Showing papers by "Oak Ridge National Laboratory published in 2001"

Biodiversity and Ecosystem Functioning: Current Knowledge and Future Challenges

Abstract: The ecological consequences of biodiversity loss have aroused considerable interest and controversy during the past decade. Major advances have been made in describing the relationship between species diversity and ecosystem processes, in identifying functionally important species, and in revealing underlying mechanisms. There is, however, uncertainty as to how results obtained in recent experiments scale up to landscape and regional levels and generalize across ecosystem types and processes. Larger numbers of species are probably needed to reduce temporal variability in ecosystem processes in changing environments. A major future challenge is to determine how biodiversity dynamics, ecosystem processes, and abiotic factors interact.

FLUXNET: A New Tool to Study the Temporal and Spatial Variability of Ecosystem-Scale Carbon Dioxide, Water Vapor, and Energy Flux Densities

Abstract: FLUXNET is a global network of micrometeorological flux measurement sites that measure the exchanges of carbon dioxide, water vapor, and energy between the biosphere and atmosphere. At present over 140 sites are operating on a long-term and continuous basis. Vegetation under study includes temperate conifer and broadleaved (deciduous and evergreen) forests, tropical and boreal forests, crops, grasslands, chaparral, wetlands, and tundra. Sites exist on five continents and their latitudinal distribution ranges from 70°N to 30°S. FLUXNET has several primary functions. First, it provides infrastructure for compiling, archiving, and distributing carbon, water, and energy flux measurement, and meteorological, plant, and soil data to the science community. (Data and site information are available online at the FLUXNET Web site, http://www-eosdis.ornl.gov/FLUXNET/.) Second, the project supports calibration and flux intercomparison activities. This activity ensures that data from the regional networks are intercomparable. And third, FLUXNET supports the synthesis, discussion, and communication of ideas and data by supporting project scientists, workshops, and visiting scientists. The overarching goal is to provide information for validating computations of net primary productivity, evaporation, and energy absorption that are being generated by sensors mounted on the NASA Terra satellite. Data being compiled by FLUXNET are being used to quantify and compare magnitudes and dynamics of annual ecosystem carbon and water balances, to quantify the response of stand-scale carbon dioxide and water vapor flux densities to controlling biotic and abiotic factors, and to validate a hierarchy of soil–plant–atmosphere trace gas exchange models. Findings so far include 1) net CO 2 exchange of temperate broadleaved forests increases by about 5.7 g C m −2 day −1 for each additional day that the growing season is extended; 2) the sensitivity of net ecosystem CO 2 exchange to sunlight doubles if the sky is cloudy rather than clear; 3) the spectrum of CO 2 flux density exhibits peaks at timescales of days, weeks, and years, and a spectral gap exists at the month timescale; 4) the optimal temperature of net CO 2 exchange varies with mean summer temperature; and 5) stand age affects carbon dioxide and water vapor flux densities.

Disruption of a new forkhead/winged-helix protein, scurfin, results in the fatal lymphoproliferative disorder of the scurfy mouse.

Abstract: Disruption of a new forkhead/winged-helix protein, scurfin, results in the fatal lymphoproliferative disorder of the scurfy mouse

A meta-analysis of the response of soil respiration, net nitrogen mineralization, and aboveground plant growth to experimental ecosystem warming

