Mitochondrial genes reveal cryptic diversity in plant-breeding frogs from Madagascar (Anura, Mantellidae, Guibemantis)

One group of mantellid frogs from Madagascar (subgenus Pandanusicola of Guibemantis) includes species that complete larval development in the water-filled leaf axils of rainforest plants. This group consists of six described species: G. albolineatus, G. bicalcaratus, G. flavobrunneus, G. liber, G. pulcher, and G. punctatus. We sequenced the 12S and 16S mitochondrial rRNA genes ( approximately 1.8 kb) from multiple specimens (35 total) of all six species to assess phylogenetic relationships within this group. All reconstructions strongly supported G. liber as part of the Pandanusicola clade, even though this species does not breed in plant leaf axils. This result confirms a striking reversal of reproductive specialization. However, all analyses also indicated that specimens assigned to G. liber include genetically distinct allopatric forms that do not form a monophyletic group. Most other taxa that were adequately sampled (G. bicalcaratus, G. flavobrunneus, and G. pulcher) likewise consist of several genetically distinct lineages that do not form monophyletic groups. These results suggest that many of the recognized species in this group are complexes of cryptic species.     

Demographic analysis of a dominant shrub (Cytisus scoparius): Prospects for encroachment control

Shrub encroachment in pastoral areas subsequent to land-use changes has become a major problem for biodiversity and pastoral resource conservation. Controlling encroachment by grazing is the most promising prospect at this time, but the impact of small domestic ruminants on the population dynamics of dominant shrubby species is still poorly understood. To control the rapid densification of dominant shrub populations means that we have to focus on the early stages of shrub colonisation. In this paper, we present a modelling approach that includes deterministic matrix modelling to understand demography strategy at the very beginning of shrub population growth and to identify potential targeted life stages for control. We collected demographic data over a period of 5 years on the European dominant shrub, Cytisus scoparius (Scotch broom; Fabaceae), which is often part of the heathlands that establish themselves on former permanent grasslands in Europe. Our results reveal a very high variation in flowering frequency between years and a large contribution of the seed bank to the total number of seedlings that emerge each year. Modelling shows that population growth is very vigorous and is not stopped by repeated “bad years” for seed production. Sensitivity analyses indicate that early life stage survival (seedling, juvenile) has the greatest impact on population growth. These results make it possible to identify juveniles as one of the best targets for control since they combine a high degree of sensitivity in terms of population demography, good palatability for domestic herbivores and easy accessibility within a management schedule.     

Demographic costs of Chaoborus-induced defences in Daphnia pulex: a sensitivity analysis

Summary We examined the demographic costs of Chaoborus-induced defensive spine structures in Daphnia pulex. Our aim was to assess the role of resource limitation and the interaction effects of limiting food level and antipredator structures on fitness of D. pulex and to pinpoint those life stages that are most sensitive to changes in the defence regime. Chaoborus-induced and typical morphotypes of D. pulex were reared at high and low food concentrations. Instar-based matrix population models were used to quantify the effects of predator-induction, food and their interaction on fitness of D. pulex. Predator-induction caused a statistically significant reduction in fitness at low food levels, but not at high food levels. Sensitivity analyses revealed that the fitness effects were primarily due to changes in the growth rate in instars 1–5, and secondarily to small reductions in the fertility of instars 5–10. The interaction between Chaoborus exposure and low food concentration was negative, and mediated through growth and fertility components. Both these components were reduced more in the Chaoborus-exposed, low food treatment than would be expected in the absence of interaction.     

Viability and Management of an Endangered Capercaillie (Tetrao urogallus) Metapopulation in the Jura Mountains, Western Switzerland

The populations of Capercaillie (Tetrao urogallus), the largest European grouse, have seriously declined during the last century over most of their distribution in western and central Europe. In the Jura mountains, the relict population is now isolated and critically endangered (about 500 breeding adults). We developed a simulation software (TetrasPool) that accounts for age and spatial structure as well as stochastic processes, to perform a viability analysis and explore management scenarios for this population, capitalizing on a 24 years-long series of field data. Simulations predict a marked decline and a significant extinction risk over the next century, largely due to environmental and demographic stochasticity (average values of life-history parameters would otherwise allow stability). Variances among scenarios mainly stem from uncertainties about the shape and intensity of density dependence. Uncertainty analyses suggest to focus conservation efforts on enhancing, not only adult survival (as often advocated for long-lived species), but also recruitment. The juvenile stage matters when local populations undergo extinctions, because it ensures connectivity and recolonization. Besides limiting human perturbations, a silvicultural strategy aimed at opening forest structure should improve the quality and surface of available patches, independent of their size and localization. Such measures are to be taken urgently, if the population is to be saved.     

