Improving ecological risk assessment of pesticides for nontarget terrestrial vertebrates

The Quotient Method (QM) is used by the United States Environmental Protection Agency (USEPA) in ecological risk assessments of pesticides for nontarget organisms. The QM requires several assumptions regarding exposure and hazards of pesticides to wildlife; several of these assumptions have not been tested. During 1997-99, I conducted three experiments using the gray-tailed vole (Microtus canicaudus) as a model species to test three assumptions of the QM. The experiments were conducted in 24 0.2-ha fenced vole-proof enclosures. In Experiment 1, I tracked voles using radio-telemetry and found that animals did not move from contaminated to uncontaminated habitat to avoid exposure to a pesticide, thus supporting one assumption of the QM. In Experiment 2, I studied demographic responses of gray-tailed voles and northern bobwhite quail (Colinus virginianus) to liquid and granular formulations of diazinon. The results of Experiment 2 indicated that quail were more susceptible to granular diazinon than to liquid diazinon because of direct consumption of diazinon granules. Neither formulation of diazinon at 0.55 or 1.55 kg AI/ha adversely affected vole demography. In Experiment 3, I used sprinklers to simulate a 0.25-cm rainfall to test the assumption that the expected environmental concentration (EEC) of a pesticide is estimated immediately after application, and that rainfall does not modify the risk of pesticides to animals. The 0.25-cm rainfall may have reduced the risk of voles to Guthion® 2S either by improving the dry season habitat or by washing more pesticide residues down to the soil and reducing exposure of the animals. This experiment did not support the assumption of the QM that weather would not affect the EEC of pesticides. Last, I used a Ricker model incorporating demographic stochasticity to simulate the 1998 and 1999 vole populations and a single pesticide application at different population sizes. The simulations demonstrate that demographic stochasticity could cause uncertainties in predictions of significant effects of pesticide on voles, especially for small populations. These simulations suggest that ecological risk assessments of pesticides to nontarget wildlife should consider demographic characteristics of wildlife species to minimize the uncertainty of predictions

Seasonal Habitat Selection by American White Pelicans

Resource utilization strategies of avian migrants are a major concern for conservation and management. Understanding seasonal habitat selection by migratory birds helps us explain the ongoing continental declines of migratory bird populations. Our objective was to compare the secondorder and third-order habitat selection by the American White Pelican (Pelecanus erythrorhynchos; hereafter pelican) between the breeding and non-breeding grounds. We tested the Lack hypothesis that habitat selection by migratory birds is stronger on the breeding grounds than on the nonbreeding grounds. We used random-effect Dirichlet-multinomial models to estimate the second-order habitat selection between the seasons with the GPS locations of 32 tracked pelicans. We used Gaussian Markov random field models to estimate the third-order habitat selection by pelicans at the breeding and non-breeding grounds, accounting for spatial autocorrelation. Pelicans strongly selected waterbodies and wetlands at both non-breeding and breeding grounds, tracking their foraging habitats between the seasons at the home range level. However, pelicans exhibited seasonal differences in the strength of the third-order selection of wetlands and waterbodies with foraging habitat selection being stronger at the breeding grounds than at the non-breeding grounds, supporting the Lack hypothesis

Habitat selection by American beaverat multiple spatial scales

Background: Semiaquatic mammals require both aquatic and terrestrial habitats, particularly interfaces between the two habitats. As ecosystem engineers, American beaver (Castor canadensis) consume and fell a great amount of deciduous trees. We tested the prediction that open water and amounts of food resources, including hardwood forests (i.e., deciduous trees as the dominant form of vegetation), herbaceous and woody wetlands, and shrubs, would influence the second-order habitat selection (i.e., placing home ranges on the landscape) by American beaver, whereas the third-order habitat selection of American beaver would be associated with woody wetland and shrub edges. We investigated hierarchical habitat selection by American beaver using location data from very high frequency telemetry. Dirichlet-multinomial models were used to determine the second-order habitat selection at landscape scales. Bayesian spatial resource selection function was used to assess the third-order habitat selection within home ranges. Results: Second-order habitat selection by American beaver was associated with herbaceous wetland, shrubs, hardwood forest, grassland, and woody wetland more than open water bodies at landscape scales. At the third-order scale, American beaver selected herbaceous wetlands as well as the edges of shrubs and woody wetland within established home ranges. Conclusions: Spatial distributions of food resources affected both the second- and third-order habitat selection by American beaver. Herbaceous wetlands were more important habitat components than water bodies in the secondand third-order habitat selection by American beaver. Dirichlet-multinomial distribution models for the second-order habitat selection and Bayesian spatial resource selection functions for the third-order habitat selection do not need pseudo-absence locations, providing alternative approaches to the presence–absence methods for habitat selection by animals