Abstract: Climate change due to greenhouse gas emissions is predicted to raise the mean global temperature by 1.0–3.5°C in the next 50–100 years. The direct and indirect effects of this potential increase in temperature on terrestrial ecosystems and ecosystem processes are likely to be complex and highly varied in time and space. The Global Change and Terrestrial Ecosystems core project of the International Geosphere-Biosphere Programme has recently launched a Network of Ecosystem Warming Studies, the goals of which are to integrate and foster research on ecosystem-level effects of rising temperature. In this paper, we use meta-analysis to synthesize data on the response of soil respiration, net N mineralization, and aboveground plant productivity to experimental ecosystem warming at 32 research sites representing four broadly defined biomes, including high (latitude or altitude) tundra, low tundra, grassland, and forest. Warming methods included electrical heat-resistance ground cables, greenhouses, vented and unvented field chambers, overhead infrared lamps, and passive night-time warming. Although results from individual sites showed considerable variation in response to warming, results from the meta-analysis showed that, across all sites and years, 2–9 years of experimental warming in the range 0.3–6.0°C significantly increased soil respiration rates by 20% (with a 95% confidence interval of 18–22%), net N mineralization rates by 46% (with a 95% confidence interval of 30–64%), and plant productivity by 19% (with a 95% confidence interval of 15–23%). The response of soil respiration to warming was generally larger in forested ecosystems compared to low tundra and grassland ecosystems, and the response of plant productivity was generally larger in low tundra ecosystems than in forest and grassland ecosystems. With the exception of aboveground plant productivity, which showed a greater positive response to warming in colder ecosystems, the magnitude of the response of these three processes to experimental warming was not generally significantly related to the geographic, climatic, or environmental variables evaluated in this analysis. This underscores the need to understand the relative importance of specific factors (such as temperature, moisture, site quality, vegetation type, successional status, land-use history, etc.) at different spatial and temporal scales, and suggests that we should be cautious in "scaling up" responses from the plot and site level to the landscape and biome level. Overall, ecosystem-warming experiments are shown to provide valuable insights on the response of terrestrial ecosystems to elevated temperature.

Spin-dependent tunneling conductance of Fe | MgO | Fe sandwiches

Abstract: We present first-principles based calculations of the tunneling conductance and magnetoconductance of epitaxial $\mathrm{Fe}(100)|\mathrm{MgO}(100)|\mathrm{Fe}(100)$ sandwiches. Our results indicate that tunneling is much more interesting and complicated than the simple barrier model used previously. We obtain the following general results: (1) Tunneling conductance depends strongly on the symmetry of the Bloch states in the electrodes and of the evanescent states in the barrier layer. (2) Bloch states of different symmetry decay at different rates within the barrier. The decay rate is determined by the complex energy bands of the same symmetry in the barrier. (3) There may be quantum interference between the decaying states in the barrier. This leads to an oscillatory dependence of the tunneling current on ${k}_{\ensuremath{\Vert}}$ and a damped oscillatory dependence on barrier thickness. (4) Interfacial resonance states can allow particular Bloch states to tunnel efficiently through the barrier. For $\mathrm{Fe}(100)|\mathrm{MgO}(100)|\mathrm{Fe}(100)$ our calculations indicate that quite different tunneling mechanisms dominate the conductance in the two spin channels. In the majority channel the conductance is primarily via Bloch electrons with small transverse momentum. One particular state with ${\ensuremath{\Delta}}_{1}$ symmetry is able to effectively couple from the Fe into the MgO. In the minority channel the conductance is primarily through interface resonance states especially for thinner layers. We predict a large magnetoresistance that increases with barrier thickness.

Control of nitrogen export from watersheds by headwater streams

Abstract: A comparative 15 N-tracer study of nitrogen dynamics in headwater streams from biomes throughout North America demonstrates that streams exert control over nutrient exports to rivers, lakes, and estuaries. The most rapid uptake and transformation of inorganic nitrogen occurred in the smallest streams. Ammonium entering these streams was removed from the water within a few tens to hundreds of meters. Nitrate was also removed from stream water but traveled a distance 5 to 10 times as long, on average, as ammonium. Despite low ammonium concentration in stream water, nitrification rates were high, indicating that small streams are potentially important sources of atmospheric nitrous oxide. During seasons of high biological activity, the reaches of headwater streams typically export downstream less than half of the input of dissolved inorganic nitrogen from their watersheds.

Bioassay of prostate-specific antigen (PSA) using microcantilevers.

