A multi-scale analysis of species-environment relationships: rare moths in a pitch pine-scrub oak (Pinus rigida-Quercus ilicifolia) community

Community level analyses of species-environment relationships can provide critical information for conservation planners. A comprehensive analysis of the factors that influence species distributions should include variables measured at multiple scales because species-environment relationships are known to vary with the scale of observation. The pitch pine-scrub oak (Pinus rigida-Quercus ilicifolia) communities, or pine barrens, of the northeastern USA are severely threatened by development and fire suppression. They also provide critical habitat for many species of rare moths. We used partial canonical correspondence analysis to assess the relative effects of three levels of environmental variables (plot, patch, and landscape) on the distribution and abundance of 10 species of rare moths in a pine barrens community in southeastern Massachusetts, USA. We also used a set of spatial variables to quantify and partial out the effects of spatial autocorrelation of species composition among sampling locations. All three levels of environmental factors combined, independent of spatial factors, accounted for virtually half (48.4%) of the total variation in the moth community. Sequential partitioning of the variance explained by each level of environmental factors indicated that landscape level factors explained more than twice as much variance as plot and patch level factors. Another environmental model that included only landscape level variables explained 53% of the total variation in the moth community. Patch density and percentage of the landscape comprised of open and sparse canopy, scrub oak habitats were the most significant variables. These results suggest that the presence of scrub oak habitat within relatively large, heterogeneous landscape mosaics may be more important for the maintenance of many rare pine barrens associated moth populations than plot or patch level characteristics.     

A multi-scale analysis of species-environment relationships: breeding birds in a pitch pine-scrub oak (Pinus rigida-Quercus ilicifolia) community

Analyses of species-environment relationships are critically needed to guide conservation of many declining species. Comprehensive investigations of these relationships must incorporate environmental variables at multiple spatial scales since species responses to the environment vary with the scale of observation. We used partial canonical correspondence analysis to associate a bird assemblage in a threatened pitch pine-scrub oak (Pinus rigida-Quercus ilicifolia) community in Plymouth County, Massachusetts, USA, with plot, patch, and landscape level variables. The first level of analysis partitioned the amount of variance in the bird community explained by plot, patch, and landscape factors from that explained by spatial autocorrelation. The second level partitioned the amount of variance explained by plot, patch, and landscape factors alone and in combination. All three levels of environmental variables together accounted for 43% of the variance in the species data and only 5% of the variance was explainable by spatial factors alone. Landscape level factors accounted for a slightly larger amount of the explained variation (12%) than plot (11%) or patch (8%) level factors. We also examined the cumulative fit of each species to the plot, patch, and landscape partial models. Nine species of regional and/or national conservation concern had distributions that fit one model considerably better than the others. The Great Crested Flycatcher (Myiarchus crinitus) and Black-and-white Warbler (Mniotilta varia) were predominantly associated with plot level factors; the Whip-poor-will (Caprimulgus vociferus) was predominantly associated with patch level factors; and the Purple Finch (Carpodacus purpureus), Gray Catbird (Dumetella carolinensis), Scarlet Tanager (Piranga olivacea), Ovenbird (Seiurus aurocapillus), Brown Thrasher (Toxostoma rufum), and Eastern Kingbird (Tyrannus tyrannus) were predominantly associated with landscape level factors. This study suggests that focusing conservation efforts at the landscape level would provide the most effective protection for the largest number of sensitive species.     

