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At least 433 records · Page 24

Microbial Community and Functional Gene Changes in Arctic Tundra Soils in a Microcosm Warming Experiment

Microbial decomposition of soil organic carbon (SOC) in the thawing Arctic permafrost is one of the most important, but poorly understood, processes in determining the greenhouse gases feedback of tundra ecosystems to climate. Here in this paper, we examine changes in microbial community structure during an anoxic incubation at either –2 or 8 °C for up to 122 days using both an organic and a mineral soil collected from the Barrow Environmental Observatory in northern Alaska, USA. Soils were characterized for SOC chemistry, and GeoChips were used to determine microbial community structure and functional genes associated with C degradation and Fe(III) reduction. We observed notable decreases in functional gene diversity (at P < 0.05) in response to warming at 8 °C, particularly in the organic soil. A number of genes associated with SOC degradation, fermentation, methanogenesis, and iron cycling decreased significantly (P < 0.05) after 122 days of incubation, which coincided well with decreasing labile SOC content, soil respiration, methane production, and iron reduction. The soil type (i.e., organic vs. mineral) and the availability of labile SOC were among the most significant environmental factors impacting the functional community structure. In contrast, the functional structure was largely unchanged in the –2 °C incubation due to low microbial activity resulting in less competition or exclusion. These results demonstrate the vulnerability of SOC in Arctic tundra to warming, facilitated by iron reduction and methanogenesis, and the importance of microbial communities in moderating such vulnerability.

54 ENVIRONMENTAL SCIENCES↗

Temporal, Spatial, and Temperature Controls on Organic Carbon Mineralization and Methanogenesis in Arctic High-Centered Polygon Soils

Warming temperatures in continuous permafrost zones of the Arctic will alter both hydrological and geochemical soil conditions, which are strongly linked with heterotrophic microbial carbon (C) cycling. Heterogeneous permafrost landscapes are often dominated by polygonal features formed by expanding ice wedges: water accumulates in low centered polygons (LCPs), and water drains outward to surrounding troughs in high centered polygons (HCPs). These geospatial differences in hydrology cause gradients in biogeochemistry, soil C storage potential, and thermal properties. Presently, data quantifying carbon dioxide (CO 2 ) and methane (CH 4 ) release from HCP soils are needed to support modeling and evaluation of warming-induced CO 2 and CH 4 fluxes from tundra soils. This study quantifies the distribution of microbial CO 2 and CH 4 release in HCPs over a range of temperatures and draws comparisons to previous LCP studies. Arctic tundra soils were initially characterized for geochemical and hydraulic properties. Laboratory incubations at −2, +4, and +8°C were used to quantify temporal trends in CO 2 and CH 4 production from homogenized active layer organic and mineral soils in HCP centers and troughs, and methanogen abundance was estimated from mcrA gene measurements. Results showed that soil water availability, organic C, and redox conditions influence temporal dynamics and magnitude of gas production from HCP active layer soils during warming. At early incubation times (2–9 days), higher CO 2 emissions were observed from HCP trough soils than from HCP center soils, but increased CO 2 production occurred in center soils at later times (>20 days). HCP center soils did not support methanogenesis, but CH 4 -producing trough soils did indicate methanogen presence. Consistent with previous LCP studies, HCP organic soils showed increased CO 2 and CH 4 production with elevated water content, but HCP trough mineral soils produced more CH 4 than LCP mineral soils. HCP mineral soils also released substantial CO 2 but did not show a strong trend in CO 2 and CH 4 release with water content. Knowledge of temporal and spatial variability in microbial C mineralization rates of Arctic soils in response to warming are key to constraining uncertainties in predictive climate models.