Abstract: Diagnosis and monitoring of complex diseases such as cancer require quantitative detection of multiple proteins. Recent work has shown that when specific biomolecular binding occurs on one surface of a microcantilever beam, intermolecular nanomechanics bend the cantilever, which can be optically detected. Although this label-free technique readily lends itself to formation of microcantilever arrays, what has remained unclear is the technologically critical issue of whether it is sufficiently specific and sensitive to detect disease-related proteins at clinically relevant conditions and concentrations. As an example, we report here that microcantilevers of different geometries have been used to detect two forms of prostate-specific antigen (PSA) over a wide range of concentrations from 0.2 ng/ml to 60 µg/ml in a background of human serum albumin (HSA) and human plasminogen (HP) at 1 mg/ml, making this a clinically relevant diagnostic technique for prostate cancer. Because cantilever motion originates from the free-energy change induced by specific biomolecular binding, this technique may offer a common platform for high-throughput label-free analysis of protein‐protein binding, DNA hybridization, and DNA‐protein interactions, as well as drug discovery. It is becoming increasingly evident that high-throughput identification and quantitation of a large number of biological molecules is important for generating a molecular profile that is critical in diagnosis, monitoring, and prognostic evaluation of complex diseases such as cancer

Transition probability from the ground to the first-excited 2^+ state of even-even nuclides

Abstract: Adopted values for the reduced electric quadrupole transition probability, B(E2)↑, from the ground state to the first-excited 2+ state of even–even nuclides are given in Table I. Values of τ, the mean life of the 2+ state; E, the energy; and β, the quadrupole deformation parameter, are also listed there. The ratio of β to the value expected from the single-particle model is presented. The intrinsic quadrupole moment, Q0, is deduced from the B(E2)↑ value. The product E×B(E2)↑ is expressed as a percentage of the energy-weighted total and isoscalar E2 sum-rule strengths. Table II presents the data on which Table I is based, namely the experimental results for B(E2)↑ values with quoted uncertainties. Information is also given on the quantity measured and the method used. The literature has been covered to November 2000. The adopted B(E2)↑ values are compared in Table III with the values given by systematics and by various theoretical models. Predictions of unmeasured B(E2)↑ values are also given in Table III.

Suppression of hadrons with large transverse momentum in central Au + Au collisions at √sNN = 130 GeV

Abstract: Transverse momentum spectra for charged hadrons and for neutral pions in the range 1 Gev/c < P-T < 5 GeV/c have been measured by the PHENIX experiment at RHIC in Au + Au collisions at rootS(NN) = 130 GeV. At high p(T) the spectra from peripheral nuclear collisions are consistent with scaling the spectra from p + p collisions by the average number of binary nucleon-nucleon collisions. The spectra from central collisions are significantly suppressed when compared to the binary-scaled p + p expectation, and also when compared to similarly binary-scaled peripheral collisions, indicating a novel nuclear-medium effect in central nuclear collisions at RHIC energies.

Improved inversion channel mobility for 4H-SiC MOSFETs following high temperature anneals in nitric oxide

Abstract: Results presented in this letter demonstrate that the effective channel mobility of lateral, inversion-mode 4H-SiC MOSFETs is increased significantly after passivation of SiC/SiO/sub 2/ interface states near the conduction band edge by high temperature anneals in nitric oxide. Hi-lo capacitance-voltage (C-V) and ac conductance measurements indicate that, at 0.1 eV below the conduction band edge, the interface trap density decreases from approximately 2/spl times/10/sup 13/ to 2/spl times/10/sup 12/ eV/sup -1/ cm/sup -2/ following anneals in nitric oxide at 1175/spl deg/C for 2 h. The effective channel mobility for MOSFETs fabricated with either wet or dry oxides increases by an order of magnitude to approximately 30-35 cm/sup 2//V-s following the passivation anneals.

Spin waves and electronic interactions in La2CuO4

Abstract: The magnetic excitations of the square-lattice spin-1/2 antiferromagnet and high- T(c) parent compound La2CuO4 are determined using high-resolution inelastic neutron scattering. Sharp spin waves with absolute intensities in agreement with theory including quantum corrections are found throughout the Brillouin zone. The observed dispersion relation shows evidence for substantial interactions beyond the nearest-neighbor Heisenberg term which can be understood in terms of a cyclic or ring exchange due to the strong hybridization path around the Cu4O4 square plaquettes.

