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PubMed1998

Assessing Land-Use Impacts on Natural Resources

/ Much information is available on changes that occur in natural resources from both spatially-explicit data on environmental conditions and models of the interactions of these conditions and resources with human activities. The strategy for assessing land-use impacts on natural resources developed in this paper provides a framework for using relevant data and models to address questions of how management practices can promote both use and protection of resources. This assessment strategy integrates spatially explicit environmental data using geographic information systems (GIS) with computer models that simulate changes in land cover in response to land-use impacts. The computer models also simulate susceptibility of species to changes in habitat suitability and landscape patterns. The approach is applied to management of limestone barrens on the Oak Ridge Reservation in East Tennessee. Potential limestone barrens habitats are identified by overlaying appropriate soils, geology, slope, and land-use/land-cover conditions. Their validity is tested against known sites containing rare species that occur in these habitats. The location of habitats at risk in the aftermath of human activities is determined by using an available area model that identifies the size and proximity of sites that particular types of species can no longer use as habitat. The resulting risk map can be used in land management planning. The approach uses readily available in situ and remotely sensed data and is applicable to a wide range of locations and land-use scenarios. This approach can be refined based on needs identified by land managers and on the sensitivity of the results to the resolution of available resource information.KEY WORDS: Land management; Assessment; Habitat characterization; Limestone barrens; Ecological modeling; Geographic information systems

Journal Article↗
PubMed2004

Competitive interactions in macroinfaunal animals of exposed sandy beaches.

The influence of biotic interactions in structuring macroinfaunal communities of exposed sandy beaches, an unstable habitat characterized by strong physical forces, is generally considered negligible. We investigated the hypothesis that competitive interactions during burrowing could potentially affect the intertidal distribution and abundance of macroinfaunal animals of sandy beaches using two species of invertebrates, a hippid crab, Emerita analoga, and a bivalve, Mesodesma donacium, common along the coast of Chile. Spatial overlap in the intertidal distributions of these species was dynamic, varying with abundance, location, time of year and tide. Highest density zones of each species were often distinctly separated at low tide and spatial overlap in their distributions decreased significantly with increasing density, suggesting density dependence of the interactions. Negative relationships between densities of the two species at the smallest spatial scale examined also suggested active interactions among individuals. Over a tidal cycle, peak densities of the two species overlapped suggesting that interactions could occur frequently. Burrowing performance of E. analoga varied between size classes in three experimental densities of clams (5, 10 and 15 clams 0.008 m(-2)) and in controls with no clams. Burrowing times of large crabs were significantly longer (approximately twofold) in all densities of clams than in controls, while those of small crabs did not differ significantly among treatments and controls. Large crabs also displaced clams from the sand while burrowing suggesting that two mechanisms of direct interference can occur, both of which could increase exposure of individuals involved to active swash and transport across or along the beach with potentially negative consequences. Our results suggest that competitive interactions capable of affecting zonation and population and community biology on a number of scales can occur among burrowing macroinfauna on exposed sandy beaches. Those interactions could be more ecologically significant than previously appreciated and may contribute to patterns observed in community structure and zonation on sandy beaches. Our results illustrate the potential importance of negative biological interactions in a physically stressful environment.

Analysis of Variance↗
PubMed2005

Tuber size variation and organ preformation constrain growth responses of a spring geophyte.

Functional responses to environmental variation do not only depend on the genetic potential of a species to express different trait values, but can also be limited by characteristics, such as the timing of organ (pre-) formation, aboveground longevity or the presence of a storage organ. In this experiment we tested to what degree variation in tuber size and organ preformation constrain the responsiveness to environmental quality and whether responsiveness is modified by the availability of stored resources by exposing the spring geophyte Bunium bulbocastanum to different light and nutrient regimes. Growth and biomass partitioning were affected by initial tuber size and resource availability. On average, tuber weight amounted to 60%, but never less than 30% of the total plant biomass. Initial tuber size, considered an estimate of the total carbon pool available at the onset of treatments, affected plant growth and reproduction throughout the experiment but had little effect on the responsiveness of plants to the treatments. The responsiveness was partly constrained by organ preformation: in the second year variation of leaf number was considerably larger than in the first year of the treatments. The results indicate that a spring geophyte with organ preformation has only limited possibilities to respond to short-term fluctuations of the environment, as all leaves and the inflorescence are preformed in the previous growing season and resources stored in tubers are predominantly used for survival during dormancy and are not invested into plastic adjustments to environmental quality. Such spring geophytes have only limited possibilities to buffer environmental variation. This explains their restriction to habitats characterized by predictable changes of the environmental conditions.

