Geochemical fractions and phytoavailability of Zinc in a contaminated calcareous soil affected by biotic and abiotic amendments

Many studies have conducted to determine the best management practice to reduce the mobility and phytoavailability of the trace metals in contaminated soils. In this study, geochemical speciation and phytoavailability of Zn for sunflower were studied after application of nanoparticles (SiO₂ and zeolite, with an application rate of 200 mg kg^?1) and bacteria [Bacillus safensis FO-036b(T) and Pseudomonas fluorescens p.f.169] to a calcareous heavily contaminated soil. Results showed that the biotic and abiotic treatments significantly reduced the Zn concentration in the aboveground to non-toxicity levels compared to the control treatment, and the nanoparticle treatments were more effective than the bacteria and control treatments. The concentration of CaCl₂-extractable Zn in the treated soils was significantly lower than those of the control treatment. The results of sequential extraction showed that the maximum portion of total Zn belonged to the fraction associated with iron and manganese oxides. On the contrary, the minimum percent belonged to the exchangeable and water-soluble Zn (F₁). From the environmental point of view, the fraction associated with iron and manganese oxides is less bioavailable than the F₁ and carbonated fractions. On the basis of plant growth promotion, simultaneous application of the biotic and abiotic treatments significantly increased the aboveground dry biomass yield and also significantly reduced the CaCl₂-extractable form, uptake by aboveground and translocation factor of Zn compared to the control treatment. Therefore, it might be suggested as an efficient strategy to promote the plant growth and reduce the mobile and available forms of toxic metals in calcareous heavily contaminated soils.     

Long-term dynamics of biotic and abiotic resistance to exotic species invasion in restored vernal pool plant communities

Invasion of native ecosystems by exotic species can seriously threaten native biodiversity, alter ecosystem function, and inhibit conservation. Moreover, restoration of native plant communities is often impeded by competition from exotic species. Exotic species invasion may be limited by unfavorable abiotic conditions and by competition with native species, but the relative importance of biotic and abiotic factors remains controversial and may vary during the invasion process. We used a long-term experiment involving restored vernal pool plant communities to characterize the temporal dynamics of exotic species invasion, and to evaluate the relative support for biotic and abiotic factors affecting invasion resistance. Experimental pools (n=256) were divided among controls and several seeding treatments. In most treatments, native vernal pool species were initially more abundant than exotic species, and pools that initially received more native seeds exhibited lower frequencies of exotic species over time. However, even densely seeded pools were eventually dominated by exotic species, following extreme climatic events that reduced both native and exotic plant densities across the study site. By the sixth year of the experiment, most pools supported more exotics than native vernal pool species, regardless of seeding treatment or pool depth. Although deeper pools were less invaded by exotic species, two exotics (Hordeum marinum and Lolium multiflorum) were able to colonize deeper pools as soon as the cover of native species was reduced by climatic extremes. Based on an information-theoretic analysis, the best model of invasion resistance included a nonlinear effect of seeding treatment and both linear and nonlinear effects of pool depth. Pool depth received more support as a predictor of invasion resistance, but seeding intensity was also strongly supported in multivariate models of invasion, and was the best predictor of resistance to invasion by H. marinum and L. multilorum. We conclude that extreme climatic events can facilitate exotic species invasions by both reducing abiotic constraints and weakening biotic resistance to invasion.     

Role of multidecadal climate variability in a range extension of pinyon pine

Evidence from woodrat middens and tree rings at Dutch John Mountain (DJM) in northeastern Utah reveal spatiotemporal patterns of pinyon pine (Pinus edulis Engelm.) colonization and expansion in the past millennium. The DJM population, a northern outpost of pinyon, was established by long-distance dispersal (approximately 40 km). Growth of this isolate was markedly episodic and tracked multidecadal variability in precipitation. Initial colonization occurred by AD 1246, but expansion was forestalled by catastrophic drought (1250-1288), which we speculate produced extensive mortality of Utah Juniper (Juniperus osteosperma (Torr.) Little), the dominant tree at DJM for the previous approximately 8700 years. Pinyon then quickly replaced juniper across DJM during a few wet decades (1330-1339 and 1368-1377). Such alternating decadal-scale droughts and pluvial events play a key role in structuring plant communities at the landscape to regional level. These decadal-length precipitation anomalies tend to be regionally coherent and can synchronize physical and biological processes across large areas. Vegetation forecast models must incorporate these temporal and geographic aspects of climate variability to accurately predict the effects of future climate change.     