Recovery of native plant communities after the control of a dominant invasive plant species, Foeniculum vulgare: Implications for management

The control and/or removal of a dominant invasive species is expected to lead to increases in native species richness and diversity. Small pilot studies were performed on Santa Cruz Island (SCI), California, in the early 1990s to test the efficacy of different methods on the control of Foeniculum vulgare (fennel) and management’s effects on native species recovery. We chose a treatment that showed significant native species recovery, applied it at the landscape scale, and followed its effects on fennel infested plant communities. We tested the hypothesis that results from small-scale studies translate to the landscape level. We found that although the control of fennel translated from the small to landscape scale, decreasing from an average of 60% to less than 3% cover, native species recovery did not occur in the landscape study as it did in the pilot studies. Invasive fennel cover was replaced by non-native grass cover over time. Unexpectedly, fennel cover in untreated fennel plots decreased significantly (though not as drastically) from over 60% cover to just under 40% cover while native species richness in untreated areas increased significantly. The correlation between precipitation and changes in native and non-native species richness and abundance in this study imply that changes in species abundances were highly correlated with environmental fluctuations. The lack of a native seedbank and the accumulation of non-native grass litter likely prevented the recovery of native species in treated areas. Greater vertical complexity found in fennel communities, which increased visitation by frugivorous birds and likely increased native seed dispersal, may have been responsible for the increase in native species richness in the untreated areas. These results suggest that successful invasive species control and native species recovery experiments conducted at small scales may not translate to the landscape level, and active restoration should be an organic component of such large-scale projects.     

Methane uptake in soils from Pinus radiata plantations, a reverting shrubland and adjacent pastures: Effects of land-use change, and soil texture, water and mineral nitrogen

Afforestation and reforestation of pastures are key land-use changes in New Zealand that help sequester carbon (C) to offset its carbon dioxide (CO₂) emissions under the Kyoto Protocol. However, relatively little attention has been given so far to associated changes in trace gas fluxes. Here, we measure methane (CH₄) fluxes and CO₂ production, as well as microbial C, nitrogen (N) and mineral-N, in intact, gradually dried (ca. 2 months at 20 °C) cores of a volcanic soil and a heavier textured, non-volcanic soil collected within plantations of Pinus radiata D. Don (pine) and adjacent permanent pastures. CH₄ fluxes and CO₂ production were also measured in cores of another volcanic soil under reverting shrubland (mainly Kunzea var. ericoides (A. Rich) J. Thompson) and an adjacent pasture. CH₄ uptake in the pine and shrubland cores of the volcanic soils at field capacity averaged about 35 and 14 μg CH₄-C m⁻² h⁻¹, respectively, and was significantly higher than in the pasture cores (about 21 and 6 μg CH₄-C m⁻² h⁻¹, respectively). In the non-volcanic soil, however, CH₄-C uptake was similar in most cores of the pine and pasture soils, averaging about 7-9 μg m⁻² h⁻¹, except in very wet samples. In contrast, rates of CO₂ production and microbial C and N concentrations were significantly lower under pine than under pasture. In the air-dry cores, microbial C and N had declined in the volcanic soil, but not in the non-volcanic soil; ammonium-N, and especially nitrate-N, had increased significantly in all samples. CH₄ uptake was, with few exceptions, not significantly influenced by initial concentrations of ammonium-N or nitrate-N, nor by their changes on air-drying. A combination of phospholipid fatty acid (PLFA) and stable isotope probing (SIP) analyses of only the pine and pasture soils showed that different methanotrophic communities were probably active in soils under the different vegetations. The C18 PLFAs (type II methanotrophs) predominated under pine and C16 PLFAs (type I methanotrophs) predominated under pasture. Overall, vegetation, soil texture, and water-filled pore space influenced CH₄-C uptake more than did soil mineral-N concentrations.     

Trichoderma communities in soils from organic, sustainable, and conventional farms, and their relation with Southern blight of tomato

