Development and characterization of 11 microsatellite loci in a historically introduced carnivoran, the common genet (Genetta genetta)

Microsatellite markers were developed to assess population structure and patterns of translocation in the introduced European common genet (Genetta genetta). Primer pairs were designed for 60 microsatellite sequences enriched for CA, GA, CATC and TAGA repeat motifs. Eleven loci that proved to be polymorphic were genotyped in 33 individuals from southwestern France. The number of alleles per locus and observed heterozygosities varied from three to seven and from 0.2121 to 0.7576, respectively. One locus (B103) showed significant departure from Hardy-Weinberg equilibrium, probably due to the presence of null alleles. Tests of linkage disequilibrium did not detect significant associations among loci.     

Genetic structure of the common impala (Aepyceros melampus melampus) in South Africa: phylogeography and implications for conservation

We analysed 131 common impala (Aepyceros melampus melampus) samples from two provinces in South Africa (Limpopo and KwaZulu‐Natal) that are separated by the Drakensberg Mountain Range using sequences of the mitochondrial control region and seven polymorphic nuclear microsatellite loci. In line with earlier studies on bovid species, we found very high values of genetic diversity, particularly at the mtDNA locus with an overall nucleotide diversity of 3.6% and an overall haplotype diversity of 0.98. All statistical approaches confirmed a significant population differentiation between Limpopo and KwaZulu‐Natal, suggesting that areas of unsuitable habitat caused by the presence of the Drakensberg Range and the Indian Ocean coastal belt act as a barrier to gene flow. Only few individuals with signs of admixed origin were indicative of translocations or rare migration between the two provinces. Combination of our mtDNA data set with those of previous studies on impala from south‐western, southern and eastern Africa revealed the highest diversity in South Africa. This is in line with the hypothesis of a southern glacial refuge from which various African ungulate species spread northeast during the Holocene, although in the case of impala further analyses based on larger data sets will be necessary to definitively settle this question.     

Spatial ecology and habitat use of giraffe (Giraffa camelopardalis) in South Africa

The lack of long-term studies remains a limiting factor in understanding the home range, spatial ecology and movement of giraffes. We equipped eight giraffes with GPS satellite units and VHF capacity, which were built in to the collars for the remote collection of data on their movements and home ranges over two years on Khamab Kalahari Nature Reserve (KKNR) within the Kalahari region of South Africa. Giraffe numbers in KKNR dropped from 135 individuals to 111 in just five years, revealing the lack of knowledge about their required habitat needs, space use and diet. With over 1000 km² available for roaming within the reserve, habitat selection, principle and preferred food species played a significant role in home range size and overlap between individuals. These giraffes used an average annual home range of 206 km² (20 602 ha) as calculated by a 95% minimum convex polygon (MCP) with a standard deviation core home range calculated by a 50% MCP of 10.1 km² to satisfy their annual needs for survival and reproduction in their preferred vegetation. In the wet, hot season (summer: December–February) when food was abundant, giraffes frequented smaller areas (average 177 km²), while in the dry, cool season (winter: June to August) the mean home range size increased to approximately 245 km². Rainfall influenced spatial distribution since it determined vegetation productivity and leaf phenology. The different seasons influenced giraffe movements, while different vegetation types and season influenced their home range size. Season and food availability also influenced home range overlap between different giraffe herds. Home range overlap occurred when giraffes were forced to roam in overlapping areas during the dryer months when the winter deciduous nature of the majority of the tree species resulted in lower food availability. In winter, the overlap was approximately 31% and in autumn approximately 23%. During the wet and warmer months, overlapping was 15% in summer and 19% in spring, respectively. The percentage of time spent in different vegetation type areas was influenced by the abundance of the principal food species of that plant community. It is thus concluded that the movements of giraffes were primarily influenced by a combination of environmental factors such as season, rainfall and vegetation density.     