59 BASIC BIOLOGICAL SCIENCES↗

Application of genomics-assisted breeding for generation of climate resilient crops: Progress and prospects

Climate change affects agricultural productivity worldwide. Increased prices of food commodities are the initial indication of drastic edible yield loss, which is expected to increase further due to global warming. This situation has compelled plant scientists to develop climate change-resilient crops, which can withstand broad-spectrum stresses such as drought, heat, cold, salinity, flood, submergence and pests, thus helping to deliver increased productivity. Genomics appears to be a promising tool for deciphering the stress responsiveness of crop species with adaptation traits or in wild relatives toward identifying underlying genes, alleles or quantitative trait loci. Molecular breeding approaches have proven helpful in enhancing the stress adaptation of crop plants, and recent advances in high-throughput sequencing and phenotyping platforms have transformed molecular breeding to genomics-assisted breeding (GAB). In view of this, the present review elaborates the progress and prospects of GAB for improving climate change resilience in crops, which is likely to play an ever increasing role in the effort to ensure global food security.

60 APPLIED LIFE SCIENCES↗

The Magnitude and Waveform of Shock Waves Induced by X-ray Lasers in Water

The high energy densities deposited in materials by focused X-ray laser pulses generate shock waves which travel away from the irradiated region, and can generate complex wave patterns or induce phase changes. We determined the time-pressure histories of shocks induced by X-ray laser pulses in liquid water microdrops, by measuring the surface velocity of the microdrops from images recorded during the reflection of the shock at the surface. Measurements were made with ~30 µm diameter droplets using 10 keV X-rays, for X-ray pulse energies that deposited linear energy densities from 3.5 to 120 mJ/m; measurements were also made with ~60 µm diameter drops for a narrower energy range. At a distance of 15 µm from the X-ray beam, the peak shock pressures ranged from 44 to 472 MPa, and the corresponding time-pressure histories of the shocks had a fast quasi-exponential decay with positive pressure durations estimated to range from 2 to 5 ns. Knowledge of the amplitude and waveform of the shock waves enables accurate modeling of shock propagation and experiment designs that either maximize or minimize the effect of shocks.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Transfer of Graphene with Protective Oxide Layers

Transfer of graphene, grown by chemical vapor deposition (CVD), to a substrate of choice, typically involves the deposition of a polymeric layer (for example, poly(methyl methacrylate) (PMMA), or polydimethylsiloxane, PDMS). These polymers are quite hard to remove without leaving some residues behind. One method to improve the graphene transfer is to coat the graphene with a thin protective oxide layer, followed by the deposition of a very thin polymer layer on top of the oxide layer (much thinner than the usual thickness), followed by a more aggressive polymeric removal method, thus leaving the graphene intact. At the same time, having an oxide layer on graphene may serve applications, such as channeled transistors or sensing devices. Here, we study the transfer of graphene with a protective thin oxide layer grown by atomic layer deposition (ALD). We follow the transfer process from the graphene growth stage through oxide deposition until completion. We report on the nucleation growth process of oxides on graphene, their resultant strain and their optical transmission.

36 MATERIALS SCIENCE↗

Shock Damage Analysis in Serial Femtosecond Crystallography Data Collected at MHz X-ray Free-Electron Lasers

Serial femtosecond crystallography (SFX) data were recorded at the European X-ray free-electron laser facility (EuXFEL) with protein microcrystals delivered via a microscopic liquid jet. An XFEL beam striking such a jet may launch supersonic shock waves up the jet, compromising the oncoming sample. To investigate this efficiently, we employed a novel XFEL pulse pattern to nominally expose the sample to between zero and four shock waves before being probed. Analyzing hit rate, indexing rate, and resolution for diffraction data recorded at MHz pulse rates, we found no evidence of damage. Notably, however, this conclusion could only be drawn after careful identification and assimilation of numerous interrelated experimental factors, which we describe in detail. Failure to do so would have led to an erroneous conclusion. Femtosecond photography of the sample-carrying jet revealed critically different jet behavior from that of all homogeneous liquid jets studied to date in this manner.