The objectives of this research were to investigate the relationship between propagule numbers and genetic diversity of Trichoderma species and Southern blight of tomato caused by soilborne plant pathogen Sclerotium rolfsii in soils with long-term organic, sustainable, and conventional farms. Dilution plating was use to quantify the propagule numbers of Trichoderma, denaturing gradient gel electrophoresis (DGGE) and DNA sequence analysis were used to identify Trichoderma species, and greenhouse assay were conducted for soil suppressiveness to Southern blight. The propagule numbers of Trichoderma tend to be higher in soils from conventional farms. There was no clear separation for the propagule numbers of Trichoderma based on different management systems using canonical correspondence analysis (CCA). However, there was general separation for total microbial communities based on organic and conventional management systems using CCA. That suggests that the difference of soil suppressiveness to disease from organic, sustainable, and conventional farms is due to the difference of the total microbial diversity but not directly due to the Trichoderma populations in each farming system. The propagule numbers of soil Trichoderma did not significantly correlate with the diseases suppressiveness, although individual species of Trichoderma harzianum was shown to be related to disease suppressiveness. Moreover, several Trichoderma species were found in the soil tested based on DGGE and DNA sequence analysis. Trichoderma hamatum, T. harzianum, Trichoderma virens, and Trichoderma erinaecem were the most abundant species in tested soil.     

Linking the gaps between conservation research and conservation management of rare dipterocarps: A case study of Shorea lumutensis

To conserve a rare plant, conservation programs must be guided by the biological attributes of the species. What constitutes the most critical biological information for plant conservation has been the issue of discussion for the last 30 years. Most scientists promote an approach that is either ecological or genetic in emphasis. Ecological and genetic processes will often interact synergistically to influence the population viability and to determine the persistence of populations in the long run. Consequently, conservation management of plant species, in addition to ecological information, requires a robust understanding of underlying genetic processes as well as the variation within and between populations. Conservation has a cost and the resources available for conservation programs are always limited. Therefore, conservation management strategies should not only be scientifically justified but also practical in terms of resource availability. Shorea lumutensis is a rare and endemic dipterocarp in Peninsular Malaysia. A comprehensive research activity was initiated to assess the population ecology and population genetics of S. lumutensis to elucidate specific ecological and genetic requirements and subsequently to set conservation strategies and priorities. This paper is apparently the first attempt at applying both the ecological and genetic approaches into conservation management of a rare dipterocarp. In addition, this paper also attempts to link the gaps between conservation research and conservation management in a realistic manner. It is our hope that this study will serve as a model for the study of other rare dipterocarps which should be given priority for conservation.     

Scaling the effects of riparian vegetation on cross-sectional characteristics of ephemeral mountain streams—a case study of Nahal Oren,Mt. Carmel,Israel

To assess the effect of trees and shrubs on stream structure on different spatial scales, we tested the relationships between their percentage coverage in relation to width, depth and stream slope. This research was conducted during the winter and spring of 2004 at Nahal Oren, Israel, an ephemeral mountainous stream.     

Habitat-suitability modelling to assess the effects of land-use changes on Dupont’s lark Chersophilus duponti: A case study in the Layna Important Bird Area

Habitat-suitability modelling is being increasingly used as a tool for conservation biology. Although studies at large spatial scales are more appropriate for reserve design and management, there is a scarcity of published work on local, high-resolution applications of such models. In this work we develop high-resolution habitat models (1 ha) and study habitat preferences (focal points) of Dupont’s lark Chersophilus duponti, an endangered shrub-steppe passerine, in the partially overlapping Special Protected Area for birds (SPA) and Important Bird Area (IBA) of “páramos de Layna” (NW Spain), to assess both the adequacy of the reserve’s limits and the effect of land-use changes on the species’ population size. Both analytical approaches show that the Dupont’s lark favours flat areas characterized by small shrubs with bare ground, so that, for example, a conversion of dry crops to shrubs promoted by agri-environment schemes under CAP could increase the population size up to 80%. Although the IBA and SPA are similar in size - as compelled by EU environmental policy - the latter shows rugged topography typically avoided by the species. We further discuss the possible conflict between EU environmental and agricultural policies on the conservation of this species and suggest it can be addressed with our study approach.     