Current state and the future of the crested ibis (Nipponia nippon): A case study by population viability analysis

There is only one population of the crested ibis (Nipponia nippon) surviving in the wild, which has not exceeded 40 individuals since it was rediscovered in 1981. We used detailed data of the annual population size and natality collected by the Crested Ibis Conservation and Observation Station (CICOS) over the past 17years. We were able to obtain a more accurate census of age structure and mortality as all of the fledglings have been identified by leg bands in 1987. Consequently, we analyzed the current state of the crested ibis and predicted its future using Population Viability Analysis (PVA) with the help of the computer simulation model VORTEX (Version 7.2). The results indicated that the extinction probability of the crested ibis was 19.7% in 100years. Sensitivity analysis showed that the extinction probabilities were sensitive to catastrophes and environmental variation, and the long-term existence of the population was dependent on the carrying capacity of the habitat and inbreeding depression. Conservation efforts are critical for the survival of the crested ibis. The prior conservation project involves controlling hunting and predation, as well as improving the life level of these few remnant creatures.     

The predictive accuracy of population viability analysis: a test using data from two small mammal species in a fragmented landscape

This study examines the predictive accuracy of the population viability analysis package, ALEX (Analysis of the Likelihood of EXtinction). ALEX was used to predict the probability of patch occupancy for two species of small native Australian mammals (Antechinus agilis and Rattus fuscipes) among 13 patches of suitable habitat in a matrix of plantation pines (Pinus radiata). The study was retrospective, running each simulation from 1900 until 1997, and the model parameterised without knowledge of the 1997 observed field data of patch occupancy. Predictions were made over eight scenarios for each species, allowing for variation in the amount of dispersal between patches, level of environmental stochasticity, and size of habitat patches. Predicted occupancies were compared to the 1997 field data of patch occupancy using logistic regression, testing H _random, that there was no relationship between observed and predicted occupancy, and H _perfect, that there was a perfect, 1:1 relationship between observed and predicted occupancies. Rejection of H _random and failure to reject H _perfect was taken as a good match between observed and predicted occupancies. Such a match was found for one scenario with R. fuscipes, and no scenarios with A. agilis. In general, patch occupancy was underestimated, with field surveys finding that 9 of the 13 patches were occupied by R. fuscipes and 10 by A. agilis. Nonetheless, PVA predictions were in the right direction, whereby patches predicted to have a high probability of occupancy were generally occupied, and vice versa. A post hoc search over additional scenarios found few scenarios with a better match than the original eight. The results of this study support the notion that PVA is best thought of as a relative, rather than absolute predictor of the consequences of management actions in threatened populations.     

Molecular phylogeny and biogeography of Malagasy frogs of the genus Gephyromantis

The genus Gephyromantis is a clade within the Malagasy-Comoroan family Mantellidae composed of rainforest frogs that live and breed to varying degrees independently from water. Based on DNA sequences of five mitochondrial and five nuclear genes we inferred the phylogeny of these frogs with full taxon coverage at the species level. Our preferred consensus tree from a partitioned Bayesian analysis of 5843 base pairs of 51 nominal and candidate species supports various major clades within the genus although the basal relationships among these remain unresolved. The data provide strong evidence for the monophyly of the subgenera Gephyromantis (after exclusion of Gephyromantis klemmeri), Laurentomantis, Vatomantis, and Phylacomantis. Species assigned to the subgenus Duboimantis belong to two strongly supported clades of uncertain relationships. G. klemmeri, previously in the subgenus Gephyromantis, was placed with high support sister to the Laurentomantis clade, and the Laurentomantis + G. klemmeri clade was sister to Vatomantis. A reconstruction of ancestral distribution areas indicates a diversification of several subgenera in the northern biogeographic regions of Madagascar and the dispersal out of northern Madagascar for several clades.     