藜麦Hsf家族的进化与多胁迫条件下的转录应答

Hsf转录因子参与调控植物在生物和非生物胁迫下的防御应答机制.基于系统的生物信息学分析方法,对藜麦Hsf家族成员进行序列特征、进化和多种生物和非生物逆境胁迫下的基因表达水平分析.在藜麦基因组中共鉴定得到31个Hsf转录因子,主要分布在7号染色体.系统进化树将藜麦31个Hsf成员划分到A1-A9、B1-B5和C组中;但藜...     

Spatial and temporal variability of fish assemblage in Kuwait Bay

Spatial and temporal variability of fish assemblages in Kuwait Bay was studied using the catch data acquired through monthly otter trawl sampling from June 2002 through July 2004. We compared species composition using relative species density and cluster analysis among different seasons (summer’02, summer’03, winter’03, and spring’04) and areas (center, south 1, south 2, west, north and east). Significant differences in total species, species richness (SR), diversity (H′), and fish abundance were tested among (between) different seasons and areas using analysis of variance (ANOVA) and Duncan’s test. The results showed that the catches consisted of 80 species representing 41 families with Leiognathus bindus and Plicofollis tenuispinis dominating numerically. Spatially, species composition fell into three main areas: (1) east; (2) south 1 and south 2; and (3) north, center, and west. Temporally, winter’03 and spring’04 were closely related, but we found low similarity between the two summers and even lower similarity between the summers and other seasons, indicating high intra-annual variation. L. bindus was abundant in most of the areas except south 1, south 2 and the east area. Spatial changes of abundance of the two dominant species showed a complementary trend. Where L. bindus was numerically high, P. tenuispinis was low, and vice versa. Significant lower total species number and SR were observed in south 2 than all the other areas except the east, and significant higher fish abundance occurred in the summers than during the other seasons. Overall, it was concluded that variation in fish assemblages was area dependent, while fish abundance was mainly influenced by seasonal changes.     

Constraints on tree seedling establishment in montane grasslands of the Valles Caldera, New Mexico

Montane and subalpine grasslands are prominent, but poorly understood, features of the Rocky Mountains. These communities frequently occur below reversed tree lines on valley floors, where nightly cold air accumulation is spatially coupled with fine soil texture. We used field experiments to assess the roles of minimum temperature, soil texture, grass competition, and ungulate browsing on the growth, photosynthetic performance, and survival of transplanted ponderosa pine (Pinus ponderosa) seedlings at 32 sites straddling such reversed tree lines in the Valles Caldera National Preserve (VCNP) of the Jemez Mountains, New Mexico (USA). Seedling growth increased most strongly with increasing nighttime minimum temperatures away from the valley bottoms; seedlings experiencing the coldest temperatures on the caldera floor exhibited stunted needles and often no measurable height growth. Based on the chlorophyll fluorescence ratios PhiPSII and Fv/Fm, we found that low minimum temperatures, low soil moisture, and fine soil texture all contributed to photoinhibition. Neighboring herbs had only minor negative effects on seedlings. We found no effect of ungulates, but golden-mantled ground squirrels (Spermophilus lateralis) caused substantial seedling mortality. Second-year seedling survival was highest on sandy soils, and third-year survival was highest at sites with higher minimum temperatures. We conclude that differential tree seedling establishment driven by low minimum temperatures in the valley bottoms is the primary factor maintaining montane grasslands of the VCNP, although this process probably operated historically in combination with frequent surface fire to set the position of the tree line ecotone. As at alpine tree lines, reversed tree lines bordering montane and subalpine grasslands can represent temperature-sensitive boundaries of the tree life form.     

Predicting tree diversity across the United States as a function of modeled gross primary production.

