Population and conservation genomics of the world's rarest hyena species, the brown hyena (Parahyena brunnea)

With an estimated population size of less than 10,000 individuals worldwide, the brown hyena (Parahyaena brunnea) has been listed as ‘near threatened’ by the IUCN. Despite this rank, studies involving DNA analyses of the brown hyena are limited. Little consideration has been focussed towards population structure within the brown hyena, which could provide valuable insights about its evolutionary history and aid in conservation efforts of the species. Here we report both mitochondrial and nuclear genomes of wild-caught brown hyena individuals from across southern Africa. Mitochondrial DNA shows little to no phylogeographic structure, whereas low-coverage nuclear genomes reveal several potential sub-populations. Moreover, we find that brown hyenas harbour the lowest genetic diversity for a species on both the mitochondrial and nuclear level when compared to a number of mammalian species for which such information is currently available. Our data also reveal that at least on the nuclear DNA level, this low diversity could be the result of a continuous and ongoing decline in effective population size that started about one million years ago and dramatically accelerated towards the end of the Pleistocene. Moreover, our findings also show that the correlation between genetic diversity and the perceived risk of extinction is not particularly strong, since many species with higher genetic diversity than the brown hyena are considered to be at greater risk of extinction. Taken together, our results have important implications for the conservation status and conservation approaches of the brown hyena.

Coexistence and the cheetah’s relations with other carnivores

In the southern Kalahari densities of large carnivores are relatively low, with the brown hyena the most abundant. Resource partitioning is well defined as each species tends to concentrate on the prey species it is best adapted to utilize, and they show dietary flexibility. Interactions between cheetahs and other large carnivores were rare and mostly inconsequential. Only 6.1% of kills were kleptoparasitized, with an average percentage loss of 65% per kill. Nearly all (82.6%) kills stolen, were stolen at night, were springbok, and the perpetrators were mainly lions and brown hyenas. Diurnal hunting largely counters kleptoparasitism, and anyway cheetahs are well adapted physiologically, through their daily energy expenditure, to cope with over 25% loss of kills. Jackals were often attracted to cheetah kills. Occasionally, if numbers grew to more than five, they could harass cheetahs into abandoning the kill prematurely. Jackals may also sometimes kill small cheetah cubs.

Brown hyena habitat selection varies among sites in a semi-arid region of southern Africa

Human/carnivore conflicts are common across the globe, and with a growing human population, this conflict is likely to increase as the space available to large carnivores is reduced. In South Africa, many small (< 400 km 2 ), fenced protected areas have reintroduced persecuted carnivores, such as brown hyenas ( Hyaena brunnea ). These reserves have great potential to conserve brown hyena populations; consequently, understanding the limitations that small, fenced reserves impose on space use patterns is needed. We investigated the home range (95% fixed kernel utilization distributions) and landscape determinants of habitat selection using resource selection functions for 10 brown hyenas in 3 separate fenced reserves. Home range sizes were consistently smaller in 2 of the reserves when compared to the third. Considerable variation in the selection of habitat features exists among individual brown hyenas and reserves. The most important landscape determinant driving brown hyena space use was distance to roads, with brown hyenas observed closer to roads when compared to random locations within their ranges. If this relationship with roads holds outside of protected areas, it could represent a considerable threat to the species. Thus, obtaining a better understanding of the influence of roads on brown hyenas represents an important focus for future research.

Phylogenetic Comparisons Implicate Sex Hormone-Binding Globulin in “Masculinization” of the Female Spotted Hyena (Crocuta crocuta)

Exposures to sex steroids during fetal development are thought to contribute to the unique urogenital anatomy and social dominance of the female spotted hyena: overt phenotypes not shared by other hyenids (i.e. striped hyena, brown hyena, and aardwolf). Because both androgens and estrogens influence development of genitalia and behavior, and because plasma SHBG regulates their access to tissues, we compared the Shbg gene sequences, structures, and steroid-binding properties in the four extant hyenids. We found the hyenid Shbg genes (>95% identical) and mature protein sequences (98% identical) are highly conserved. As in other mammals, the hyenid SHBG all bind 5α-dihydrotestosterone with high affinity (Kd = 0.62–1.47 nm), but they also bind estrone and dehydroepiandrosterone with similarly high affinity, and this unusual property was attributed to specific amino acids within their SHBG steroid-binding sites. Phylogenetic comparisons also indicated that the spotted hyena SHBG precursor uniquely lacks two leucine residues and has a L15W substitution within its secretion signal polypeptide, the reduced size and hydrophobicity of which markedly decreases the production of SHBG and may therefore explain why serum SHBG concentrations in male and female spotted hyenas are approximately five times lower than in other hyenids. This is important because low plasma SHBG concentrations in spotted hyenas will increase exposure to biologically active androgens and estrogen as well as to their precursors (dehydroepiandrosterone and estrone), which may contribute to the masculinized external genitalia of female spotted hyenas and to female social dominance over males.

Paleoenvironmental and Human Behavioral Implications of the Boegoeberg 1 Late Pleistocene Hyena Den, Northern Cape Province, South Africa

Boegoeberg 1 (BOG1) is located on the Atlantic coast of South Africa, 850 km north of Cape Town. The site is a shallow rock shelter in the side of a sand-choked gully that was emptied by diamond miners. Abundant coprolites, chewed bones, and partially digested bones implicate hyenas as the bone accumulators. The location of the site, quantity of bones, and composition of the fauna imply it was a brown hyena nursery den. The abundance of Cape fur seal bones shows that the hyenas had ready access to the coast. Radiocarbon dates place the site before 37,000 14C yr ago, while the large average size of the black-backed jackals and the presence of extralimital ungulates imply cool, moist conditions, probably during the early part of the last glaciation (isotope stage 4 or stage 3 before 37,000 14C yr ago) or perhaps during one of the cooler phases (isotope substages 5d or 5b) within the last interglaciation. Comparisons of the BOG1 seal bones to those from regional Middle Stone Age (MSA) and Later Stone Age (LSA) archeological sites suggest (1) that hyena and human seal accumulations can be distinguished by a tendency for vertebrae to be much more common in a hyena accumulation and (2) that hyena and LSA accumulations can be distinguished by a tendency for hyena-accumulated seals to represent a much wider range of individual seal ages. Differences in the way hyenas and people dismember, transport, and consume seal carcasses probably explain the contrast in skeletal part representation, while differences in season of occupation explain the contrast in seal age representation. Like modern brown hyenas, the BOG1 hyenas probably occupied the coast year-round, while the LSA people focused their coastal visits on the August–October interval when nine-to-eleven-month-old seals were abundant. The MSA sample from Klasies River Mouth Cave 1 resembles BOG1 in seal age composition, suggesting that unlike LSA people, MSA people obtained seals more or less throughout the year.