Reproductive biology of four large riverine fishes (Cyprinidae) in a man-made lake,Orange River,South Africa

The reproductive biology ofBarbus holubi, B. kimberleyensis, Labeo capensis andL. umbratus was examined in a large reservoir on the Orange River, South Africa. The findings are integrated into the existing knowledge on largeBarbus andLabeo species, which coexist in most river systems in Africa and Asia.LargeBarbus spawn on gravel beds within the river channel during floods in spring or summer. In continuously flowing regulated rivers, time of spawning is governed by water temperatures. They have moderate fecundity; large eggs, incubation time of several days and the larvae are initially immobile with large yolk sacs. In the impoundment, they spawn in the inflowing regulated river withB. kimberleyensis spawning four to six weeks later than the more cold-tolerantB. holubi, the dominant largeBarbus. Survival is generally good and the juveniles disperse throughout the lake, but unseasonal release of cold water from an upstream impoundment may cause poor reproductive success.In contrast,Labeo species generally spawn on newly flooded ground, usually leaving the main river channel. Spawning may or may not be preceded by a longitudinal migration. Labeos are relatively fecund with small (30%Barbus size) eggs which hatch quickly and the larvae swim in bursts up into the water column before sinking down again.L. capensis does not require a longitudinal spawning migration and breeds throughout the lake, depending on local conditions. Large temporal variation in gonadal development within the population can result in more than one spawning. Dispersal within the lake is poor.L. umbratus uses larger inflowing tributaries for spawning thanL. capensis and its juveniles have a much greater power of dispersal. Early dependence on external feeding and undependable occurrence of conditions for spawning and juvenile feeding makes for variable reproductive success.     

Reproductive potential and seedling establishment of the invasive alien tree Schinus molle (Anacardiaceae) in South Africa

Schinus molle (Peruvian pepper tree) was introduced to South Africa more than 150 years ago and was widely planted, mainly along roads. Only in the last two decades has the species become naturalized and invasive in some parts of its new range, notably in semi‐arid savannas. Research is being undertaken to predict its potential for further invasion in South Africa. We studied production, dispersal and predation of seeds, seed banks, and seedling establishment in relation to land uses at three sites, namely ungrazed savanna once used as a military training ground; a savanna grazed by native game; and an ungrazed mine dump. We found that seed production and seed rain density of S. molle varied greatly between study sites, but was high at all sites (384 864–1 233 690 seeds per tree per year; 3877–9477 seeds per square metre per year). We found seeds dispersed to distances of up to 320 m from female trees, and most seeds were deposited within 50 m of putative source trees. Annual seed rain density below canopies of Acacia tortillis, the dominant native tree at all sites, was significantly lower in grazed savanna. The quality of seed rain was much reduced by endophagous predators. Seed survival in the soil was low, with no survival recorded beyond 1 year. Propagule pressure to drive the rate of recruitment: densities of seedlings and sapling densities were higher in ungrazed savanna and the ungrazed mine dump than in grazed savanna, as reflected by large numbers of young individuals, but adult : seedling ratios did not differ between savanna sites. Frequent and abundant seed production, together with effective dispersal of viable S. molle seed by birds to suitable establishment sites below trees of other species to overcome predation effects, facilitates invasion. Disturbance enhances invasion, probably by reducing competition from native plants.     

Hsp90 (heat shock protein 90) inhibitor occupancy is a direct determinant of client protein degradation and tumor growth arrest in vivo