Seasonal climatic niche and migration movements of Double-crested Cormorants

Avian migrants are challenged by seasonal adverse climatic conditions and energetic costs of long-distance flying. Migratory birds may track or switch seasonal climatic niche between the breeding and non-breeding grounds. Satellite tracking enables avian ecologists to investigate seasonal climatic niche and circannual movement patterns of migratory birds. The Double-crested Cormorant (Nannopterum auritum, hereafter cormorant) wintering in the Gulf of Mexico (GOM) migrates to the Northern Great Plains and Great Lakes and is of economic importance because of its impacts on aquaculture. We tested the climatic niche switching hypothesis that cormorants would switch climatic niche between summer and winter because of substantial differences in climate between the non-breeding grounds in the subtropical region and breeding grounds in the northern temperate region. The ordination analysis of climatic niche overlap indicated that cormorants had separate seasonal climatic niche consisting of seasonal mean monthly minimum and maximum temperature, seasonal mean monthly precipitation, and seasonal mean wind speed. Despite non-overlapping summer and winter climatic niches, cormorants appeared to be subjected to similar wind speed between winter and summer habitats and were consistent with similar hourly flying speed between winter and summer. Therefore, substantial differences in temperature and precipitation may lead to the climatic niche switching of fish-eating cormorants, a dietary specialist, between the breeding and non-breeding grounds

Large- and Small-Scale Climate Influences Spring Migration Departure Probability of American White Pelicans

Endogenous (e.g., age and sex) and exogenous (e.g., climate and resource availability) factors influence avian migration phenology. However, little is known regarding the migration ecology of birds at the non-breeding grounds, including the American white pelican (Pelecanus erythrorhynchos). We used Global Positioning System transmitters to track the movements and migration of 51 pelicans from 2002 to 2012. We used the Kaplan–Meier model to estimate pelican spring migration probabilities to quantify partial migration with 94 spring migration events and used the Cox proportional hazards model to evaluate the effects of the North Atlantic Oscillation index (NAOI), Southern Oscillation Index (SOI), and spring daily precipitation on the propensity of pelican spring migration departures. Increases in the NAOI and SOI enhanced the propensity of pelican spring departure. The propensity of spring departure was also positively related to daily precipitation. Male pelicans have greater spring migration probabilities than female pelicans. Spring migration departure probabilities of adult pelicans are greater than those of immature pelicans. Therefore, both large-scale and local climatic conditions affect pelican spring departure probabilities. Advanced migratory phenology of pelicans caused by climate changes with warming temperature and increased precipitation may result in the mismatch of pelican spring arrival with food resource availability of breeding grounds and subsequent pelican population declines

Identification of metabolism pathways directly regulated by sigma54 factor in Bacillus thuringiensis