Biodegradation of Pinus radiata softwood by white- and brown-rot fungi

The weight and component losses of Pinus radiata wood after decay by six species of white-rot and two species of brown-rot fungi for periods varying from 30 to 360 days were evaluated. Three groups of decayed wood samples were identified based on the principal component analysis (PCA) of the data on their weight and component losses. Selective lignin degradation was produced by Ceriporiopsis subvermispora and Punctularia atropurpurascens within different periods, the longest one lasting 90 days, and also by Merulius tremellosus after 90 days of biodegradation. Comparing the data on biodegradation of P. radiata by Trametes versicolor with the ones reported for biodegradation of Eucalyptus globulus and E. grandis indicated that P. radiata is as susceptible to wood decay by this white-rot fungus as the two types of hardwood.     

Renewed hope for the threatened avian endemics of northeastern Brazil

The forests north of the São Francisco River, in northeastern Brazil, conform a centre of endemism for plants and animals. Currently only 5% of its original forest cover is left, following 500 years of human colonisation. Avian endemism is high, and during the 1980s four birds were described from these forests, Alagoas Foliage-gleaner Philydor novaesi, Orange-bellied Antwren Terenura sicki, Alagoas Antwren Myrmotherula snowi and Alagoas Tyrannulet Phylloscartes ceciliae. Their type locality, Murici Ecological Station, in the coastal mountains of Alagoas state, was the only site where the four species were known to occur together, and became the focus of much attention from conservation organisations. We here report on recent surveys at Reserva Privada do Patrimônio Natural Frei Caneca, in the mountains of Pernambuco state, which found these 4 species and 27 other threatened and endemic birds, and a yet undescribed taxon. We propose that more thorough surveys are needed in the reserve and its vicinity, to locate fragments of suitable forest for these species. These should be regarded within a management plan for the reserve (including research and monitoring), and such work should be expanded to a regional level. An educational programme focusing on the values of these forests and the negative impacts of human activities is needed very much.     

Parameter estimation and sensitivity analysis in an agent-based model of Leishmania major infection

Computer models of disease take a systems biology approach toward understanding host-pathogen interactions. In particular, data driven computer model calibration is the basis for inference of immunological and pathogen parameters, assessment of model validity, and comparison between alternative models of immune or pathogen behavior. In this paper we describe the calibration and analysis of an agent-based model of Leishmania major infection. A model of macrophage loss following uptake of necrotic tissue is proposed to explain macrophage depletion following peak infection. Using Gaussian processes to approximate the computer code, we perform a sensitivity analysis to identify important parameters and to characterize their influence on the simulated infection. The analysis indicates that increasing growth rate can favor or suppress pathogen loads, depending on the infection stage and the pathogen's ability to avoid detection. Subsequent calibration of the model against previously published biological observations suggests that L. major has a relatively slow growth rate and can replicate for an extended period of time before damaging the host cell.     

Long-term persistence of aspen – a key host for many threatened species – is endangered in old-growth conservation areas in Finland

Large, dead and dying European aspens (Populus tremula L.) host many threatened species in Fennoscandian boreal forests. Large aspen trees have mostly disappeared and are being harvested from the managed forests that cover 95% of the forest area in Finland. Due to the small area protected (4.1%), the aspen-associated species may encounter major difficulties in the protected areas if aspen trees disappear due to natural forest succession. The availability of aspens was assessed in the old-growth conservation area network in eastern Finland. We mapped all the living and dead aspens in 15 protected old-growth forests. The total number of counted trees was 32 903 individuals. Current amounts of living (2.7 m³/ha) and especially dead aspens (2.8 m³/ha) in the protected areas were higher than in the surrounding managed forests (1.1 and 0.1 m³/ha for living and dead trees, respectively). However, while saplings (dbh<5 cm) occur in most of the areas (12 individuals/ha on average) they survive poorly and young aspen cohorts (5 cm <dbh<15 cm) are lacking or are very rare. The most likely reason for the poor sapling survival is high browsing pressure by the mammalian herbivores, especially the moose. The moose population has increased many times in Finland during the past decades. The poor regeneration of aspens implies that the value of the old-growth conservation areas for aspen-associated species will face a serious bottleneck within a few decades when the currently middle-aged tree cohorts disappear. If the current high browsing pressure and lack of natural disturbances continue the obligatory aspen-associated species may disappear both locally and regionally from the network of the protected areas.     