Apiaceae↗
PubMed2026

Comparative analysis of olfactory receptor repertoires reveals evolutionary dynamics and high-altitude adaptation in Schizopygopsis younghusbandi based on the chromosome-level genomes.

The olfactory receptor (OR) gene represent a significant multigene family in vertebrates, forming the core molecular basis of olfactory perception and playing a crucial role in the environmental adaptation of species. High-altitude ecosystems represent extreme habitats characterized by specific abiotic stresses, including low oxygen levels, low temperatures, and intense ultraviolet radiation. These environments also exhibit low aquatic biodiversity and a limited variety of odor molecules, factors that have influenced the adaptive evolution of the sensory systems in endemic species. However, the genetic mechanisms underlying olfactory adaptation in high-altitude freshwater fish remained inadequately understood. In this study, we performed comparative genomics analyses to reveal the evolutionary processes underlying the adaptive and functional evolution of OR genes in S. younghusbandi, a cyprinid fish endemic to the Qinghai-Xizang Plateau. The results indicated that, compared to their low-altitude relatives, S. younghusbandi possessed a significantly smaller number of OR genes, with only 98 genes, which revealed the contraction of the gene family. Phylogenetic analysis revealed that the OR genes of cyprinid fish could be categorized into two major lineages: type I and type II. The η and δ families, which perceive water-soluble odors, in S. younghusbandi underwent significant and specific expansion, while the ε family was completely absent. This pattern reflected adaptive changes in olfactory recognition to accommodate the simplified odor spectrum of high-altitude water bodies. Chromosomal localization analysis demonstrated that OR genes were clustered, and collinearity analysis confirmed the presence of conserved genomic fragments among species. Selection pressure analysis revealed that the Ka/Ks values of all homologous gene pairs were less than 1, indicating that the OR genes of S. younghusbandi underwent strong purifying selection as a group to preserve core olfactory function. A few genes exhibited relaxed selection characteristics, which may have facilitated the fine-tuning of adaptability to high-altitude environments. In conclusion, this study elucidated the evolutionary dynamics and adaptive characteristics of the OR gene in S. younghusbandi, offering a new perspective on the molecular mechanisms underlying olfactory adaptation at high altitudes and enriching the research on sensory evolution in vertebrates.

Schizopygopsis younghusbandi↗
PubMed1995

Locomotion of black howlers in a habitat with discontinuous canopy.

The locomotor behaviour of howler monkeys (genus Alouatta) has been the subject of several detailed field studies [1-6]. This paper describes the locomotor behaviour of black howler monkeys (Alouatta caraya) living in a small area of forested habitat characterized by a discontinuous canopy.

Alouatta↗
PubMed2003

Fine-scale patterns of odor encounter by the antennules of mantis shrimp tracking turbulent plumes in wave-affected and unidirectional flow.

Many marine animals track odor plumes to their source. Although studies of plume-tracking behavior have been performed in unidirectional flow, benthic animals such as crustaceans live in coastal habitats characterized by waves. We compared signal encounters by odor-plume-tracking stomatopods (mantis shrimp) in wave-affected and unidirectional flow in a flume. Stomatopods are small enough that we can study their natural behavior in a flume. They sample odors by flicking their antennules. A thin sheet of laser light illuminating an odor plume labeled with dye [planar laser induced fluorescence (PLIF) technique] permitted us to measure the instantaneous odor concentration encountered by the animal's chemosensory organs (antennules) while it tracked the plume. We simultaneously measured behavior and the high-resolution odor signal at the spatial and temporal scale of the animal. We found that the navigating animal encountered odor filaments more often in wave-affected flow than in unidirectional flow. Odor filaments along the animals' antennules were significantly wider and of higher concentration in waves than in unidirectional flow.

Animals↗
PubMed1997

Evaluation of environmental deterioration by analysing fish parasite biodiversity and community structure.