Sigma54 (σ54) normally regulates nitrogen and carbon utilization in bacteria. Promoters that are σ54-dependent are highly conserved and contain short sequences located at the −24 and −12 positions upstream of the transcription initiation site. σ54 requires regulatory proteins known as bacterial enhancer-binding proteins (bEBPs) to activate gene transcription. We show that σ54 regulates the capacity to grow on various nitrogen sources using a Bacillus thuringiensis HD73 mutant lacking the sigL gene encoding σ54 (ΔsigL). A 2-fold-change cutoff and a false discovery rate cutoff of P < 0.05 were used to analyze the DNA microarray data, which revealed 255 genes that were downregulated and 121 that were upregulated in the ΔsigL mutant relative to the wild-type HD73 strain. The σ54 regulon (stationary phase) was characterized by DNA microarray, bioinformatics, and functional assay; 16 operons containing 47 genes were identified whose promoter regions contain the conserved −12/−24 element and whose transcriptional activities were abolished or reduced in the ΔsigL mutant. Eight σ54-dependent transcriptional bEBPs were found in the Bt HD73 genome, and they regulated night σ54-dependent promoters.The metabolic pathways activated by σ54 in this process have yet to be identified in Bacillus thuringiensis; nonetheless, the present analysis of the σ54 regulon provides a better understanding of the physiological roles of σ factors in bacteria

LCGbase: A Comprehensive Database for Lineage-Based Co-regulated Genes

Animal genes of different lineages, such as vertebrates and arthropods, are well-organized and blended into dynamic chromosomal structures that represent a primary regulatory mechanism for body development and cellular differentiation. The majority of genes in a genome are actually clustered, which are evolutionarily stable to different extents and biologically meaningful when evaluated among genomes within and across lineages. Until now, many questions concerning gene organization, such as what is the minimal number of genes in a cluster and what is the driving force leading to gene co-regulation, remain to be addressed. Here, we provide a user-friendly database—LCGbase (a comprehensive database for lineage-based co-regulated genes)—hosting information on evolutionary dynamics of gene clustering and ordering within animal kingdoms in two different lineages: vertebrates and arthropods. The database is constructed on a web-based Linux-Apache-MySQL-PHP framework and effective interactive user-inquiry service. Compared to other gene annotation databases with similar purposes, our database has three comprehensible advantages. First, our database is inclusive, including all high-quality genome assemblies of vertebrates and representative arthropod species. Second, it is human-centric since we map all gene clusters from other genomes in an order of lineage-ranks (such as primates, mammals, warm-blooded, and reptiles) onto human genome and start the database from well-defined gene pairs (a minimal cluster where the two adjacent genes are oriented as co-directional, convergent, and divergent pairs) to large gene clusters. Furthermore, users can search for any adjacent genes and their detailed annotations. Third, the database provides flexible parameter definitions, such as the distance of transcription start sites between two adjacent genes, which is extendable to genes that flanking the cluster across species. We also provide useful tools for sequence alignment, gene ontology (GO) annotation, promoter identification, gene expression (co-expression), and evolutionary analysis. This database not only provides a way to define lineage-specific and species-specific gene clusters but also facilitates future studies on gene co-regulation, epigenetic control of gene expression (DNA methylation and histone marks), and chromosomal structures in a context of gene clusters and species evolution. LCGbase is freely available at http://lcgbase.big.ac.cn/LCGbase

Individual trophic niche specialization in American beaver (\u3ci\u3eCastor canadensis\u3c/i\u3e)

The American beaver (Castor canadensis) has been described as a choosy generalist at the species/population scale, yet observational studies have shown little variation in diet among individuals. We compared isotopic values of δ13C or δ15N taken from hair of 32 beaver, representing seven colonies in northern Alabama, USA to determine 1) if colonies of beaver show overlap in isotopic niche width as a result of the similar use of food resources and 2) if individual trophic niche specialization occurs within colonies. Total Trophic Niche Width varied across the wetland with the widest being twice the narrowest. Each of the five niche ellipses overlapped with ≥ two other wetlands studied. The percentages of observed variance attributed to Within Individual Component, Between Individual Component, and Between Location Component for δ13C were 37%, 33%, 30%; and those for δ15N were 16%, 56%, and 28%. Dietary nitrogen differentiated the trophic niches of individual beavers. Our results revealed that colonies across the landscape showed separation in trophic niche, lending support that the choosy generalist classification is correct at the colony scale. Our results also support individual trophic niche specialization within colonies, as seen by the substantial amount variation in both δ13C (33%) and δ15N (56%) between individuals