Using ecological theory to plan restorations of the endangered Beach jacquemontia (Convolvulaceae) in fragmented habitats

Population viability and metapopulation theory and models are heuristic tools that can be used to plan restorations and assess their success. Using examples from South Florida, USA, we review background information and ongoing reintroduction experiments with the federally endangered coastal perennial vine, beach jacquemontia, Jacquemontia reclinata (Convolvulaceae). All known wild populations are declining in isolated habitat fragments varying in size, occupied area, and degree of isolation. Eleven reintroduction sites ranging in size from 422 to 4800 m² within the extant species’ range have been identified that have characteristics suitable for J. reclinata introductions and have land managers amenable to restoration efforts. Previous RAPD analysis indicated that genetic diversity of natural populations was positively correlated with population size; the two largest populations had the highest genetic diversity and the smallest populations had relatively low genetic diversity. Despite habitat fragmentation and large distances between some populations, migration rates were very high among populations (m=4.05). Experimental crosses indicated the species has a mixed mating system. From 2001 to 2005, we have introduced 935 J. reclinata in seven experiments in five locations using plants propagated ex situ at Fairchild Tropical Botanic Garden. Reintroductions have dramatically increased the number of plants in the wild by 72%. Survival from the time of transplant to 2005 ranged from 2% to 97%, was not significantly correlated with metapopulation parameters, such as, founding population size, patch size, or connectivity to extant populations. Reintroduced plants are contributing seed and pollen to the wild populations, but no recruited seedlings have yet been observed. Although it may take decades before we can consider the reintroduced populations to be self-sustainable, we argue that planning restorations for rare species based on predictions from ecological theory is advisable to allow a higher probability of success.     

Phylogenetic relationships of Oriental torrent frogs in the genus Amolops and its allies (Amphibia, Anura, Ranidae)

We investigated the phylogenetic relationships among 20 species of Oriental torrent frogs in the genus Amolops and its allies from China and Southeast Asia based on 1346-bp sequences of the mitochondrial 12S and 16S rRNA genes. Oriental species of the tribe Ranini form a monophyletic group containing 11 clades (Rana temporaria + Pseudoamolops, R. chalconota, four clades of Amolops, Meristogenys, three clades of Huia species, and Staurois) for which the phylogenetic relationships are unresolved. The genus Amolops consists of southern Chinese, southwestern Chinese, Thai, and Vietnamese-Malaysian lineages, but their relationships are also unresolved. The separation of southern and southwestern lineages within China conforms to previous morphological and karyological results. Species of Huia do not form a monophyletic group, whereas those of Meristogenys are monophyletic. Because P. sauteri is a sister species of R. temporaria, distinct generic status of Pseudoamolops is unwarranted.     

Viability of the Endangered Little Bustard <Emphasis Type="Italic">Tetrax tetrax</Emphasis> Population of Western France

Stochastic computer simulations are used to evaluate the sensitivity of Little bustard population parameters, estimating the survival probabilities of the seven endangered Little bustard populations of central-western France for which conservation actions are currentlybeing or have been implemented. Different scenarios of parameter compensation for those nuclei to establish parameter levels assuring population viability are discussed. Adult survival, productivity per female, initial population size and carrying capacity were the most sensitive parameters in a hypothetical, isolated population. Juvenile survival also affected population survival, although its sensitivity was lower. Sex ratio did not have a linear effect on population survival, but probability of extinction increased for extreme values. Productivity per female and initial population size, varied strongly among the populations studied, determining their average time of extinction and growth rate. When a metapopulation scenario was simulated, the survival probabilities of each population and the metapopulations stayed close to 1.0 if no mortality was associated to migration. When mortality during migration was included in the simulations, the metapopulation's probability of survival significantly decreased under 90%. This approach may help managers to correctly address conservation measures and design effective strategies, which should be directed mainly to improve productivity, enhance female survival, and minimise mortality during migration (e.g. promoting insect-rich nesting substrates, avoiding female killing and nest destruction at harvesting, reducing the risk of collision with powerlines, or controlling poaching).     