Net primary production and carbon allocation patterns of boreal forest ecosystems

Abstract: The three objectives of this paper were: to summarize net primary production (NPP) and carbon allocation patterns for boreal forests, to examine relationships between climatic and biological variables and NPP, and to examine carbon allocation coefficients for all boreal forests or types of boreal forests that can be used to estimate NPP from easily measured components of NPP. Twenty-four Class I stands (complete NPP budgets) and 45 Class II boreal forest stands (aboveground NPP [NPPA] and budget only) were identified. The geographic distribution of the Class I stands was not uniform; 46% of the stands were from two studies in North America, and only one stand was from the important larch forests of Eurasia. Total (above- and belowground) net primary production (NPPT) ranged from 52 to 868 g C·m−2·yr−1 and averaged 424 g C·m−2·yr−1. NPPA was consistently larger for deciduous than for evergreen boreal forests in each of the major boreal regions, especially for boreal forests in Alaska. Belowground net prima...

Inter‐biome comparison of factors controlling stream metabolism

Abstract: 'SUMMARY 1. We studied whole-ecosystem metabolism in eight streams from several biomes in North America to identify controls on the rate of stream metabolism over a large geographic range. The streams studied had climates ranging from tropical to cool-temperate and from humid to arid and were all relatively uninfluenced by human disturbances. 2. Rates of gross primary production (GPP), ecosystem respiration (R) and net ecosystem production (NEP) were determined using the open-system, two-station diurnal oxygen change method. 3. Three general patterns in metabolism were evident among streams: (1) relatively high GPP with positive NEP (i.e. net oxygen production) in early afternoon, (2) moderate primary production with a distinct peak in GPP during daylight but negative NEP at all times and (3) little or no evidence of GPP during daylight and a relatively constant and negative NEP over the entire day. ', 4. Gross primary production was most strongly correlated with photosynthetically active radiation (PAR). A multiple regression model that included log PAR and stream water soluble reactive phosphorus (SRP) concentration explained 90% of the variation in log GPP. 5. Ecosystem respiration was significantly correlated with SRP concentration and size of the transient storage zone and, together, these factors,explained 73% of the variation in R. The rate of R was poorly correlated with the rate of GPP. 6. Net ecosystem production was significantly correlated only with PAR, with 53% of the variation in log NEP explained by log PAR. Only Sycamore Creek, a desert stream in Arizona, had positive NEP (GPP: R > I), supporting the idea that streams are generally net sinks rather than net sources of organic matter.

Origin of nanomechanical cantilever motion generated from biomolecular interactions.

Abstract: Generation of nanomechanical cantilever motion from biomolecular interactions can have wide applications, ranging from high-throughput biomolecular detection to bioactuation. Although it has been suggested that such motion is caused by changes in surface stress of a cantilever beam, the origin of the surface-stress change has so far not been elucidated. By using DNA hybridization experiments, we show that the origin of motion lies in the interplay between changes in configurational entropy and intermolecular energetics induced by specific biomolecular interactions. By controlling entropy change during DNA hybridization, the direction of cantilever motion can be manipulated. These thermodynamic principles were also used to explain the origin of motion generated from protein-ligand binding.

Elevated CO2, litter chemistry, and decomposition: a synthesis.