36 MATERIALS SCIENCE↗

From Farms to Forests: Landscape Carbon Balance after 50 Years of Afforestation, Harvesting, and Prescribed Fire

Establishing reliable carbon baselines for landowners desiring to sustain carbon sequestration and identify opportunities to mitigate land management impacts on carbon balance is important; however, national and regional assessments are not designed to support individual landowners. Such baselines become increasingly valuable when landowners convert land use, change management, or when disturbance occurs. We used forest inventories to quantify carbon stocks, estimate annual carbon fluxes, and determine net biome production (NBP) over a 50-year period coinciding with a massive afforestation effort across ~80,000 ha of land in the South Carolina Coastal Plain. Forested land increased from 48,714 ha to 73,824 ha between 1951 and 2001. Total forest biomass increased from 1.73–3.03 Gg to 17.8–18.3 Gg, corresponding to biomass density increases from 35.6–62.2 Mg ha−1 to 231.4–240.0 Mg ha−1. Harvesting removed 1340.3 Gg C between 1955 and 2001, but annual removals were variable. Fire consumed 527.1 Gg C between 1952 and 2001. Carbon exported by streams was <0.5% of total export. Carbon from roots and other harvested material that remained in-use or in landfills comprised 49.3% of total harvested carbon. Mineral soil carbon accounted for 41.6 to 50% of 2001 carbon stocks when considering depths of 1.0 or 1.5 m, respectively, and was disproportionately concentrated in wetlands. Moreover, we identified a soil carbon deficit of 19–20 Mg C ha−1, suggesting opportunities for future soil carbon sequestration in post-agricultural soils. Our results provide a robust baseline for this site that can be used to understand how land conversion, forest management, and disturbance impacts carbon balance of this landscape and highlight the value of these baseline data for other sites. Our work also identifies the need to manage forests for multiple purposes, especially promotion of soil carbon accumulation in low-density pine savannas that are managed for red-cockaded woodpeckers and therefore demand low aboveground carbon stocks.

54 ENVIRONMENTAL SCIENCES↗

Arboreal Epiphytes in the Soil-Atmosphere Interface: How Often Are the Biggest “Buckets” in the Canopy Empty?

Arboreal epiphytes (plants residing in forest canopies) are present across all major climate zones and play important roles in forest biogeochemistry. The substantial water storage capacity per unit area of the epiphyte “bucket” is a key attribute underlying their capability to influence forest hydrological processes and their related mass and energy flows. It is commonly assumed that the epiphyte bucket remains saturated, or near-saturated, most of the time; thus, epiphytes (particularly vascular epiphytes) can store little precipitation, limiting their impact on the forest canopy water budget. We present evidence that contradicts this common assumption from (i) an examination of past research; (ii) new datasets on vascular epiphyte and epi-soil water relations at a tropical montane cloud forest (Monteverde, Costa Rica); and (iii) a global evaluation of non-vascular epiphyte saturation state using a process-based vegetation model, LiBry. All analyses found that the external and internal water storage capacity of epiphyte communities is highly dynamic and frequently available to intercept precipitation. Globally, non-vascular epiphytes spend <20% of their time near saturation and regionally, including the humid tropics, model results found that non-vascular epiphytes spend ~1/3 of their time in the dry state (0–10% of water storage capacity). Even data from Costa Rican cloud forest sites found the epiphyte community was saturated only 1/3 of the time and that internal leaf water storage was temporally dynamic enough to aid in precipitation interception. Analysis of the epi-soils associated with epiphytes further revealed the extent to which the epiphyte bucket emptied—as even the canopy soils were often <50% saturated (29–53% of all days observed). Results clearly show that the epiphyte bucket is more dynamic than currently assumed, meriting further research on epiphyte roles in precipitation interception, redistribution to the surface and chemical composition of “net” precipitation waters reaching the surface.