Habitat selection by the common wombat (Vombatus ursinus) in disturbed environments: Implications for the conservation of a ‘common’ species

The construction of habitat models is a repeatable technique for describing and mapping species distributions, the utility of which lies in enabling management to predict where a species is likely to occur within a landscape. Typically, habitat models have been used to establish habitat requirements for threatened species; however they have equal applicability for modelling local populations of common species. Often, few data exist on local populations of common species, and issues of abundance and habitat selection at varying scales are rarely addressed. We provide a habitat suitability model for the common wombat (Vombatus ursinus) in southern New South Wales. This species is currently perceived as abundant throughout its extensive range across temperate regions of eastern Australia, yet little factual survey data exist and populations appear under threat. We use wombat burrows to reflect habitat selection and as our basis for ecological modelling. We found that environmental variables representing proximity to cover, measures of vegetation and proximity to watercourses are important predictors of burrow presence. Extrapolation of habitat models identified an abundance of habitat suitable for burrows. However, burrows in many suitable areas were abandoned. Our estimate of the population size was similar to the total annual mortality associated with road-kill. Theoretically, given the availability of suitable habitat, common wombat populations in the region should be thriving. It seems likely that this area once supported a much higher number of wombats; however limiting factors such as road mortality and disease have reduced the populations. The persistence of wombats in the study region must be supported by migration from other populations. Our findings challenge the perception that wombats are currently common and not in need of monitoring, suggesting that perceptions of abundance are often clouded by socio-political motives rather than informed by biological and ecological factors.     

Herbicides, weeds and endangered species: management of bitou bush (Chrysanthemoides monilifera ssp. rotundata) with glyphosate and impacts on the endangered shrub, Pimelea spicata

Environmental weed invasion threatens the biodiversity of native species. Unfortunately, managing these weeds may also affect biodiversity adversely. A recent example occurred when glyphosate, a herbicide used to control the highly invasive weed, bitou bush (Chrysanthemoides monilifera ssp. rotundata), accidentally drifted over a small population of an endangered shrub, Pimelea spicata. Following concerns that the affected population would not recover and, thereby, cause the local extinction of P. spicata, we conducted a series of glasshouse and field experiments to explore the impacts of glyphosate on this endangered species. Seedlings and young plants of P. spicata, in which the tap root was undeveloped, were killed by a single application of glyphosate. Older plants with a well developed tap root also died back initially, but about 50% of individuals re-sprouted. This re-growth was associated with a significant decrease in tap root diameter, implying that further disturbance, including repeated treatment with glyphosate, would kill plants by impairing their potential for recovery. Unlike some sclerophyllous native shrubs, the tolerance of P. spicata to glyphosate was limited, even when its growth was slowed artificially by limiting water availability. Winter applications of glyphosate to manage infestations of bitou bush will impact adversely on populations of P. spicata and may also affect the other rare and endangered species whose survival is threatened by this species, even though some natives are unaffected by the herbicide. Protecting native biodiversity from bitou bush will involve sustainable weed management that minimises impacts on non-target native species.     

The influence of uncertainty on conservation assessments: Australian frogs as a case study

We evaluated the influence of uncertainty, based on variation in expert opinion, on assessment of conservation status of Australian amphibians. We examined relationships between different biological variables and inferred relative extinction risk, the influence of uncertainty on resulting ranks, and regional patterns of extinction risk and uncertainty. Our results were in general agreement with the International Union for the Conservation of Nature and Natural Resources but also reveal apparent high extinction risks among some taxa that the IUCN did not classify in any threatened category. These differences were exaggerated when the most conservative status assessments were taken from variation in expert opinion. Our assessments of relative extinction risk were strongly dependent on basic demographic variables, particularly population size, geographic distribution of populations and age at first reproduction. We identified regional hotspots of high relative extinction risk and poor knowledge of amphibians, leading to high uncertainty about the conservation status of species from those areas. Regional clustering of species with high relative extinction risk and high uncertainty may indicate higher levels of relative extinction risk than previously assessed. Our results highlight the influence of uncertainty on interpretation of conservation assessments of organism groups with large knowledge gaps. Uncertainty should be further incorporated into conservation planning as it not only highlights taxa with potentially underestimated extinction risk, but also facilitates identification of knowledge gaps informative of conservation status. Knowledge of regional patterns of extinction risk and uncertainty assists conservation planning through identification of regions of high extinction risk and/or large knowledge gaps.     