At the regional and continental scale, ecologists have theorized that spatial variation in biodiversity can be interpreted as a response to differences in climate. To test this theory we assumed that ecological constraints associated with current climatic conditions (2000-2004) might best be correlated with tree richness if expressed through satellite-derived measures of gross primary production (GPP), rather than the more commonly used, but less consistently derived, net primary production. To evaluate current patterns in tree diversity across the contiguous United States we acquired information on tree composition from the USDA Forest Service's Forest Inventory and Analysis program that represented more than 17,4000 survey plots. We selected 2693 cells of 1000 km2 within which a sufficient number of plots were available to estimate tree richness per hectare. Our estimates of forest productivity varied from simple vegetation indices indicative of the fraction of light intercepted by canopies at 16-d intervals, a product from the MODIS (Moderate Resolution Imaging Spectro-radiometer), to 8- and 10-d GPP products derived with minimal climatic data (MODIS) and SPOT-Vegetation (Systeme Pour l'Observation de la Terre), to 3-PGS (Physiological Principles Predicting Growth with Satellites), which requires both climate and soil data. Across the contiguous United States, modeled predictions of gross productivity accounted for between 51% and 77% of the recorded spatial variation in tree diversity, which ranged from 2 to 67 species per hectare. When the analyses were concentrated within nine broadly defined ecoregions, predictive relations largely disappeared. Only 3-PGS predictions fit a theorized unimodal function by being able to distinguish highly productive forests in the Pacific Northwest that support lower than expected tree diversity. Other models predicted a continuous steep rise in tree diversity with increasing productivity, and did so with generally better or nearly equal precision with fewer data requirements.     

Spatial and temporal variability in egg production rates of the calanoid copepod Acrocalanus inermis

Egg production rate of the copepod Acrocalanus inermis was measured at 3 stations in south Kaneohe Bay, Hawaii in August 1977 and July–October 1979. The egg production rates were significantly variable spatially, but temporal variability over a time scale of weeks was larger than spatial variability. In three experiments, egg production rates were correlated with ambient concentrations of particulate matter, a crude estimate of food concentration. Most values for egg production rates ranged between 5 and 16.9 eggs female^-1 d^-1.     

Spatial and seasonal variability of dissolved oxygen and nutrients in the Southern Adriatic coastal waters

The main objective of this paper is to present vertical and horizontal patterns of dissolved oxygen and nutrients found during four seasonal surveys (March, June, September and December 2000) in the Southern Adriatic Sea coastal waters. The multivariate technique Principal Component Analysis has been applied to our dataset considering the following parameters: seawater temperature, salinity, dissolved oxygen and nutrients (nitrate, nitrite, phosphate, silicate). The resulting plot shows in a self-explanatory way that a seasonal trend was not observable in the investigated period and that no significant differences occur between the stations sampled in the Taranto Gulf and those along the Adriatic coast. Water column stratification persists in all seasons, except in spring, in the shallowest stations. The surface layer is characterized by a low nutrient content. The influence of the Northern Adriatic Surface Water in the Southern Adriatic sub-basin seems to be very low and can be traced by nitrate and silicate only in spring and winter. Regarding deep waters, nitrate distribution shows an increasing gradient moving from the coast to the open sea, having the lowest concentration in the shelf area and the highest in the most offshore stations of the Otranto Strait. In the Otranto Strait area the vertical distributions of physical and chemical parameters show, at middle depths, the inflow of Levantine Intermediate Water, traced by both the maximum of salinity, nitrate and phosphate and the minimum of oxygen. The LIW signal is lost moving northward. The outflow of Adriatic Dense Water is less evident, being traced only in spring by an oxygen increase at the bottom layer in the shelf area. The N:P ratio is highly variable but in the range already observed in the Southern Adriatic, suggesting a P-limitation, which can both contribute to the low primary productivity of the area and support the N:P ratio anomaly of the Eastern Mediterranean.     