Abstract: The results of published and unpublished experiments investigating the impacts of elevated [CO2] on the chemistry of leaf litter and decomposition of plant tissues are summarized The data do not support the hypothesis that changes in leaf litter chemistry often associated with growing plants under elevated [CO2] have an impact on decomposition processes A meta-analysis of data from naturally senesced leaves in field experiments showed that the nitrogen (N) concentration in leaf litter was 71% lower in elevated [CO2] compared to that in ambient [CO2] This statistically significant difference was: (1) usually not significant in individual experiments, (2) much less than that often observed in green leaves, and (3) less in leaves with an N concentration indicative of complete N resorption Under ideal conditions, the efficiency with which N is resorbed during leaf senescence was found not to be altered by CO2 enrichment, but other environmental influences on resorption inevitably increase the variability in litter N concentration Nevertheless, the small but consistent decline in leaf litter N concentration in many experiments, coupled with a 65% increase in lignin concentration, would be predicted to result in a slower decomposition rate in CO2-enriched litter However, across the assembled data base, neither mass loss nor respiration rates from litter produced in elevated [CO2] showed any consistent pattern or differences from litter grown in ambient [CO2] The effects of [CO2] on litter chemistry or decomposition were usually smallest under experimental conditions similar to natural field conditions, including open-field exposure, plants free-rooted in the ground, and complete senescence It is concluded that any changes in decomposition rates resulting from exposure of plants to elevated [CO2] are small when compared to other potential impacts of elevated [CO2] on carbon and N cycling Reasons for experimental differences are considered, and recommendations for the design and execution of decomposition experiments using materials from CO2-enrichment experiments are outlined

Equilibrium Oxygen, Hydrogen and Carbon Isotope Fractionation Factors Applicable to Geologic Systems

Abstract: As demonstrated by the chapters in this short course, stable isotope techniques are an important tool in almost every branch of the earth sciences. Central to many of these applications is a quantitative understanding of equilibrium isotope partitioning between substances. Indeed, it was Harold Urey’s (1947) thermodynamically based estimate of the temperature-dependence of 18O/16O fractionation between calcium carbonate and water, and a recognition of how this information might be used to determine the temperatures of ancient oceans, that launched the science of stable isotope geochemistry. The approach pioneered by Urey has since been used to estimate temperatures for a wide range of geological processes (e.g. Emiliani 1955; Anderson et al. 1971; Clayton 1986; Valley, this volume). In addition to their geothermometric applications, equilibrium fractionation data are also important in the study of fluid-rock interactions, including those associated with diagenetic, hydrothermal, and metamorphic processes (Baumgartner and Valley, this volume; Shanks, this volume). Finally, a knowledge of equilibrium fractionation is a necessary first step in evaluating isotopic disequilibrium, a widespread phenomenon that is increasingly being used to study temporal relationships in geological systems (Cole and Chakraborty, this volume). In the fifty-four years since the publication of Urey’s paper, equilibrium fractionation data have been reported for many minerals and fluids of geological interest. These data were derived from: (1) theoretical calculations following the methods developed by Urey (1947) and Bigeleisen and Mayer (1947); (2) direct laboratory experiments; (3) semi-empirical bond-strength models; and (4) measurement of fractionations in natural samples. Each of these methods has its advantages and disadvantages. However, the availability of a variety of methods for calibrating fractionation factors has led to a plethora of calibrations, not all of which are in agreement. In this chapter, we evaluate the major methods for determining fractionation factors. …

Eliminating frequency and space-time correlations in multiphoton states

Abstract: Multiphoton states constructed from photon pairs generated in the process of spontaneous parametric downconversion possess frequency and space-time correlations that may carry undesired distinguishing information. It is shown that these correlations may be eliminated if certain conditions in the source configuration are satisfied. For the cases in which these conditions cannot be satisfied because of experimental constraints, it is shown that the correlations may be reduced through proper choices of crystal length and pump bandwidth. The advantage of such source engineering is that it yields much higher count rates, since no photon pairs are lost by predetection spectral filtering.

Development and Evaluation of Functional Gene Arrays for Detection of Selected Genes in the Environment

Abstract: To determine the potential of DNA array technology for assessing functional gene diversity and distribution, a prototype microarray was constructed with genes involved in nitrogen cycling: nitrite reductase (nirS and nirK) genes, ammonia mono-oxygenase (amoA) genes, and methane mono-oxygenase (pmoA) genes from pure cultures and those cloned from marine sediments. In experiments using glass slide microarrays, genes possessing less than 80 to 85% sequence identity were differentiated under hybridization conditions of high stringency (65°C). The detection limit for nirS genes was approximately 1 ng of pure genomic DNA and 25 ng of soil community DNA using our optimized protocol. A linear quantitative relationship (r2 = 0.89 to 0.94) was observed between signal intensity and target DNA concentration over a range of 1 to 100 ng for genomic DNA (or genomic DNA equivalent) from both pure cultures and mixed communities. However, the quantitative capacity of microarrays for measuring the relative abundance of targeted genes in complex environmental samples is less clear due to divergent target sequences. Sequence divergence and probe length affected hybridization signal intensity within a certain range of sequence identity and size, respectively. This prototype functional gene array did reveal differences in the apparent distribution of nir and amoA and pmoA gene families in sediment and soil samples. Our results indicate that glass-based microarray hybridization has potential as a tool for revealing functional gene composition in natural microbial communities; however, more work is needed to improve sensitivity and quantitation and to understand the associated issue of specificity.