Demographic influences on the behavior of chimpanzees

Recent research has revealed substantial diversity in the behavior of wild chimpanzees. Understanding the sources of this variation has become a central focus of investigation. While genetic, ecological, and cultural factors are often invoked to explain behavioral variation in chimpanzees, the demographic context is sometimes overlooked as a contributing factor. Observations of chimpanzees at Ngogo, Kibale National Park, Uganda, reveal that the size and structure of the unit group or community can both facilitate and constrain the manifestation of behavior. With approximately 150 individuals, the Ngogo community is much larger than others that have been studied in the wild. We have taken advantage of the unusual demographic structure of this community to document new and intriguing patterns of chimpanzee behavior with respect to hunting, territoriality, and male social relationships. Chimpanzees at Ngogo hunt often and with a considerable degree of success. In addition, male chimpanzees there frequently patrol the boundary of their territory and engage in repeated bouts of lethal intergroup aggression. By forming two distinct subgroups, male chimpanzees at Ngogo also develop social bonds above the level of dyadic pairs. While the sheer number of chimpanzees contributes to differences in hunting, patrolling, mating, and subgrouping at Ngogo, the demographic situation may also constrain behavioral interactions. At Ngogo, male chimpanzees who are closely related genetically through the maternal line do not appear to affiliate or cooperate with each other. Demographic constraints may be responsible for this finding. In this paper, I use these examples to illustrate how the demographic context affects the possible range of behavioral options open to individuals and ultimately contributes to the explanation of behavioral diversity in chimpanzees.     

Assessing ant seed predation in threatened plants: a case study

Erodium paularense is a threatened plant species that is subject to seed predation by the granivorous ant Messor capitatus. In this paper we assessed the intensity and pattern of ant seed predation and looked for possible adaptive strategies at the seed and plant levels to cope with this predation. Seed predation was estimated in 1997 and 1998 at the population level by comparing total seed production and ant consumption, assessed by counting seed hulls in refuse piles. According to this method, ant seed predation ranged between 18% and 28%. A more detailed and direct assessment conducted in 1997 raised this estimate to 43%. In this assessment spatial and temporal patterns of seed predation by ants were studied by mapping all nest entrances in the studied area and marking the mature fruits of 109 reproductive plants with a specific colour code throughout the seed dispersal period. Intact fruit coats were later recovered from the refuse piles, and their mother plants and time of dispersal were identified. Seeds dispersed at the end of the dispersal period had a greater probability of escaping from ant seed predation. Similarly, in plants with late dispersal a greater percentage of seeds escaped from ant predation. Optimum dispersal time coincided with the maximum activity of granivorous ants because, at this time, ants focused their harvest on other plant species of the community. It was also observed that within-individual seed dispersal asynchrony minimised seed predation. From a conservation perspective, results show that the granivorous ant–plant interaction cannot be assessed in isolation and that the intensity of its effects basically depends on the seed dispersal pattern of the other members of the plant community. Furthermore, this threat must be assessed by considering the overall situation of the target population. Thus, in E. paularense, the strong limitation of safe-sites for seedling establishment reduces the importance of seed predation.     

Microsatellite variation, population structure, and bottlenecks in the threatened copperbelly water snake