Spatial and seasonal variability of dissolved oxygen and nutrients in the Southern Adriatic coastal waters

The main objective of this paper is to present vertical and horizontal patterns of dissolved oxygen and nutrients found during four seasonal surveys (March, June, September and December 2000) in the Southern Adriatic Sea coastal waters. The multivariate technique Principal Component Analysis has been applied to our dataset considering the following parameters: seawater temperature, salinity, dissolved oxygen and nutrients (nitrate, nitrite, phosphate, silicate). The resulting plot shows in a self-explanatory way that a seasonal trend was not observable in the investigated period and that no significant differences occur between the stations sampled in the Taranto Gulf and those along the Adriatic coast. Water column stratification persists in all seasons, except in spring, in the shallowest stations. The surface layer is characterized by a low nutrient content. The influence of the Northern Adriatic Surface Water in the Southern Adriatic sub-basin seems to be very low and can be traced by nitrate and silicate only in spring and winter. Regarding deep waters, nitrate distribution shows an increasing gradient moving from the coast to the open sea, having the lowest concentration in the shelf area and the highest in the most offshore stations of the Otranto Strait. In the Otranto Strait area the vertical distributions of physical and chemical parameters show, at middle depths, the inflow of Levantine Intermediate Water, traced by both the maximum of salinity, nitrate and phosphate and the minimum of oxygen. The LIW signal is lost moving northward. The outflow of Adriatic Dense Water is less evident, being traced only in spring by an oxygen increase at the bottom layer in the shelf area. The N:P ratio is highly variable but in the range already observed in the Southern Adriatic, suggesting a P-limitation, which can both contribute to the low primary productivity of the area and support the N:P ratio anomaly of the Eastern Mediterranean.     

Fragmentation effects on an endangered species across a gradient from the interior to edge of its range

Understanding how habitat fragmentation affects individual species is complicated by challenges associated with quantifying species-specific habitat and spatial variability in fragmentation effects within a species’ range. We aggregated a 29-year breeding survey data set for the endangered marbled murrelet (Brachyramphus marmoratus) from >42,000 forest sites throughout the Pacific Northwest (Oregon, Washington, and northern California) of the United States. We built a species distribution model (SDM) in which occupied sites were linked with Landsat imagery to quantify murrelet-specific habitat and then used occupancy models to test the hypotheses that fragmentation negatively affects murrelet breeding distribution and that these effects are amplified with distance from the marine foraging habitat toward the edge of the species’ nesting range. Murrelet habitat declined in the Pacific Northwest by 20% since 1988, whereas the proportion of habitat comprising edges increased by 17%, indicating increased fragmentation. Furthermore, fragmentation of murrelet habitat at landscape scales (within 2 km of survey stations) negatively affected occupancy of potential breeding sites, and these effects were amplified near the range edge. On the coast, the odds of occupancy decreased by 37% (95% confidence interval [CI] –54 to 12) for each 10% increase in edge habitat (i.e., fragmentation), but at the range edge (88 km inland) these odds decreased by 99% (95% CI 98 to 99). Conversely, odds of murrelet occupancy increased by 31% (95% CI 14 to 52) for each 10% increase in local edge habitat (within 100 m of survey stations). Avoidance of fragmentation at broad scales but use of locally fragmented habitat with reduced quality may help explain the lack of murrelet population recovery. Further, our results emphasize that fragmentation effects can be nuanced, scale dependent, and geographically variable. Awareness of these nuances is critical for developing landscape-level conservation strategies for species experiencing broad-scale habitat loss and fragmentation.     

Spatial and temporal variability modify density dependence in populations of large herbivores

A central challenge in ecology is to understand the interplay of internal and external controls on the growth of populations. We examined the effects of temporal variation in weather and spatial variation in vegetation on the strength of density dependence in populations of large herbivores. We fit three subsets of the model ln(Nt) = a + (1 + b) x ln(N(t-1)) + c x ln(N(t-2)) to five time series of estimates (Nt) of abundance of ungulates in the Rocky Mountains, USA. The strength of density dependence was estimated by the magnitude of the coefficient b. We regressed the estimates of b on indices of temporal heterogeneity in weather and spatial heterogeneity in resources. The 95% posterior intervals of the slopes of these regressions showed that temporal heterogeneity strengthened density-dependent feedbacks to population growth, whereas spatial heterogeneity weakened them. This finding offers the first empirical evidence that density dependence responds in different ways to spatial heterogeneity and temporal heterogeneity.     