Effects of organic and other management practices on soil nematode communities in tea plantation: a case study in southern China

Four major tea management practices (organic, pollution‐free, conventional, and semi‐natural) are employed in Chinese tea plantations at present. These practices can induce changes in the physiochemical parameters, microorganism community and enzyme activity in tea plantation soil. However, understanding of their effects on soil nematodes is still scarce. This study aimed to investigate whether and how different management practices affect the biodiversity, function, and structure of soil nematode communities in tea plantation habitats. The soil nematode community structures and ecological indices were determined from the soil samples collected more than 6 y after their respective farming practices were first applied, and different management practices did not greatly affect soil nematode community evenness or species diversity, but organic practice increased nematode trophic diversity, common species diversity, and species richness. Pollution‐free practice considerably increased fungivorous nematodes, and both pollution‐free and conventional practice decreased bacterivorous nematodes markedly in the subsurface layers of soil. Predator and omnivorous nematodes were found to be more abundant in semi‐natural plantation. Organic practice was more sustainable and suitable for tea cultivation, with the greatest biodiversity, best nutrient conditions, higher and more stable C/N ratio and lower interference in the food web.     

Beyond parks and reserves: The ethics and politics of conservation with a case study from Perú

This paper elaborates, analyzes, and partly defends the normative and empirical foundations of a “social ecology” model for natural habitat and resource management. This model treats human societies as being irreducibly integrated with the natural systems in which they are embedded. It argues that any concept of biodiversity necessarily embodies cultural values for it to be operationalized for conservation decisions. It accepts the legitimacy of tradeoffs between biodiversity conservation and other values including human resource development. It prioritizes local control of decisions in regions which are often targeted by Northern conservationists: areas of the South, where cultural choices have led to the persistence of high biodiversity. This model is used to analyze an ongoing dispute over biodiversity conservation and natural resource control in Perú: the conflict over Kandozi territory in the Abanico del Pastaza. What the Kandozi want is more than just a rejection of what has been criticized as the national park/fortress model of conservation. It consists of an assertion of local institutionalized control over traditional lands which goes well beyond the purview of the usual alternative of the fortress model: the biosphere reserve model of external and internal joint control of natural resources. To the remarkable extent that Kandozi resource management practices have succeeded in maintaining biotic richness and variety in spite of multiple encroachments, the empirical evidence demands that today’s conservationists pay adequate attention to these practices and the social institutions in which they are embedded. But, beyond such prudential concerns, the social ecology model of habitat conservation accepts the normative claims that resident communities should have control over their lands and livelihoods and that they should be allowed to maintain their habitats as cultural landscapes of their choice.     

Tree invasion in naturally treeless environments: Impacts of quinine (Cinchona pubescens) trees on native vegetation in Galápagos

Impacts of plant invasions are largely scale-dependent and responses to the same exotic species may vary among communities. Since impacts caused by individual trees could anticipate consequences of a closed canopy of an invader, we studied the response of Galápagos native plants to quinine (Cinchona pubescens) trees in two vegetation zones. Quinine has invaded >11,000 ha of Santa Cruz Island, including the Miconia- and Fern-Sedge-Zones. We analysed species composition and abundance along transects radiating from the trunks of individual quinine trees. Species richness and percentage cover decreased significantly with proximity to individual trees, and these effects were more pronounced in the Fern-Sedge Zone than in the Miconia Zone. Cover of endemic and native herb species and grass species significantly declined by 57–88% in the Fern-Sedge Zone. This was not the case in the Miconia Zone, but here the dominant endemic Miconia robinsoniana decreased by 41%. Quinine is a major driver of plant community change in both vegetation zones. The greater susceptibility of species in the Fern-Sedge Zone was ascribed to the presence of a new growth form: quinine trees in a formerly treeless environment. Species of the Miconia Zone appeared to be better pre-adapted to higher shade levels created by the Miconia shrubs. Our results emphasize the need for future control of quinine to preserve the diversity of the native Galápagos flora.     