The degree of biological diversity is often used as an indicator of the well-being of ecological systems. This approach can also be applied to analyse biodiversity in parasite communities. In particular, studies on parasite communities can be employed to detect a decline in biodiversity which characterizes habitats affected by pollution. Beside the most widely used diversity indices, such as the Shannon, Brillouin and inverse Simpson, that have been widely applied in different host-parasite systems, new approaches have been recently developed in order to overcome problems related to high dominance. Walther et al. (1995) proposed an asymptotic equation suitable for evaluating parasite species richness as a function of sampling effort. Such an equation was earlier proposed by Miller and Weigert (1989) to describe plant species diversity and to calculate true species richness as the ratio between the increase in species richness (a) and the parameter that set the species richness asymptote (b). True species richness has been shown to decline in parasite communities of mugilids collected in polluted areas. Biodiversity calculations can also be run in parallel with other biological studies for the description of environmental conditions. The completion of parasite life cycles requires complex biocoenotic interactions and is restricted by environmental constraints. Therefore another approach for monitoring the health of an ecosystem was by analysing the ratio between monoxenous and heteroxenous parasite species infecting model hosts. By this methodology it was possible to confirm pollution effect highlighted by other quantitative methods.

Animals↗
PubMed1990

Limnological and botanical characterization of larval habitats for two primary malarial vectors, Anopheles albimanus and Anopheles pseudopunctipennis, in coastal areas of Chiapas State, Mexico.

Field surveys of mosquito breeding sites on the Pacific coastal plain and foothill regions of southern Chiapas, Mexico, were carried out in the dry and wet seasons of 1988. At each site, selected environmental variables were measured or estimated, presence and percent cover of aquatic plants recorded, a water sample collected for subsequent analyses, and 10-30 dips made for mosquito larvae. Logistic regression and discriminant analyses revealed that the occurrence of Anopheles albimanus larvae in both the wet and dry seasons was positively associated with planktonic algae and negatively associated with altitude. In the dry season, An. albimanus larvae were largely restricted to the margins of permanent water bodies and were associated with the presence of floating plants, particularly Eichhornia crassipes. During the wet season An. albimanus larvae were positively associated with emergent plants, particularly seasonally flooded Cyperaceae, and phosphorus (PO4) concentrations, and were negatively associated with abundant filamentous algae, high levels of total suspended solids (TSS) and Salvinia. In the dry season, An. pseudopunctipennis larvae were positively associated with filamentous algae, altitude and the presence of Heteranthera if encountered in a riverine setting, and were negatively associated with water depth. During the wet season, flooding eliminated typical flood plain An. pseudopunctipennis habitats, and larvae were rarely encountered.

Altitude↗
PubMed2004

Characterization of potential larval habitats for Anopheles mosquitoes in relation to urban land-use in Malindi, Kenya.

BACKGROUND: This study characterized Anopheles mosquito larval habitats in relation to ecological attributes about the habitat and community-level drainage potential, and investigated whether agricultural activities within or around urban households increased the probability of water body occurrence. Malindi, a city on the coast of Kenya, was mapped using global positioning system (GPS) technology, and a geographic information system (GIS) was used to overlay a measured grid, which served as a sampling frame. Grid cells were stratified according to the level of drainage in the area, and 50 cells were randomly selected for the study. Cross-sectional household and entomological surveys were conducted during November and December 2002 within the 50 grid cells. Chi-square analysis was used to test whether water bodies differed fundamentally between well and poorly drained areas, and multi-level logistic regression was used to test whether household-level agricultural activity increased the probability of water body occurrence in the grid cell. RESULTS: Interviews were conducted with one adult in 629 households. A total of 29 water bodies were identified within the sampled areas. This study found that characteristics of water bodies were fundamentally the same in well and poorly drained areas. This study also demonstrated that household-level urban agriculture was not associated with the occurrence of water bodies in the grid cell, after controlling for potential confounders associated with distance to the city center, drainage, access to resources, and population density. CONCLUSIONS: Household-level urban agricultural activity may be less important than the other types of human perturbation in terms of mosquito larval habitat creation. The fact that many larvae were coming from few sites, and few sites in general were found under relatively dry conditions suggests that mosquito habitat reduction is a reasonable and attainable goal in Malindi.