Hargis, Hailey↗

The Structure of Liquid and Amorphous Hafnia

Understanding the atomic structure of amorphous solids is important in predicting and tuning their macroscopic behavior. Here, we use a combination of high-energy X-ray diffraction, neutron diffraction, and molecular dynamics simulations to benchmark the atomic interactions in the high temperature stable liquid and low-density amorphous solid states of hafnia. The diffraction results reveal an average Hf–O coordination number of ~7 exists in both the liquid and amorphous nanoparticle forms studied. The measured pair distribution functions are compared to those generated from several simulation models in the literature. We have also performed ab initio and classical molecular dynamics simulations that show density has a strong effect on the polyhedral connectivity. The liquid shows a broad distribution of Hf–Hf interactions, while the formation of low-density amorphous nanoclusters can reproduce the sharp split peak in the Hf–Hf partial pair distribution function observed in experiment. The agglomeration of amorphous nanoparticles condensed from the gas phase is associated with the formation of both edge-sharing and corner-sharing HfO6,7 polyhedra resembling that observed in the monoclinic phase.

36 MATERIALS SCIENCE↗

The Effect of Periodic Spatial Perturbations on the Emission Rates of Quantum Dots near Graphene Platforms

The quenching of fluorescence (FL) at the vicinity of conductive surfaces and, in particular, near a 2-D graphene layer has become an important biochemical sensing tool. The quenching is attributed to fast non-radiative energy transfer between a chromophore (here, a Quantum Dot, QD) and the lossy graphene layer. Increased emission rate is also observed when the QD is coupled to a resonator. Here, we combine the two effects in order to control the emission lifetime of the QD. In our case, the resonator was defined by an array of nano-holes in the oxide substrate underneath a graphene surface guide. At resonance, the surface mode of the emitted radiation is concentrated at the nano-holes. Thus, the radiation of QD at or near the holes is spatially correlated through the hole-array’s symmetry. We demonstrated an emission rate change by more than 50% as the sample was azimuthally rotated with respect to the polarization of the excitation laser. In addition to an electrical control, such control over the emission lifetime could be used to control Resonance Energy Transfer (RET) between two chromophores.

36 MATERIALS SCIENCE↗

X-ray Laue Microdiffraction and Raman Spectroscopic Investigation of Natural Silicon and Moissanite

Moissanite, SiC, is an uncommon accessory mineral that forms under low oxygen fugacity. Here, we analyze natural SiC from a Miocene tuff-sandstone using synchrotron Laue microdiffraction and Raman spectroscopy, in order to better understand the SiC phases and formation physics. The studied crystals of SiC consist of 4H- and 6H-SiC domains, formed from either, continuous growth or, in one case, intergrown, together with native Si. The native Si is polycrystalline, with a large crystal size relative to the analytical beam dimensions (>1–2 μm). We find that the intergrown region shows low distortion or dislocation density in SiC, but these features are comparatively high in Si. The distortion/deformation observed in Si may have been caused by a mismatch in the coefficients of thermal expansion of the two materials. Raman spectroscopic measurements are discussed in combination with our Laue microdiffraction results. Our results suggest that these SiC grains likely grew from an igneous melt.

58 GEOSCIENCES↗

Platiniferous Tetra-Auricupride: A Case Study from the Bolshoy Khailyk Placer Deposit, Western Sayans, Russia

Tetra-auricupride, ideally AuCu, represents the only species showing the coexistence of Au with an elevated level of Pt, as in the case of a detrital grain studied structurally for the first time, from an ophiolite-associated placer at Bolshoy Khailyk, western Sayans, Russia. We infer that tetra-auricupride can incorporate as much as ~30 mol. % of a “PtCu” component, apparently without significant modification of the unit cell. The unit-cell parameters of platiniferous tetra-auricupride are: a 2.790(1) Å, c 3.641(4) Å, with c/a = 1.305, which are close to those reported for ordered AuCu(I) in the system Au–Cu, and close also to the cell parameters of tetraferroplatinum (PtFe), which both appear to crystallize in the same space group, P4/mmm. These intermetallic compounds and natural alloys are thus isostructural. The closeness of their structures presumably allows Pt to replace Au atoms so readily. The high extent of Cu + Au enrichment is considered to be a reflection of geochemical evolution and buildup in levels of the incompatible Cu and Au with subordinate Pt in a remaining volume of melt at low levels of fO 2 and fS 2 in the system.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Enhanced Thermal Stability of Conductive Mercury Telluride Colloidal Quantum Dot Thin Films Using Atomic Layer Deposition