Spatial variance in abundance and occupancy of corals across broad geographic scales

Species assemblages vary in structure due to a wide variety of processes operating at ecological and much broader biogeographical scales. Cross-scale studies of assemblage structure are necessary to fully understand this variability. Here, we evaluate the abundance and occupancy patterns of hierarchically sampled coral assemblages in three habitats (reef flat, crest, and slope) and five regions (Indonesia, Papua New Guinea, the Solomon Islands, American Samoa, and the Society Islands) across the west-central Pacific Ocean. Specifically, we compare two alternative models that unify spatial variance and occupancy via the negative binomial distribution. The first assumes a power-law scaling between the mean and variance of abundance; the second assumes a quadratic variance-mean relationship and a constant abundance-invariant aggregation parameter. Surprisingly, the well-established power-law model performs worse than the model assuming abundance-invariant aggregation, for both variance-mean and occupancy-abundance relationships. We also find strong evidence for regional and habitat variation in these relationships and in the levels of aggregation estimated by the abundance-invariant aggregation model. Among habitats, corals on reef flats exhibited lower occupancy and higher levels of aggregation compared to reef crests and slopes. Among regions, low occupancy and high aggregation were most pronounced across all habitats in American Samoa. These patterns may be related to habitat and regional differences in disturbance and recovery processes. Our results suggest that the spatial scaling of abundance and occupancy is sensitive to processes operating among these habitats and at regional scales. However, the consistency of these relationships across species within assemblages suggests that a theoretical unification of spatial variance and occupancy patterns is indeed possible.     

Spatial memory, habitat auto-facilitation and the emergence of fractal home range patterns

Animals interact with their habitat in a manner which involves both negative and positive feedback mechanisms. We apply a specific modeling approach, “multi-scaled random walk”, for the scenario where a spatially explicit positive feedback process emerges from a combination of a spatial memory-dependent tendency to return to familiar patches and a consequently objective or subjective improvement of the quality of these patches (habitat auto-facilitation). In addition to the potential for local resource improvement from physically altering a patch, primarily known from the ecology of grazing ungulates, auto-facilitation from site fidelity may also embed more subtle subjective, individual-specific advantages from patch familiarity. Under the condition of resource superabundance, fitness gain from intra-home range patch fidelity creates a self-reinforcing use of the preferred patches on expense of a broader foraging in a priori equally favorable patches. Through this process, our simulations show that a spatially fractal dispersion of accumulated locations of the individual will emerge under the given model assumptions. Based on a conjecture that intra-home range patch fidelity depends on spatial memory we apply the multi-scaled random walk model to construct a spatially explicit habitat suitability parameter H_ij, which quantifies the dispersion of the generally most constraining resource from the individual's perspective. An intra-home range set of observed H-scores, H_obs, can then be estimated from a simple 2-scale calculation that is derived from the local dispersion of fixes. We show how the spatially explicit habitat utilization index H_obs not necessarily correlates positively with the local density fluctuations of fixes. The H-index solves some well-known problems from using the pattern of local densities of telemetry fixes - the classic utilization distribution - as a proxy variable for relative intra-home range habitat quality and resource selection. A pilot study on a set of telemetry fixes collected from a herd of free-ranging domestic sheep with overlapping summer home ranges illustrates how the H-index may be estimated and interpreted as a first-level approach towards a more extensive analysis of intra-home range habitat resource availability and patch preferences. Spatial memory in combination with site fidelity requires a modeling framework that explicitly describes the property of positive feedback mechanism under auto-facilitation in a spatio-temporally explicit manner.     

Role of climate and competitors in limiting fitness across range edges of an annual plant