Journal Article↗
PubMed1996

Characterization of Anopheles pseudopunctipennis larval habitats.

A survey of Anopheles pseudopunctipennis larval habitats was performed throughout most of its known geographic range. Eleven key environment variables characterized most larval habitats of this important vector of malaria in the Americas. Larval habitats occurred mainly in valley and foothill areas which were often situated in arid regions. Immatures were found primarily during the dry season in sun-exposed freshwater stream pools with clear, shallow, stagnant water containing abundant filamentous green algae and/or aquatic vegetation.

Animals↗
PubMed2006

Characterization of benthic communities and physical habitat in the Stanislaus, Tuolumne, and Merced Rivers, California.

The primary goal of this study was to characterize physical habitat and benthic communities (macroinvertebrates) in the Stanislaus, Tuolumne and Merced Rivers in California's San Joaquin Valley in 2003. These rivers have been listed as impaired water bodies (303 (d) list) by the State of California due to the presence of organophosphate (OP) insecticides chlorpyrifos and diazinon, Group A pesticides (i.e., organochlorine pesticides), mercury, or unknown toxicity. Based on 10 instream and riparian physical habitat metrics, total physical habitat scores in the Stanislaus River ranged from 124 to 188 (maximum possible total score is 200). The highest total habitat score was reported at the upstream site. Tuolumne River physical habitat scores ranged from 86 to 167. Various Tuolumne River physical habitat metrics, including total habitat score, increased from downstream to upstream in this river. Merced River physical habitat scores ranged from 121 to 170 with a significant increase in various physical habitat metrics, including total habitat score, reported from downstream to upstream. Channel flow (an instream metric) and bank stability (a riparian metric) were the most important physical habitat metrics influencing the various benthic metrics for all three rivers. Abundance measures of benthic macroinvertebrates (5,100 to 5,400 individuals) were similar among the three rivers in the San Joaquin watershed. Benthic communities in all three rivers were generally dominated by: (1) Baetidae species (mayflies) which are a component of EPT taxa generally considered sensitive to environmental degradation; (2) Chironomidae (midges) which can be either tolerant or sensitive to environmental stressors depending on the species; (3) Ephemerellidae (mayflies) which are considered sensitive to pollution stress; and (4) Naididae (aquatic worms) which are generally considered tolerant to environmental stressors. The presence of 117 taxa in the Stanislaus River, 114 taxa in the Tuolumne River and 96 taxa in the Merced River implies that the benthic communities in these streams are fairly diverse but without a clear definition of benthic community expectations it is unknown if these water bodies are actually impaired.

Animals↗
PubMed2005

Ecological characterization of the aquatic habitats of mosquitoes (Diptera: Culicidae) in enzootic foci of Venezuelan equine encephalitis virus in western Venezuela.

We studied the aquatic mosquito habitats in and around enzootic foci of Venezuelan Equine Encephalitis virus (VEE) in western Venezuela. Specimens were sampled for 5 mo in three types of vegetation: tall lowland tropical forests, short inundated/secondary growth forests, and pastures/herbaceous vegetation around forests. Ground pools, flooded pastures, swamps, ponds, and canals predominated. We used a multivariate statistical approach to quantitatively assess the relationships of mosquito species with broad categories of the landscape, and with environmental variables within each aquatic habitat. Twenty-four mosquito species in the genera Aedes, Psorophora, Culex, Mansonia, and Uranotaenia were collected. Species richness was higher in the tall forests than in other types of vegetation. Discriminant Function Analysis showed a strong association between landscape category and mosquito species assemblage and identified Culex erraticus Dyar & Knab and Mansonia titillans Walker as indicator species of open areas, and Aedes serratus Theobald as an indicator of tall forests. M. titillans, Uranotaenia geometrica Theobald, Cx. erraticus, and Culex dunni Dyar were associated with unshaded, warm, vegetated waters in flooded pastures and swamps, whereas Ae. serratus, Aedes fulvus (Wiedemann), Psorophora albipes Theobald, Psorophora ferox (Humboldt), Culex caudelli Dyar & Knab, and Culex pedroi Sirivanakarn & Belkin were associated with small, shaded ground pools within the tall forests. Culex coronator Dyar & Knab was associated with partially exposed sites within short forests. These results allowed us to interpret better our previous studies on mosquito adult spread in the study area and their possible role as VEEV disseminators.