Evaluation of PCR-Generated Chimeras, Mutations, and Heteroduplexes with 16S rRNA Gene-Based Cloning

Abstract: To evaluate PCR-generated artifacts (i.e., chimeras, mutations, and heteroduplexes) with the 16S ribosomal DNA (rDNA)-based cloning approach, a model community of four species was constructed from alpha, beta, and gamma subdivisions of the division Proteobacteria as well as gram-positive bacterium, all of which could be distinguished by HhaI restriction digestion patterns. The overall PCR artifacts were significantly different among the three Taq DNA polymerases examined: 20% for Z-Taq, with the highest processitivity; 15% for LA-Taq, with the highest fidelity and intermediate processitivity; and 7% for the conventionally used DNA polymerase, AmpliTaq. In contrast to the theoretical prediction, the frequency of chimeras for both Z-Taq (8.7%) and LA-Taq (6.2%) was higher than that for AmpliTaq (2.5%). The frequencies of chimeras and of heteroduplexes for Z-Taq were almost three times higher than those of AmpliTaq. The total PCR artifacts increased as PCR cycles and template concentrations increased and decreased as elongation time increased. Generally the frequency of chimeras was lower than that of mutations but higher than that of heteroduplexes. The total PCR artifacts as well as the frequency of heteroduplexes increased as the species diversity increased. PCR artifacts were significantly reduced by using AmpliTaq and fewer PCR cycles (fewer than 20 cycles), and the heteroduplexes could be effectively removed from PCR products prior to cloning by polyacrylamide gel purification or T7 endonuclease I digestion. Based upon these results, an optimal approach is proposed to minimize PCR artifacts in 16S rDNA-based microbial community studies.

Structural, magnetic, thermal, and transport properties of X 8 Ga 16 Ge 30 ( X = E u , S r , Ba ) single crystals

Abstract: Structural, magnetic, electrical and thermal transport, and heat-capacity measurements are reported on single crystals of ${\mathrm{Eu}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30},$ ${\mathrm{Sr}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30},$ and ${\mathrm{Ba}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ These compounds all crystallize in a cubic type-I ice clathrate structure, and are of interest as potential thermoelectric materials Neutron-diffraction measurements were made on a single crystal of ${\mathrm{Eu}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ that was grown using isotopically pure ${\mathrm{Eu}}^{153}$ Nuclear density maps clearly show that Eu atoms at the $6d$ sites $(\frac{1}{4},$$\frac{1}{2},0)$ can move away from the cage center to one of four nearby positions Ferromagnetism is observed in ${\mathrm{Eu}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ for temperatures below 32 K, with the preferred direction of the Eu spins along the (100) axis Ferromagnetism in these heavily doped semiconductors $(\ensuremath{\approx}{10}^{21}{\mathrm{e}\mathrm{l}\mathrm{e}\mathrm{c}\mathrm{t}\mathrm{r}\mathrm{o}\mathrm{n}\mathrm{s}/\mathrm{c}\mathrm{m}}^{3})$ is likely due to a Rudermann-Kittel-Kasuya-Yoshida-type interaction A large (\ensuremath{\approx}10% at 8 T) negative magnetoresistance was measured near the Curie temperature of ${\mathrm{Eu}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ The lattice thermal conductivities of ${\mathrm{Eu}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ and ${\mathrm{Sr}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ single crystals show all of the characteristics of a structural glass The thermal conductivity of ${\mathrm{Ba}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ is low at room temperature (13 W/m K), but exhibits a temperature dependence characteristic of a crystal A magnetic field has no significant effect on the thermal conductivity of any of the crystals for temperatures between 2 and 300 K Heat-capacity measurements indicated Einstein contributions from each of the rattlers, with characteristic temperatures of 60, 53, and 30 K for Ba, Sr, and Eu atoms respectively No superconductivity was observed in heavily doped single crystals of ${\mathrm{Ba}}_{8}{\mathrm{Ga}}_{16}{\mathrm{Ge}}_{30}$ for temperatures above 2 K, contrary to a previous report