Several Hsp90 (heat shock protein 90) inhibitors are currently under clinical evaluation as anticancer agents. However, the correlation between the duration and magnitude of Hsp90 inhibition and the downstream effects on client protein degradation and cancer cell growth inhibition has not been thoroughly investigated. To investigate the relationship between Hsp90 inhibition and cellular effects, we developed a method that measures drug occupancy on Hsp90 after treatment with the Hsp90 inhibitor IPI-504 in living cells and in tumor xenografts. In cells, we find the level of Hsp90 occupancy to be directly correlated with cell growth inhibition. At the molecular level, the relationship between Hsp90 occupancy and Hsp90 client protein degradation was examined for different client proteins. For sensitive Hsp90 clients (e.g. HER2 (human epidermal growth factor receptor 2), client protein levels directly mirror Hsp90 occupancy at all time points after IPI-504 administration. For insensitive client proteins, we find that protein abundance matches Hsp90 occupancy only after prolonged incubation with drug. Additionally, we investigate the correlation between plasma pharmacokinetics (PK), tumor PK, pharmacodynamics (PD) (client protein degradation), tumor growth inhibition, and Hsp90 occupancy in a xenograft model of human cancer. Our results indicate Hsp90 occupancy to be a better predictor of PD than either plasma PK or tumor PK. In the nonsmall cell lung cancer xenograft model studied, a linear correlation between Hsp90 occupancy and tumor growth inhibition was found. This novel binding assay was evaluated both in vitro and in vivo and could be used as a pharmacodynamic readout in the clinic.     

Diversification of a large genus in a continental biodiversity hotspot: temporal and spatial origin of Muraltia (Polygalaceae) in the Cape of South Africa

Phylogenetic relationships in the largely South African genus Muraltia (Polygalaceae) are assessed based on DNA sequence data (nuclear ribosomal ITS, plastid atpB-rbcL spacer, trnL intron, and trnL-F spacer) for 73 of the 117 currently recognized species in the genus. The previously recognised subgenus Muraltia is monophyletic, but the South African endemic genus Nylandtia is embedded in Muraltia subgenus Psiloclada. Subgenus Muraltia is found to be sister to subgenus Psiloclada. Estimates show the beginning of diversification of the two subgenera in the early Miocene (Psiloclada, 19.3+/-3.4 Ma; Muraltia, 21.0+/-3.5 Ma) pre-dating the establishment of the Benguela current (intermittent in the middle to late Oligocene and markedly intensifying in the late Miocene), and summer-dry climate in the Cape region. However, the later increase in species numbers is contemporaneous with these climatic phenomena. Results of dispersal-vicariance analyses indicate that major clades in Muraltia diversified from the southwestern and northwestern Cape, where most of the species are found today.     

Movements of undersized spotted grunter (<Emphasis Type="Italic">Pomadasys commersonnii</Emphasis>) in the Great Fish Estuary,South Africa: implications for fisheries management

The purpose of this study was to test the hypothesis that an estuarine species as the spotted grunter Pomadasys commersonnii is evenly distributed within the estuary and uniformly exploited by different groups of fishers. This was done by investigating the movements and area use of spotted grunter in relation to the fisheries. The position of 20 acoustically tagged fish was recorded during 36 days in February and March 2003, by manual tracking and automated data logging receivers. Information on the fisheries in the estuary was collected through visual registration of fishing effort and interviews. The spotted grunter moved on average 1.0 km (SD ± 0.7) between positional fixes. Most of the fish were positioned in the lower part of the 12 km long estuary, as 70% of the positional fixes were within the first 3 km, and 89% within the first 6 km. Approximately half (49%) of all the fixes were between 1.0 and 1.5 km from the estuary mouth. The spotted grunter used on average 4.9 km (SD ± 4.9) of the length of the estuary, and there was no significant relationship between the length of the estuary used and the body length of the fish (26–39 cm TL). Subsistence fishers accounted for 73% of fishing lines in the water, while recreational fishers accounted for the rest. Ninety-three percent of the lines were recorded within the first 6 km from the estuary mouth, of which 80% were recorded within the first 3 km. Almost 1/3 of the fishing effort was recorded between 1.0 and 1.5 km from the mouth. The hypothesis that the estuarine dependent species spotted grunter was evenly distributed within the estuary was rejected. However, there was a significant relationship between the distribution of the fishing effort of the subsistence fishers and the fish, indicating that the spotted grunter was uniformly exploited within the estuary by this group of fishers. In contrast, there was no relationship between the distribution of fish and recreational anglers.     