Animals↗
PubMed2006

Comparing the use of indigenous knowledge with classification and ordination techniques for assessing the species composition and structure of vegetation in a tropical forest.

Identification of groups that are similar in their floristic composition and structure (habitat types) is essential for conservation and forest managers to allocate high priority areas and to designate areas for reserves, refuges, and other protected areas. In this study, the use of indigenous knowledge for the identification of habitat types in the field was compared against an ecological characterization of habitat types, including their species composition obtained by using classification and ordination techniques for a tropical landscape mosaic in a rural Mayan area of Quintana Roo, Mexico. Plant diversity data calculated from 141 sampled sites chosen randomly on a vegetation class's thematic map obtained by multispectral satellite image classification were used for this propose. Results indicated high similarity in the categorization of vegetation types between the Mayan classification and those obtained by cluster and detrended correspondence analysis. This suggests that indigenous knowledge has a practical use and can be comparable to that obtained by using science-based methods. Finally, identification and mapping of vegetation classes (habitat types) using satellite image classification allowed us to discriminate significantly different species compositions, in such a way that they can provide a useful mechanism for interpolating diversity values over the entire landscape.

Biodiversity↗
PubMed2001

Structure and sequence conservation of a putative hypoxia response element in the lactate dehydrogenase-B gene of Fundulus.

Many aquatic habitats are characterized by periodic or sustained episodes of low oxygen concentration, or hypoxia, and organisms that survive in these habitats do so by utilizing a suite of behavioral, physiological and biochemical adjustments to low oxygen (1-3). In the killifish Fundulus heteroclitus, one response to prolonged exposure to hypoxia is an increase in the activity of lactate dehydrogenase-B (LDH-B), the terminal enzyme of anaerobic glycolysis, in liver tissue (4). An increase in glycolytic enzyme activity also occurs in mammalian cells during hypoxia, a process due, in part, to increased rates of gene transcription mediated by the hypoxia-inducible transcription factor, HIF-1 (5). Given that a homolog of HIF-1 has been identified in fish (6), we hypothesized that HIF might be involved in the observed up-regulation of LDH-B in F. heteroclitus. Herein, we describe the presence of DNA elements in intron 2 of the Ldh-B gene from F. heteroclitus that resemble hypoxia response elements (HRE) describedfor mammalian genes (7-10). Specifically, over a region of approximately 50 base pairs we identified two consensus HIF-1 binding sites, as well as DNA elements that may bind other transcription factors (e.g., cyclic AMP response elements; CRE). We found that these sites were perfectly conserved among geographically diverse populations of F. heteroclitus, as well as being highly conserved among multiple species in the genus Fundulus. The spacing, orientation, and sequence conservation of these putative regulatory elements suggest that they may be functionally involved in the hypoxic regulation of Ldh-B in these fish.

Animals↗
PubMed2003

Spectrally driven classification of high spatial resolution, hyperspectral imagery: a tool for mapping in-stream habitat.

Streams represent an essential component of functional ecosystems and serve as sensitive indicators of disturbance. Accurate mapping and monitoring of these features is therefore critical, and this study explored the potential to characterize aquatic habitat with remotely sensed data. High spatial resolution, hyperspectral imagery of the Lamar River, Wyoming, USA, was used to examine the relationship between spectrally defined classes and field-mapped habitats. Advantages of this approach included enhanced depiction of fine-scale heterogeneity and improved portrayal of gradational zones between adjacent features. Certain habitat types delineated in the field were strongly associated with specific image classes, but most included areas of diverse spectral character; spatially buffering the field map polygons strengthened this association. Canonical discriminant analysis (CDA) indicated that the ratio of the variability among groups to that within a group was an order of magnitude greater for spectrally defined image classes (20.84) than for field-mapped habitat types (1.82), suggesting that unsupervised image classification might more effectively categorize the fluvial environment. CDA results also suggested that shortwave-infrared wavelengths were valuable for distinguishing various in-stream habitats. Although hyperspectral stream classification seemed capable of identifying more features than previously recognized, the technique also suggested that the intrinsic complexity of the Lamar River would preclude its subdivision into a discrete number of classes. Establishing physically based linkages between observed spectral patterns and ecologically relevant channel characteristics will require additional research, but hyperspectral stream classification could provide novel insight into fluvial systems while emerging as a potentially powerful tool for resource management.

