By design: The architecture of microbial redox cycling

The authors’ work on mine systems, combines field and laboratory integrated microbial geochemical investigation with high-resolution techniques enabling characterization and visualization at the bacterium scale (i.e. STXM). The results indicate a repeated motif of socially organized microbial cooperation occurring within microbial consortial macrostructures (pods). The pod structure directly enables the specific geochemical processes linked to the metabolic function of the consortial members. These microbially linked geochemical processes have important ramifications for bulk system geochemistry that were previously unknown. Results from two examples: (1) microbial metal interactions within AMD biofilms and (2) sulfur redox cycling by a novel consortia within mine waters, illustrate how the ecology of the pod consortia is linked to pod biogeochemical macrostructure as well as to the resulting geochemistry associated with pod metabolism. In both instances the pod structures enabled the associated consortia to carry out reactions not predicted by classic geochemical understanding of these systems. Investigation of AMD biofilm biogeochemical architecture capturing the micro-scale linkages amongst geochemical gradients, metal dynamics and depth resolved micro-organism community structure, illustrated a novel biomineralization process driven by biofilm associated pods controlling biofilm metal capture. Similarly, the groups’ recent discovery of an environmental S redox cycling, pod-forming, consortium revealed ecologically driven S cycling with previously unknown implications for both AMD mitigation and AMD carbon flux modeling. These results highlight how microbes cooperatively orchestrate their geochemical environment, underscoring the need to consider syntrophic community activity in environmental processes and the requirement for integrated, high-resolution techniques spanning geochemistry, molecular microbiology and imaging to reveal the biogeochemistry involved.     

Burial and degradation of organic carbon in Louisiana shelf/slope sediments

The primary focus of this paper is to better understand carbon burial on the Louisiana continental margin using spatial scales that covered various shelf depositional areas far-field and near-field (sediment and organic carbon inputs relative to river mouth proximity) and covering a variety of sedimentation rates. Box-cores samples were collected in July 2003; cores were collected along two depositional transects extending westward and southward from the Southwest Pass (SW Pass). A key difference between the two transects sampled in this study was the greater occurrence of mobile muds derived from spillover from shallower regions along the westward 50 m isobaths. The dominant mechanism for mixing in the surface active zone (SAZ) on the inner Louisiana shelf was due to physical, not biological, forces. Burial efficiencies for organic carbon (57.2–91.5%) and total nitrogen (44.2–86.9%) ranged widely across all shelf stations. Lower burial efficiencies for bulk organic carbon, total nitrogen, and pigment biomarkers were associated with mobile muds west of Southwest Pass. Chlorophyll a concentrations were significantly higher than pheopigments at depth at the Mississippi River and Southwest Pass stations, making up 40.4 and 77.4% of total pigment concentrations in the (SAZ) and 46.2 and 63.2% in the accumulation zone (AZ), respectively. These results are in agreement with earlier plant pigment studies which showed that a large fraction of the phytodetritus delivered to the inner shelf was derived from coastal and river diatoms. The amount of lignin preserved with depth decreased with increasing residence time in the SAZ and diagenetic zone (DZ) along the canyon transect but not along the western transect. Trends for lignin concentration followed previously identified surface sediment trends indicating overall lower burial of refractory terrestrial material at depth with greater distance offshore.     

The alignment of clusters using large-scale simulations

The alignment of clusters of galaxies with their nearest neighbours and between clusters within a supercluster is investigated using simulations of 512³ dark matter particles for ΛCDM and τ CDM cosmological models. Strongly significant alignments are found for separations of up to 15  h ⁻¹ Mpc in both cosmologies, but for the ΛCDM model the alignments extend up to separations of 30  h ⁻¹ Mpc. The effect is strongest for nearest neighbours, but is not significant enough to be useful as an observational discriminant between cosmologies. As a check of whether this difference in alignments is present in other cosmologies, smaller simulations with 256³ particles are investigated for four different cosmological models. Because of poor number statistics, only the standard CDM model shows indications of having different alignments from the other models.     

Climate Change Impacts for the Conterminous USA: An Integrated Assessment

Here we simulate dryland agriculture in the United States in order to assess potential future agricultural production under a set of general circulation model (GCM)-based climate change scenarios. The total national production of three major grain crops—corn, soybeans, and winter wheat—and two forage crops—alfalfa and clover hay—is calculated for the actual present day core production area (CPA) of each of these crops. In general, higher global mean temperature (GMT) reduces production and higher atmospheric carbon dioxide concentration ([CO₂]) increases production. Depending on the climatic change scenarios employed overall national production of the crops studied changes by up to plus or minus 25% from present-day levels. Impacts are more significant regionally, with crop production varying by greater than ±50% from baseline levels. Analysis of currently possible production areas (CPPAs) for each crop indicates that the regions most likely to be affected by climate change are those on the margins of the areas in which they are currently grown. Crop yield variability was found to be primarily influenced by local weather and geographic features rather than by large-scale changes in climate patterns and atmospheric composition. Future US agronomic potential will be significantly affected by the changes in climate projected here. The nature of the crop response will depend primarily on to what extent precipitation patterns change and also on the degree of warming experienced.     