Site and landscape features ruling the habitat use and occupancy of the polecat (Mustela putorius) in a low density area: a multiscale approach

We studied the habitat of the polecat at different scales in a low density area. For this purpose we gathered data on the presence of the species and characterised them by location, home range and landscape scales. Polecats selected areas of high diversity close to, but not in, streams whilst avoiding intensively managed conifer plantations and dense urban areas. Variables determining the presence/absence of the species were found at home range scales, which implies that management and conservation practices for the species should be aimed mainly at this scale. Finally, our results agree with previously published works, which validate GIS-based approaches as a tool for carnivore management in areas with scarce data or in cases of rare species.     

Varying patterns of coexistence of two mouse lemur species (Microcebus ravelobensis and M. murinus) in a heterogeneous landscape

The coexistence of closely related species is not easily understood on the basis of ecological theories. This study investigates the extent of coexistence of two congeneric species of Microcebus murinus (MUR) and M. ravelobensis (RAV) in northwestern Madagascar. Their presence and local relative population densities were determined by capturing and nocturnal transect counts and compared at 22 study sites in the Ankarafantsika National Park. All sites were characterized with regard to their altitude, access to surface water, and 19 structural vegetation characteristics. RAV and MUR were not equally distributed over this regional scale. RAV occurred in more sites and at higher maximum densities than MUR. The relative population densities of both species were significantly and negatively correlated with each other. Whereas the relative population densities of MUR increased with altitude and were highest in dry habitats far from surface water, the relative population densities of RAV generally decreased with altitude and were highest in low altitude habitats close to surface water. The results of the vegetation characteristics also reflect these general trends. The divergent pattern of local and regional coexistence of these two species is discussed and can be best explained either by the existence of a spatially heterogeneous competitive environment or by independent evolutionary pathways in different historic environments. Am. J. Primatol. 71:928–938, 2009. © 2009 Wiley‐Liss, Inc.     

Land use and forest habitat distribution in the hinterland of(r)a large city

The cumulative effect of many local forest disturbances can be estimated from an analysis of forest distribution at the scale of the entire landscape. To gauge the regional impact of forest clearance and regeneration, a history of forest cover was compiled for the twentieth century in the hinterland of a large city (Wilmington, Delaware, U.S.A.). Forest distribution and character were described by point sampling of historical aerial photographs. Environmental features were measured on visits to sample points in the field. Regional forest coverage has grown from c . 5% in 1890 to 22% in 1990. Most modern stands are <60 years old; only 2.5% of the modern landscape is in forest more than 100 years old. Since 1890, patterns of clearance and regeneration have caused a proportional shift in forest cover from uplands to lowlands and flood plains. Older stands are found on rock fields and steep slopes, indicating abandonment from agriculture according to the quality of local sites. Residential development has been concentrated in uplands, precluding regeneration of forest in that landscape position. In general, land use turnover reflects the character of the local site; there is no evidence of region-wide gradients of regeneration or clearance. Modern forest is concentrated along steep-sided stream valleys and away from roads. The great majority of forest lies within 50 m of a forest margin placing it in the microclimatic and vegetational edge zone. Although most forest is within 200 m of a residence, pedestrian traffic appears to have had only a minor impact in the biological community. By contrast, widespread species impoverish- ment is suggested by the overwhelming youthfulness of modern forest and the low degree of connectedness of forest within the landscape. Management for biological conservation should focus on protection of remnant primary forest, rather than relying on succession to restock secondary stands.     