Ecosystem↗
PubMed2002

Spatial modeling of wetland condition in the U.S. Prairie Pothole Region.

We propose a spatial modeling framework for wetland data produced from a remote-sensing-based waterfowl habitat survey conducted in the U.S. Prairie Pothole Region (PPR). The data produced from this survey consist of the area containing water on many thousands of wetland basins (i.e., prairie potholes). We propose a two-state model containing wet and dry states. This model provides a concise description of wet probability, i.e., the probability that a basin contains water, and the amount of water contained in wet basins. The two model components are spatially linked through a common latent effect, which is assumed to be spatially correlated. Model fitting and prediction is carried out using Markov chain Monte Carlo methods. The model primarily facilitates mapping of habitat conditions, which is useful in varied monitoring and assessment capacities. More importantly, the predictive capability of the model provides a rigorous statistical framework for directing management and conservation activities by enabling characterization of habitat structure at any point on the landscape.

Animals↗
PubMed2006

Physiological, ecological, and phylogenetic characterization of Stappia, a marine CO-oxidizing bacterial genus.

Bacteria play a major role in marine CO cycling, yet very little is known about the microbes involved. Thirteen CO-oxidizing Stappia isolates obtained from existing cultures, macroalgae, or surf samples representing geographically and ecologically diverse habitats were characterized using biochemical, physiological, and phylogenetic approaches. All isolates were aerobic chemoorganotrophs that oxidized CO at elevated (1,000 ppm) and ambient-to-subambient concentrations (<0.3 ppm). All contained the form I (OMP) coxL gene for aerobic CO dehydrogenase and also the form II (BMS) putative coxL gene. In addition, some strains possessed cbbL, the large subunit gene for ribulose-1,5-bisphosphate carboxylase/oxygenase, suggesting the possibility of lithotrophic or mixotrophic metabolism. All isolates used a wide range of sugars, organic acids, amino acids, and aromatics for growth and grew at salinities from 5 to 45 ppt. All but one isolate denitrified or respired nitrate. Phylogenetic analyses based on 16S rRNA gene sequences indicated that several isolates could not be distinguished from Stappia aggregata and contributed to a widely distributed species complex. Four isolates (of strains GA15, HI, MIO, and M4) were phylogenetically distinct from validly described Stappia species and closely related genera (e.g., Ahrensia, Pannonibacter, Pseudovibrio, and Roseibium). Substrate utilization profiles, enzymatic activity, and membrane lipid composition further distinguished these isolates and supported their designations as new Stappia species. The observed metabolic versatility of Stappia likely accounts for its cosmopolitan distribution and its ability to contribute to CO cycling as well as other important biogeochemical cycles.

Base Sequence↗
PubMed2002

Construction and characterization of a proU-gfp transcriptional fusion that measures water availability in a microbial habitat.

We constructed and characterized a transcriptional fusion that measures the availability of water to a bacterial cell. This fusion between the proU promoter from Escherichia coli and the reporter gene gfp was introduced into strains of E. coli, Pantoea agglomerans, and Pseudomonas syringae. The proU-gfp fusion in these bacterial biosensor strains responded in a quantitative manner to water deprivation caused by the presence of NaCl, Na(2)SO(4), KCl, or polyethylene glycol (molecular weight, 8000). The fusion was induced to a detectable level by NaCl concentrations of as low as 10 mM in all three bacterial species. Water deprivation induced proU-gfp expression in both planktonic and surface-associated cells; however, it induced a higher level of expression in the surface-associated cells. Following the introduction of P. agglomerans biosensor cells onto bean leaves, the cells detected a significant decrease in water availability within only 5 min. After 30 min, the populations were exposed, on average, to a water potential equivalent to that imposed by approximately 55 mM NaCl. These results demonstrate the effectiveness of a proU-gfp-based biosensor for evaluating water availability on leaves. Furthermore, the inducibility of proU-gfp in multiple bacterial species illustrates the potential for tailoring proU-gfp-based biosensors to specific habitats.

Amino Acid Transport Systems↗