Colloidal quantum dots (CQDs) are valuable for their potential applications in optoelectronic devices. However, they are susceptible to thermal degradation during processing and while in use. Mitigating thermally induced sintering, which leads to absorption spectrum broadening and undesirable changes to thin film electrical properties, is necessary for the reliable design and manufacture of CQD-based optoelectronics. Here, low-temperature metal–oxide atomic layer deposition (ALD) was investigated as a method for mitigating sintering while preserving the optoelectronic properties of mercury telluride (HgTe) CQD films. ALD-coated films are subjected to temperatures up to 160 °C for up to 5 h and alumina (Al 2 O 3 ) is found to be most effective at preserving the optical properties, demonstrating the feasibility of metal–oxide in-filling to protect against sintering. HgTe CQD film electrical properties were investigated before and after alumina ALD in-filling, which was found to increase the p-type doping and hole mobility of the films. The magnitude of these effects depended on the conditions used to prepare the HgTe CQDs. With further investigation into the interaction effects of CQD and ALD process factors, these results may be used to guide the design of CQD–ALD materials for their practical integration into useful optoelectronic devices.

36 MATERIALS SCIENCE↗

Increased Arctic NO3− Availability as a Hydrogeomorphic Consequence of Permafrost Degradation and Landscape Drying

Climate-driven permafrost thaw alters the strongly coupled carbon and nitrogen cycles within the Arctic tundra, influencing the availability of limiting nutrients including nitrate (NO3−). Researchers have identified two primary mechanisms that increase nitrogen and NO3− availability within permafrost soils: (1) the ‘frozen feast’, where previously frozen organic material becomes available as it thaws, and (2) ‘shrubification’, where expansion of nitrogen-fixing shrubs promotes increased soil nitrogen. Through the synthesis of original and previously published observational data, and the application of multiple geospatial approaches, this study investigates and highlights a third mechanism that increases NO3− availability: the hydrogeomorphic evolution of polygonal permafrost landscapes. Permafrost thaw drives changes in microtopography, increasing the drainage of topographic highs, thus increasing oxic conditions that promote NO3− production and accumulation. We extrapolate relationships between NO3− and soil moisture in elevated topographic features within our study area and the broader Alaskan Coastal Plain and investigate potential changes in NO3− availability in response to possible hydrogeomorphic evolution scenarios of permafrost landscapes. These approximations indicate that such changes could increase Arctic tundra NO3− availability by ~250–1000%. Thus, hydrogeomorphic changes that accompany continued permafrost degradation in polygonal permafrost landscapes will substantially increase soil pore water NO3− availability and boost future fertilization and productivity in the Arctic.

54 ENVIRONMENTAL SCIENCES↗

X-Ray Diffraction under Extreme Conditions at the Advanced Light Source

The more than a century-old technique of X-ray diffraction in either angle or energy dispersive mode has been used to probe materials’ microstructure in a number of ways, including phase identification, stress measurements, structure solutions, and the determination of physical properties such as compressibility and phase transition boundaries. The study of high-pressure and high-temperature materials has strongly benefitted from this technique when combined with the high brilliance source provided by third generation synchrotron facilities, such as the Advanced Light Source (ALS) (Berkeley, CA, USA). Here we present a brief review of recent work at this facility in the field of X-ray diffraction under extreme conditions, including an overview of diamond anvil cells, X-ray diffraction, and a summary of three beamline capabilities conducting X-ray diffraction high-pressure research in the diamond anvil cell.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Mapping Arctic plant functional type distributions in the Barrow Environmental Observatory using WorldView-2 and LiDAR datasets