Activity budgets and use of exhibit space by South American tapir (Tapirus terrestris) in a Zoological Park setting

Six individuals of Tapirus terrestris (two adult males, one juvenile male, and three adult females) were observed the first three months of 1982 at Audubon Park and Zoological Garden. Data for fourteen behavioral states were collected by scan sampling at ten-minute intervals throughout the day and twice throughout the night in an open air, mixed-species exhibit. The data were analyzed to calculate activity budgets and space use. Sleeping, eating, foraging, walking, and standing made up the major portions of the activity budgets. “Natural” activity patterns, as in the wild for browsing ungulates, were displayed under captivity in variously modified form. The characteristics of an individual, especially the reproductive state, affected both activity budget and space use. Zoo regimen significantly modified activity budgets and space use by the animals.     

Sixteen years later: Occurrence,group size,and habitat use of humpback dolphins (Sousa plumbea) in Algoa Bay,South Africa

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.     

Flies in the ointment: a morphological and molecular comparison of Lucilia cuprina and Lucilia sericata (Diptera: Calliphoridae) in South Africa

Abstract.  Complementary nuclear (28S rRNA) and mitochondrial (COI) genes were sequenced from blowflies that phenotypically resembled Lucilia cuprina (W.), Lucilia sericata (Meigen) or exhibited characters of both species. The aim was to test a long-held hypothesis that these species hybridize under natural conditions in South Africa ( Ullyett, 1945 ). Blowflies were obtained predominantly from the Cape Town metropolitan area, but reference samples were acquired for L. sericata from Pretoria. Several L. cuprina -like flies were shown to possess a conflicting combination of nuclear and mitochondrial genes that has also been seen in Hawaiian specimens. Homoplasy, sampling of pseudogenes, hybridization and incomplete lineage sorting are discussed as possible hypotheses for the pattern and the latter is concluded to represent the most likely explanation.     

Quantifying plant biomass and seed production in camelina (Camelina sativa (L.) Crantz) across a large range of plant densities: Modelling approaches

To date, there has been little agreement on supporting the hypothesis that how some key vegetative traits of camelina (Camelina sativa (L.) Crantz var. ‘Soheil’) are dependent on plant biomass. Therefore, the main aim of this investigation was to quantify the relationship between the size of camelina plants and seed production across a broad-range of plant densities through modelling approaches. To make a wide range of plant densities, a fan design was used in eight replicates in an experimental field at Sari Agricultural Sciences and Natural Resources University, Iran. To quantify the relation between plant density and other plant traits, a regression analysis was carried out and the coefficient of determination (R²) was considered to evaluate the goodness of fit model. A power model (y = ax^b) could describe well the relationship between plant density (ranged 113–2905 plants m⁻²) and plant biomass, seed production, number of seeds per plant, stem diameter, and siliques number, with the coefficient of determination (R²) values of 0.85, 0.87, 0.65, 0.64, and 0.90, respectively. The harvest indexes were 13.8%–26.9%, depending on plant density. Seed production per plant was positively correlated to the siliques number (r = 0.85), the branch number (r = 0.80), and the seed number (r = 0.99) which could be key components of camelina seed production per plant. Furthermore, no significant correlation was found among plant height, thousand-seed weight, and harvest index with seed production per plant. In conclusion, plant biomass could be considered an important trait to predict plant growth models of camelina. Also, a lower plant density of camelina can be compensated by a greater number of siliques, branches and seeds per plant.     

Neutron microtomography‐based virtual extraction and analysis of a cercopithecoid partial cranium (STS 1039) embedded in a breccia fragment from sterkfontein member 4 (South Africa)