It is often assumed that the geographic distributions of species match their climatic tolerances, but this assumption is not frequently tested. Moreover, few studies examine the relative importance of abiotic and biotic factors for limiting species ranges. We combined multiple approaches to assess the extent to which fitness of a widespread native annual legume, Chamaecrista fasciculata, decreases at and beyond its northern and western range edges, and how this is influenced by the presence of neighbors. First, we examined plant fitness and the effect of neighbors in natural populations at different geographic range locations for three years. Fitness decreased toward the northern range edge, but not the western edge. Neighbor removal had a consistently positive effect on seedpod production across all years and sites. Second, we established experimental populations at sites within the range, and at and beyond the northern and western range edges. We tracked individual fitness and recorded seedling recruitment in the following year (a complete generation) to estimate population growth rate. Individual fitness and population growth declined to near zero beyond both range edges, indicating that C. fasciculata with its present genetic composition will not establish in these regions, given conditions currently. We also carried out a neighbor removal treatment. Consistent with the natural populations, neighbors reduced seedpod production of reproductive adults. However, neighbors also increased early-season survival, and this positive effect early in life history resulted in a net positive effect of neighbors on lifetime fitness at most range locations. Our data show that the population growth rate of C. fasciculata includes values above replacement, and populations are well adapted to conditions up to the edge of the range, whereas the severely compromised fitness at sites beyond the edge precludes immediate establishment of populations and thereby impedes adaptation to these conditions.     

Spatial variability of infaunal nematode and polychaete assemblages in two muddy subtidal habitats

Spatial variation of populations and their assemblages is an important component of many aspects of ecology, including the maintenance of species diversity. In nature, organisms are generally aggregated in patches or form gradients or other spatially related patterns. This investigation quantified the degree of spatial structure in benthic invertebrate assemblages. It examined the distribution of infaunal assemblages of different size, mobility and contrasting life-history strategies (i.e. meiofaunal nematodes and macrofaunal polychaetes) in two offshore muddy habitats in the Celtic Deep and the NW Irish Sea off the west coast of the United Kingdom. The more heterogeneous habitat in the NW Irish Sea was characterised by higher tidal stress and bottom temperature while greater water depth, mean particle diameter and organic carbon content was typical for the comparatively homogeneous environment in the Celtic Deep. In both habitats, the environmental conditions became increasingly dissimilar with separation. A total of 125 nematode and 88 polychaete species were recorded with 69% of the nematode and 49% of polychaete species present at both study sites. Occurrence frequency of species, species diversity and average similarity of assemblage composition was higher in the Celtic Deep than in the NW Irish Sea. Results from correlation analyses revealed statistically robust relationships of community similarity and sample distance. Given their small size and low mobility, nematodes were more susceptible to within-habitat physical variability than larger-sized, more mobile polychaetes. This, coupled with limits to long-distance dispersal and likely restrictions in gene flow, resulted in a significant decrease in community similarity with distance at the spatial scales sampled (i.e. within 0.1–23 km). Polychaetes, in contrast, combined a higher dispersal potential (>23 km) with a relatively high tolerance to within-habitat environmental variability and these were the most likely causes for non-significant relationships between the similarity of their assemblages and sample distance. The potential mechanisms causing the observed variation and implications of results for environmental management strategies are discussed. Electronic supplementary material The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Spatial variability in lipid composition of calanoid copepods from Fram Strait,the Arctic

The calanoid copepods Calanus hyperboreus and C. finmarchicus were investigated in view of their lipid and wax ester content and their fatty acid and alcohol composition. Analyses were performed in females and copepodid stages V and IV from the Fram Strait region between Greenland and Spitsbergen in 1984. This region offers different food conditions like diatom blooms in the North East Water Polynya, food shortage in areas with very close ice cover, high phytoplankton biomass in the marginal ice zone and lower biomass in the open Atlantic water. Lipids contained generally more than 70% wax esters. Highest levels were found in C. hyperboreus with more than 90%. This percentage was not very variable, in spite of large differences in dry weight and lipid content. Copepods with particularly high weight and lipid content were found in the North East Water Polynya. The lightest individuals were found under the pack ice. Lipid proportions per unit dry weight were higher in C. hyperboreus than in C. finmarchicus, whose lowest values were found in the open Atlantic water. Spatial variability in fatty acid composition was much higher than in alcohol composition. The principle alcohols, 20:1 and 22:1, generally accounting for more than 80% of total alcohols. In the North East Water Polynya, the predominant monounsaturated fatty acid was 16:1, while under the ice 20:1 and 22:1 dominated. In the marginal ice zone and in the open water, the 18:4 acid reached percentages up to 30% of total fatty acids. These changes were related to the different food conditions. C. hyperboreus appears to be best adapted to the cold water and unfavourable conditions of polar regions because of its high lipid and wax ester store with long-chain wax esters of high calorific value.