively high diversity of a population currently in productive, stable habitat off South Africa suggests a role for ocean productivity in the widespread decline.

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The Indian Ocean humpback dolphin was recently uplisted to 'Endangered' in the recent SouthAfrican National Red List assessment. Abundance estimates are available from a number of localized study sites, but knowledge of movement patterns and population linkage between these sites is poor. A national research collaboration, the SouSA project, was established in 2016 to address this key knowledge gap. Twenty identification catalogues collected between 2000 and 2016 in 13 different locations were collated and compared.2. Photographs of 526 humpback dolphins (all catalogues and photos) were reduced to 337 individuals from 12 locations after data selection. Of these, 90 matches were found for 61 individuals over multiple sites, resulting in 247 uniquely, well-marked humpback dolphins identified in South Africa.3. Movements were observed along most of the coastline studied. Ranging distances had a median value of 120 km and varied from 30 km up to 500 km. Long-term site fidelity was also evident in the data. Dolphins ranging along the south coast of South Africa seem to form one single population at the western end of the species' global range.4. Current available photo-identification data suggested national abundance may be well below previous estimates of 1000 individuals, with numbers possibly closer to 500. Bearing in mind the poor conservation status of the species in the country, the development of a national Biodiversity Management Plan aimed at ensuring the long-term survival of the species in South Africa is strongly recommended. At the same time, increased research efforts are essential, particularly to allow for an in-depth assessment of population numbers and drivers of changes therein.5. The present study clearly indicates the importance of scientific collaboration when investigating highly mobile and endangered species.

Coastal dolphins are more prone to cumulative impacts of environmental and anthropogenic changes than pelagic species. However, few studies use historical comparisons to evaluate those impacts across a temporal scale. The study presented here describes the pattern of occurrence, group size, behavior, and habitat use of humpback dolphins in Algoa Bay and compares these to a similar study conducted in the early 1990s. Results indicate a considerable change in the frequency of occurrence. Furthermore, the mean group size has decreased from six to three individuals, mainly due to an increase in occurrence of solitary individuals (36.3% vs. 15.4%). Foraging, which was previously the predominant activity (64%), has now been replaced by traveling (49%). Moreover, dolphins showed a negative reaction towards a variety of watercrafts and swimmers. These observed differences could be due to a change in prey abundance, direct anthropogenic disturbance, and/or population decline. We emphasize the need for long-term environmental and biological data series and long-term monitoring of the demographics of this population to accurately assess any changes observed in future.

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We investigated the phylogeography of the dugong (Dugong dugon) across its original range using museum material from 14 natural history museum and university collections. The mitochondrial DNA control region was successfully amplified from samples of bone or tooth powder from 162 individuals. These samples range from 1827 to 1996 and span the historical distribution range of the dugong. We were able to successfully amplify overlapping fragments of the D-loop region of the mitochondrial DNA (mtDNA) resulting in sequences of a 355 bp fragment for 162 individuals for the final analyses. This included a new sequence (189 bp) from a previously unidentified piece of skin of the extinct Steller’s sea cow (Hydrodamalis gigas), as an outgroup. The resulting dugong sequences match those from previous studies of dugongs from Australia and Indonesia, but revealed several new and divergent mtDNA lineages in the Indian Ocean. One mtDNA lineage includes most specimens from the Western Indian Ocean, with another distinct lineage isolated to nearby Madagascar and Comores. There is little geographic structuring detectable among other populations in the Western Indian Ocean and all populations from that region appear to have historically contained comparatively low levels of genetic diversity. The genetic diversity of several Indian Ocean samples collected after 1950 was lower than that of the samples collected earlier from similar locations, a result coincident with the anecdotal reductions in population size. The new lineages and potential loss of diversity highlight the particular conservation importance and vulnerability of dugong populations in the Western Indian Ocean.

This study investigates how group size of Indo-Pacific bottlenose dolphins (Tursiops aduncus) changes temporally, spatially, and/or with predominant behavior at two discreet sites along the Eastern Cape coastline of South Africa: Algoa Bay and the Wild Coast. The mean group size of bottlenose dolphins was large with an average of 52 animals. Significantly larger groups were observed in Algoa Bay ( x = 60, range = 1-600) than off the Wild Coast ( x = 32.9, range = 1-250). In Algoa Bay, the mean group size increased significantly over the study period, from an average 18 animals in 2008 to 76 animals in 2016. Additionally, the largest average and maximum group sizes ever reported both in South Africa and worldwide, were recorded in Algoa Bay (maximum group size = 600). Neither season nor behavior had a significant effect on mean group size at both sites. Similarly environmental variables such as the depth and substrate type also had no influence on group size. It remains unclear which ecological drivers, such as predation risk and food availability, are leading to the large groups observed in this area, and further research on abundance and distribution of both predators and prey is necessary.

Coastal dolphins are regarded as indicators of changes in coastal marine ecosystem health that could impact humans utilizing the marine environment for food or recreation. Necropsy and histology examinations were performed on 35 Indian Ocean bottlenose dolphins (Tursiops aduncus) and five Indo-Pacific humpback dolphins (Sousa plumbea) incidentally caught in shark nets off the KwaZulu-Natal coast, South Africa, between 2010 and 2012. Parasitic lesions included pneumonia (85%), abdominal and thoracic serositis (75%), gastroenteritis (70%), hepatitis (62%), and endometritis (42%). Parasitic species identified were Halocercus sp. (lung), Crassicauda sp. (skeletal muscle) and Xenobalanus globicipitis (skin). Additional findings included bronchiolar epithelial mineralisation (83%), splenic filamentous tags (45%), non-suppurative meningoencephalitis (39%), and myocardial fibrosis (26%). No immunohistochemically positive reaction was present in lesions suggestive of dolphin morbillivirus, Toxoplasma gondii and Brucella spp. The first confirmed cases of lobomycosis and sarcocystosis in South African dolphins were documented. Most lesions were mild, and all animals were considered to be in good nutritional condition, based on blubber thickness and muscle mass. Apparent temporal changes in parasitic disease prevalence may indicate a change in the host/parasite interface. This study provided valuable baseline information on conditions affecting coastal dolphin populations in South Africa and, to our knowledge, constitutes the first reported systematic health assessment in incidentally caught dolphins in the Southern Hemisphere. Further research on temporal disease trends as well as disease pathophysiology and anthropogenic factors affecting these populations is needed.