The Plio‐Pleistocene karstic sedimentary deposits of Sterkfontein Cave, South Africa, yielded numerous fossil primate specimens embedded in blocks of indurated breccia, including the partial cercopithecoid cranium labelled STS 1039. Because the surrounding matrix masks most of its morphology, the specimen remains taxonomically undetermined. While the use of X‐ray microtomography did not allow extracting any structural information about the specimen, we experimented a new investigative technique based on neutron microtomography. Using this innovative approach, we successfully virtually extracted, reconstructed in 3D and quantitatively assessed the preserved dentognathic structural morphology of STS 1039, including details of its postcanine maxillary dentition. Following comparative analyses with a number of Plio‐Pleistocene and extant cercopithecoid taxa, we tentatively propose a taxonomic attribution to the taxon Cercopithecoides williamsi. Our experience highlights the remarkable potential of this novel imaging method to extract diagnostic information and to identify the fossil remains embedded in hard breccia from the South African hominin‐bearing cave sites. Am J Phys Anthropol 159:737–745, 2016. © 2015 Wiley Periodicals, Inc.     

Inflorescence-inhabiting spiders do not threaten the survival and fecundity of Anthonomus santacruzi (Curculionidae), a florivorous biocontrol agent of Solanum mauritianum (Solanaceae) in South Africa

The florivorous weevil Anthonomus santacruzi is being released in South Africa to reduce the reproductive capacity of the invasive tree, Solanum mauritianum. Initiated to allay concerns about biotic interference, our study suggests that inflorescence-inhabiting spiders pose no risk to the survival and proliferation of A. santacruzi populations in the field.     

Population dynamics of two sympatric antelope species, grey rhebok (Pelea capreolus) and mountain reedbuck (Redunca fulvorufula), in a highveld grassland region of South Africa

Population dynamics of grey rhebok Pelea capreolus and mountain reedbuck Redunca fulvorufula were monitored at Sterkfontein Dam Nature Reserve in South Africa over three breeding seasons. Birth and death rates were recorded in both species, and causes of death were investigated. Immigration and emigration were monitored in grey rhebok. Grey rhebok bred seasonally, with 91% of lambs being born between November and February. The average fecundity rate was 74% and lamb sex ratios were 22M:19F. Mountain reedbuck also bred seasonally, with a birth peak between October and December. The average fecundity rate was 92%, and lamb sex ratios were 12M:8F. Most deaths in both species occurred between June and November each year. Sixteen grey rhebok deaths occurred during the study, of which 10 resulted from hypothermia during one spring snowfall event. This represented 27% of the population at the time. Males and females were affected to the same degree by the snow, but juveniles suffered more than adults. There was no evidence of infectious disease or predation. Forty-three mountain reedbuck deaths occurred during the study, of which 32 resulted from hypothermia following the snowfall. This represented 51% of the population at the time. Females were affected by hypothermia more than males. There was no evidence of disease in the population from the examination of 41 culled animals, and no evidence of predation. Immigration and emigration within the grey rhebok population were uncommon, but dispersal of yearling males occurred every year between October and December when they were evicted from their natal herds. Herd structure of adult animals was very stable. In mountain reedbuck, emigration was very hard to detect.     

Isolation and characterization of a manganese‐oxidizing bacterium from a biofiltration system for the treatment of borehole water in KwaZulu‐Natal (South Africa)

Using minimal salts medium containing vitamins and pyruvate (MSVP) plus added manganese sulfate, a manganese (II) oxidizing bacterial strain was isolated from water samples of a biofiltration system treating borehole water in KwaZulu‐Natal, South Africa. The nonmotile Gram‐negative and oxidase‐negative isolate was subsequently characterized microbiologically. Based on its morphological and physiological characteristics and on the analysis of its 16S rRNA gene sequence, the isolate was assigned to the genus Acinetobacter. Growth of the isolated strain in MSVP with added manganese sulfate gave rise to a drop in pH and a concomitant increase in oxidation–reduction potential, which was absent in controls, thus indicating manganese oxidation. The ability of Acinetobacter sp. strain LB1 to oxidize Mn (II) was further verified using the leucoberbelin blue dye assay as well as by energy dispersive X‐ray analysis of crystals formed in the medium. In addition, a biofilm assay indicated that this isolate can attach to solid surfaces such as a biofilter matrix, thus confirming its potential for biotechnological applications in the area of water purification.