Carbon isotope fractionation in phospholipid fatty acid biomarkers of bacteria and fungi native to an acid mine drainage lake

This study identifies isotope signatures associated with autotrophic and heterotrophic microbial communities that may provide a means to determine carbon cycling relationships in situ for acid mine drainage (AMD) sites. Stable carbon isotope ratios (δ¹³C) of carbon sources, bulk cells, and membrane phospholipids (PLFA) were measured for autotrophic and heterotrophic microbial enrichment cultures from a mine tailings impoundment in northern Ontario, Canada, and for pure strains of the sulfur oxidizing bacteria Acidithiobacillus ferrooxidans and Acidithiobacillus thiooxidans. The autotrophic enrichments had indistinguishable PLFA distributions from the pure cultures, and the PLFA cyc-C_19:0 was determined to be a unique biomarker in this system for these sulfur oxidizing bacteria. The PLFA distributions produced by the heterotrophic enrichments were distinct from the autotrophic distributions and the C_18:2 PLFA was identified as a biomarker for these heterotrophic enrichments. Genetic analysis (16S, 18S rRNA) of the heterotrophic cultures indicated that these communities were primarily composed of Acremonium fungi.Stable carbon isotope analysis revealed that bulk cellular material in all autotrophic cultures was depleted in δ¹³C by 5.6–10.9‰ relative to their atmospheric CO₂ derived carbon source, suggesting that inorganic carbon fixation in these cultures is carbon limited. Individual PLFA from these autotrophs were further depleted by 8.2–14.6‰ compared to the bulk cell δ¹³C, which are among the largest biosynthetic isotope fractionation factors between bulk cell and PLFA reported in the literature. In contrast, the heterotrophic bulk cells were not significantly fractionated in δ¹³C relative to their carbon source and heterotrophic PLFA ranged from 3‰ enriched to 4‰ depleted relative to the isotopic composition of their total biomass. These distinct PLFA biomarkers and isotopic fractionations associated with autotrophic and heterotrophic activity in this laboratory study provide potential biomarkers for delineating autotrophic and heterotrophic carbon cycling in AMD environments.     

Impact of stratospheric variability on tropospheric climate change

An improved stratospheric representation has been included in simulations with the Hadley Centre HadGEM1 coupled ocean atmosphere model with natural and anthropogenic forcings for the period 1979–2003. An improved stratospheric ozone dataset is employed that includes natural variations in ozone as well as the usual anthropogenic trends. In addition, in a second set of simulations the quasi biennial oscillation (QBO) of stratospheric equatorial zonal wind is also imposed using a relaxation towards ERA-40 zonal wind values. The resulting impact on tropospheric variability and trends is described. We show that the modelled cooling rate at the tropopause is enhanced by the improved ozone dataset and this improvement is even more marked when the QBO is also included. The same applies to warming trends in the upper tropical troposphere which are slightly reduced. Our stratospheric improvements produce a significant increase of internal variability but no change in the positive trend of annual mean global mean near-surface temperature. Warming rates are increased significantly over a large portion of the Arctic Ocean. The improved stratospheric representation, especially the QBO relaxation, causes a substantial reduction in near-surface temperature and precipitation response to the El Chichón eruption, especially in the tropical region. The winter increase in the phase of the northern annular mode observed in the aftermath of the two major recent volcanic eruptions is partly captured, especially after the El Chichón eruption. The positive trend in the southern annular mode (SAM) is increased and becomes statistically significant which demonstrates that the observed increase in the SAM is largely subject to internal variability in the stratosphere. The possible inclusion in simulations for future assessments of full ozone chemistry and a gravity wave scheme to internally generate a QBO is discussed.     

Land surface coupling in regional climate simulations of the West African monsoon

Coupling of the Community Land Model (CLM3) to the ICTP Regional Climate Model (RegCM3) substantially improves the simulation of mean climate over West Africa relative to an older version of RegCM3 coupled to the Biosphere Atmosphere Transfer Scheme (BATS). Two 10-year simulations (1992–2001) show that the seasonal timing and magnitude of mean monsoon precipitation more closely match observations when the new land surface scheme is implemented. Specifically, RegCM3–CLM3 improves the timing of the monsoon advance and retreat across the Guinean Coast, and reduces a positive precipitation bias in the Sahel and Northern Africa. As a result, simulated temperatures are higher, thereby reducing the negative temperature bias found in the Guinean Coast and Sahel in RegCM3–BATS. In the RegCM3–BATS simulation, warmer temperatures in northern latitudes and wetter soils near the coast create excessively strong temperature and moist static energy gradients, which shifts the African Easterly Jet further north than observed. In the RegCM3–CLM3 simulation, the migration and position of the African Easterly Jet more closely match reanalysis winds. This improvement is triggered by drier soil conditions in the RegCM3–CLM3 simulation and an increase in evapotranspiration per unit precipitation. These results indicate that atmosphere–land surface coupling has the ability to impact regional-scale circulation and precipitation in regions exhibiting strong hydroclimatic gradients.     

Canonical planetary perturbation equations for velocity-dependent forces,and the Lense-Thirring precession

A form of planetary perturbation theory based on canonical equations of motion, rather than on the use of osculating orbital elements, is developed and applied to several problems of interest. It is proved that, with appropriately selected initial conditions on the orbital elements, the two forms of perturbation theory give rise to identical predictions for the observable coordinates and velocities, while the orbital elements themselves may be strikingly different. Differences between the canonical form of perturbation theory and the classical Lagrange planetary perturbation equations are discussed. The canonical form of perturbation theory in some cases has advantages when the perturbing forces are velocity-dependent, but the two forms of perturbation theory are equivalent if the perturbing forces are dependent only on position and not on velocity. The canonical form of the planetary perturbation equations are derived and applied to the Lense Thirring precession of a test body in a Keplerian orbit around a rotating mass source.