Multi-scale modeling of Arctic tundra vegetation requires characterization of the heterogeneous tundra landscape, which includes representation of distinct plant functional types (PFTs). We combined high-resolution multi-spectral remote sensing imagery from the WorldView-2 satellite with light detecting and ranging (LiDAR)-derived digital elevation models (DEM) to characterize the tundra landscape in and around the Barrow Environmental Observatory (BEO), a 3021-hectare research reserve located at the northern edge of the Alaskan Arctic Coastal Plain. Vegetation surveys were conducted during the growing season (June August) of 2012 from 48 1 m 1 m plots in the study region for estimating the percent cover of PFTs (i.e., sedges, grasses, forbs, shrubs, lichens and mosses). Statistical relationships were developed between spectral and topographic remote sensing characteristics and PFT fractions at the vegetation plots from field surveys. These derived relationships were employed to statistically upscale PFT fractions for our study region of 586 hectares at 0.25-m resolution around the sampling areas within the BEO, which was bounded by the LiDAR footprint. We employed an unsupervised clustering for stratification of this polygonal tundra landscape and used the clusters for segregating the field data for our upscaling algorithm over our study region, which was an inverse distance weighted (IDW) interpolation. We describe two versions of PFT distribution maps upscaled by IDW from WorldView-2 imagery and LiDAR: (1) a version computed from a single image in the middle of the growing season; and (2) a version computed from multiple images through the growing season. This approach allowed us to quantify the value of phenology for improving PFT distribution estimates. We also evaluated the representativeness of the field surveys by measuring the Euclidean distance between every pixel. This guided the ground-truthing campaign in late July of 2014 for addressing uncertainty based on representativeness analysis by selecting 24 1 m 1 m plots that were well and poorly represented. Ground-truthing indicated that including phenology had a better accuracy (R 2 =0.75, RMSE=9.94) than the single image upscaling (R 2 =0.63 , RMSE=12.05) predicted from IDW. We also updated our upscaling approach to include the 24 ground-truthing plots, and a second ground-truthing campaign in late August of 2014 indicated a better accuracy for the phenology model (R 2 =0.61 , RMSE=13.78 ) than only using the original 48 plots for the phenology model (R 2 =0.23 , RMSE=17.49). After all, we believe that the cluster-based IDW upscaling approach and the representativeness analysis offer new insights for upscaling high-resolution data in fragmented landscapes. This analysis and approach provides PFT maps needed to inform land surface models in Arctic ecosystems.

54 ENVIRONMENTAL SCIENCES↗

Untargeted Exometabolomics Provides a Powerful Approach to Investigate Biogeochemical Hotspots with Vegetation and Polygon Type in Arctic Tundra Soils

Rising temperatures in the Arctic have led to the thawing of tundra soils, which is rapidly changing terrain, hydrology, and plant and microbial communities, causing hotspots of biogeochemical activity across the landscape. Despite this, little is known about how nutrient-rich low molecular weight dissolved organic matter (LMW DOM) varies within and across tundra ecosystems. Using a high-resolution nano-liquid chromatography-mass spectrometry (LC/MS) approach, we characterized the composition and availability of LMW DOM from high-centered polygons (HCP) and low-centered polygons (LCP) with Eriophorum angustifolium or Carex aquatilis as the dominant vegetation. Over 3000 unique features (i.e., discrete mass/charge ions) were detected; 521 were identified as differentially abundant between polygonal types and 217 were putatively annotated using high mass accuracy MS data. While polygon type was a strong predictor of LMW DOM composition and availability, vegetation and soil depth were also important drivers. Extensive evidence was found for enhanced microbial processing at the LCP sites, which were dominated by Carex plant species. We detected significant differences between polygon types with varying aboveground landscape features or properties, and hotspots of biogeochemical activity, indicating LMW DOM, as quantified by untargeted exometabolomics, provides a window into the dynamic complex interactions between landscape topography, vegetation, and organic matter cycling in Arctic polygonal tundra soils.

58 GEOSCIENCES↗