Habitat loss and isolation is pervasive in the Midwest U.S. Wetlands are experiencing particularly dramatic declines, yet there is a paucity of information on the genetic impacts of these losses to obligate wetland vertebrates. We quantified the genetic variation of extant populations of a shallow wetland specialist and evaluated potential reductions in population size (i.e. bottlenecks) using seven polymorphic microsatellite DNA markers. We analyzed 228 copperbelly water snakes (Nerodia erythrogaster neglecta), representing populations from three states. Moderate genetic differentiation exists among all three regions (F _ST = 0.12, P < 0.001), with evidence for low levels of differentiation within the federally protected Ohio region (F _ST = 0.025, P = 0.007), and moderate to strong differentiation within the Indiana region (F _ST = 0.23, P < 0.001). Furthermore, Bayesian clustering (i.e. STRUCTURE) supports the separation of the Indiana sites, both from each other and from all other sampling sites. However, it does not support the separation of the Ohio sites from the Kentucky sites. Differentiation among sampling sites did not appear to be related to geographic distance, but rather depended on the quality of terrestrial corridors used for dispersal. Mode shifts in allele frequencies and excess heterozygosity tests were negative, while M-ratio tests were nearly all positive, indicating the likelihood of historical rather than contemporary population bottlenecks. However, potential subspecific intergradation in the Kentucky region may have artificially lowered the M-ratio, and we suggest caution when using the M-ratio approach if intergradation is suspected. Our results have conservation implications for wetland management and management of the copperbelly populations, and emphasizes the importance of protecting wetland complexes.     

Demographic consequences of age-structure in extreme environments: population models for arctic and alpine ptarmigan

Organisms living in arctic and alpine environments are increasingly impacted by human activities. To evaluate the potential impacts of global change, a better understanding of the demography of organisms in extreme environments is needed. In this study, we compare the age-specific demography of willow ptarmigan (Lagopus lagopus) breeding at arctic and subalpine sites, and white-tailed ptarmigan (L. leucurus) breeding at an alpine site. Rates of egg production improved with age at the alpine and subalpine sites, but the stochastic effects of nest and brood predation led to similar rates of annual fecundity among 1-, 2-, and 3+-year-old females. All populations had short generation times (T<2.7 years) and low net reproductive rates (R ₀<1.2). Stable age distributions were weighted towards 1-year-old females in willow ptarmigan (>59%), and to 3+-year-old females in white-tailed ptarmigan (>47%). High damping ratios (ρ>3.2) indicated that asymptotic estimates were likely to match natural age distributions. Sensitivity and elasticity values indicated that changes in juvenile survival would have the greatest impact on the finite rate of population change (λ) in willow ptarmigan, whereas changes to the survival of 3+-year-old females would have a greater effect in white-tailed ptarmigan. High survivorship buffers white-tailed ptarmigan in alpine environments against the potential effects of climate change on annual fecundity, but may make the species more sensitive to the effects of pollutants or harvesting on adult survival. Conversely, processes that reduce annual fecundity would have a greater impact on the population viability of willow ptarmigan in arctic and subalpine environments. If these same demographic patterns prove to be widespread among organisms in extreme environments, it may be possible to develop general recommendations for conservation of the biological resources of arctic and alpine ecosystems.     

The influences of habitat, landscape structure and climate on local distribution patterns of the nuthatch (Sitta europaea L.)

The nuthatch, Sitta europaea L., is a small (23 g), cavity-nesting woodland bird which, since the 1970s, has been expanding its range in Britain. However, within this range, the species is notably scarce in an area of eastern England. This gap in the species distribution could arise for several reasons including habitat quality, local landscape structure, regional landscape structure and climate. Field surveys and logistic models of breeding nuthatch presence/absence were used to investigate the relative influences of habitat quality, landscape structure and climate on the prevalence of nuthatches in eastern England. Field surveys of woods in the study area indicated that habitat quality was sufficient to support a nuthatch population. A model of habitat occupancy in relation to local landscape structure, developed in the Netherlands, was applied to the study area. The number of breeding pairs predicted for the study area by the model was lower than expected from habitat area alone, suggesting an additional effect of isolation. However, observed numbers were even lower than those predicted by the model. To evaluate the possible roles of climate and large-scale landscape structure on distribution, presence/absence data of breeding nuthatches at the 10-km grid square scale were related to variables describing climate and the amount and dispersion of broadleaved woodland. While climate in the study area appeared suitable, models including landscape variables suggested that the study area as a whole was unlikely to support nuthatches. Although suitable habitat was available, woodland in the study area appeared to be too isolated from surrounding nuthatch populations for colonisation to be successful. This situation may change if current increases in both national and regional populations continue, thus increasing the number of potential colonists reaching the study area. Received: 3 November 1997 / 22 January 1998