Predicting nutrient and sediment loadings to streams from landscape metrics: A multiple watershed study from the United States Mid-Atlantic Region

Abstract: There has been an increasing interest in evaluating the relative condition or health of water resources at regional and national scales. Of particular interest is an ability to identify those areas where surface and ground waters have the greatest potential for high levels of nutrient and sediment loadings. High levels of nutrient and sediment loadings can have adverse effects on both humans and aquatic ecosystems. We analyzed the ability of landscape metrics generated from readily available, spatial data to predict nutrient and sediment yield to streams in the Mid-Atlantic Region in the United States. We used landscape metric coverages generated from a previous assessment of the entire Mid-Atlantic Region, and a set of stream sample data from the U.S. Geological Survey. Landscape metrics consistently explained high amounts of variation in nitrogen yields to streams (65 to 86% of the total variation). They also explained 73 and 79% of the variability in dissolved phosphorus and suspended sediment. Although there were differences in the nitrogen, phosphorus, and sediment models, the amount of agriculture, riparian forests, and atmospheric nitrate deposition (nitrogen only) consistently explained a high proportion of the variation in these models. Differences in the models also suggest potential differences in landscape-stream relationships between ecoregions or biophysical settings. The results of the study suggest that readily available, spatial data can be used to assess potential nutrient and sediment loadings to streams, but that it will be important to develop and test landscape models in different biophysical settings.

Simultaneous Recovery of RNA and DNA from Soils and Sediments

Abstract: Recovery of mRNA from environmental samples for measurement of in situ metabolic activities is a significant challenge. A robust, simple, rapid, and effective method was developed for simultaneous recovery of both RNA and DNA from soils of diverse composition by adapting our previous grinding-based cell lysis method (Zhou et al., Appl. Environ. Microbiol. 62:316–322, 1996) for DNA extraction. One of the key differences is that the samples are ground in a denaturing solution at a temperature below 0°C to inactivate nuclease activity. Two different methods were evaluated for separating RNA from DNA. Among the methods examined for RNA purification, anion exchange resin gave the best results in terms of RNA integrity, yield, and purity. With the optimized protocol, intact RNA and high-molecular-weight DNA were simultaneously recovered from 19 soil and stream sediment samples of diverse composition. The RNA yield from these samples ranged from 1.4 to 56 μg g of soil−1 dry weight), whereas the DNA yield ranged from 23 to 435 μg g−1. In addition, studies with the same soil sample showed that the DNA yield was, on average, 40% higher than that in our previous procedure and 68% higher than that in a commercial bead milling method. For the majority of the samples, the DNA and RNA recovered were of sufficient purity for nuclease digestion, microarray hybridization, and PCR or reverse transcription-PCR amplification.

Control of Doping by Impurity Chemical Potentials: Predictions for p-Type ZnO

Abstract: Theoretical work has so far focused on the role of host-element chemical potentials in determining defect formation energies that control doping levels in semiconductors. Here, we report on our analysis of the role of the dopant-impurity chemical potential, which depends on the source gas. We present first-principles total-energy calculations that demonstrate a wide variation in the possible effective chemical potential of N. We account in detail for the recent puzzling observations of doping ZnO using ${\mathrm{N}}_{2}$ and ${\mathrm{N}}_{2}\mathrm{O}$ and predict that the use of dilute NO or ${\mathrm{NO}}_{2}$ gas would resolve the long-standing problem of achieving p-type ZnO.