Modelling the effect of El Niño on the persistence of small populations: The Galápagos penguin as a case study

Small populations are vulnerable to long-term declines, even where short-term censuses indicate increasing trends in numbers. Census data for the Galápagos penguin (Spheniscus mendiculus) collected between 1970 and 2004 provide evidence that despite year-to-year population increases detected in most of the annual censuses, the strong El Niño events of 1982-83 and 1997-98 were followed by population declines of more than 60% from which the species has yet to recover. Such large declines raise concerns about the future viability of the species because the frequency and severity of El Niño events are predicted to increase. We used the simulation software VORTEX to evaluate the potential effects of El Niño on the risk of extinction of the Galápagos penguin population and its four constituent subpopulations. Weak and strong El Niño events were treated as catastrophes, with varying frequencies, which simulated past, current and future effects on the penguin population. The “Current El Niño” scenario, based on the frequency of El Niño events recorded in the Galápagos between 1965 and 2004, indicated an approximately 30% probability of extinction within the next 100 years for the penguin population. More ominously, the species may be at a greater risk if the frequency of strong El Niño episodes increases only marginally. A probability of extinction greater than 80% was predicted when the current frequency (5%) of strong El Niño events was doubled (to 10%). The probabilities of extinctions were higher for each subpopulation treated individually, ranging from 34% for Isabela and Fernandina, 64% for Bartolomé-Santiago to 78% for the smallest subpopulation on Floreana. Sensitivity analyses identified survival of penguins during El Niño events and sex ratio as influential parameters. The estimates of extinction risk may be conservative as other threats associated with increased human activities on the islands may further compromise species persistence.     

Potential distribution modelling, niche characterization and conservation status assessment using GIS tools: a case study of Iberian Copris species

Dung beetle populations, in decline, play a critical ecological role in extensive pasture ecosystems by recycling organic matter; thus the importance of their conservation status. Presence data available for Copris hispanus (L.) and Copris lunaris (L.) (Coleoptera, Scarabaeidae) in Comunidad de Madrid (CM), and BIOMAPPER, a GIS-based tool, was used to model their environmental niches. The so derived potential distributions of both species were used to exemplify the utility of this kind of methodologies in conservation assessment, as well as its capacity to describe the potential sympatry between two or more species. Both species, distributed along a Dry-Mediterranean to Wet-Alpine environmental conditions gradient, overlap in areas of moderate temperatures and mean annual precipitations in the north of CM. Copris are poorly conserved in the existing protected sites network, but protection provided by new sites included in the future Natura 2000 Network will improve the general conservation status of these species in CM.     

Impacts of urbanization on topsoil nutrient balances—a case study at a provincial scale from Fujian,China

With increasing urbanization, the demands for high quality agricultural products induced changes in local cropping patterns. Although grain production still occupied a large portion in sown and planted areas, the share of sown areas declined from 67% to 44% for total grain crops, and 54% to 35% for rice between 1989 and 2002 in Fujian province. The change in crop spectrum and land use by urbanization has resulted in two extreme trends in topsoil — nutrient depletion in grain-dominated regions and nutrient overload in city suburbs. The positive correlation between nitrogen balance and local urban population in some years showed that urbanization affected nutrient balance in topsoil. The rapid changes in land use and crop spectrum caused by urbanization therefore created a challenge to the traditional soil nutrient management derived mainly from paddy fields and an urgent need for new management schemes in the province. The study provides valuable insights into nutrient management and soil sustainability in the context of rapid urbanization and population growth in Fujian.