The effects of non-metabolizing bacterial cells on the precipitation of U, Pb and Ca phosphates

In this study, we test the potential for passive cell wall biomineralization by determining the effects of non-metabolizing bacteria on the precipitation of uranyl, lead, and calcium phosphates from a range of over-saturated conditions. Experiments were performed using Gram-positive Bacillus subtilis and Gram-negative Shewanella oneidensis MR-1. After equilibration, the aqueous phases were sampled and the remaining metal and P concentrations were analyzed using inductively coupled plasma-optical emission spectroscopy (ICP-OES); the solid phases were collected and analyzed using X-ray diffractometry (XRD), transmission electron microscopy (TEM), and X-ray absorption spectroscopy (XAS).At the lower degrees of over-saturation studied, bacterial cells exerted no discernable effect on the mode of precipitation of the metal phosphates, with homogeneous precipitation occurring exclusively. However, at higher saturation states in the U system, we observed heterogeneous mineralization and extensive nucleation of hydrogen uranyl phosphate (HUP) mineralization throughout the fabric of the bacterial cell walls. This mineral nucleation effect was observed in both B. subtilis and S. oneidensis cells. In both cases, the biogenic mineral precipitates formed under the higher saturation state conditions were significantly smaller than those that formed in the abiotic controls.The cell wall nucleation effects that occurred in some of the U systems were not observed under any of the saturation state conditions studied in the Pb or Ca systems. The presence of B. subtilis significantly decreased the extent of precipitation in the U system, but had little effect in the Pb and Ca systems. At least part of this effect is due to higher solubility of the nanoscale HUP precipitate relative to macroscopic HUP. This study documents several effects of non-metabolizing bacterial cells on the nature and extent of metal phosphate precipitation. Each of these effects likely contributes to higher metal mobilities in geologic media, but the effects are not universal, and occur only with some elements and only under a subset of the conditions studied.     

Predicting road system speeds using spatial structure variables and network characteristics

Spatial regression is applied to GPS floating car measurements to build a predictive model of road system speed as a function of link type, time period, and spatial structure. The models correct for correlated spatial errors and autocorrelation of speeds. Correlation neighborhoods are based on either Euclidean or network distance. Econometric and statistical methods are used to choose the best model form and statistical neighborhood. Models of different types have different coefficient estimates and fit quality, which might affect inferences. Speed predictions are validated against a holdout sample to illustrate the usefulness of spatial regression in road system speed monitoring.      

A nuanced quantile random forest approach for fast prediction of a stochastic marine flooding simulator applied to a macrotidal coastal site

Integrating full-process high resolution hydrodynamic simulations within early warning system (EWS) for marine flooding is hindered by the large computation time cost of such numerical models. This...     

Evidence for ground-rupturing earthquakes on the Northern Wadi Araba fault at the archaeological site of Qasr Tilah, Dead Sea Transform fault system, Jordan

The archaeological site of Qasr Tilah, in the Wadi Araba, Jordan is located on the northern Wadi Araba fault segment of the Dead Sea Transform. The site contains a Roman-period fort, a late Byzantine–Early Umayyad birkeh (water reservoir) and aqueduct, and agricultural fields. The birkeh and aqueduct are left-laterally offset by coseismic slip across the northern Wadi Araba fault. Using paleoseismic and archaeological evidence collected from a trench excavated across the fault zone, we identified evidence for four ground-rupturing earthquakes. Radiocarbon dating from key stratigraphic horizons and relative dating using potsherds constrains the dates of the four earthquakes from the sixth to the nineteenth centuries. Individual earthquakes were dated to the seventh, ninth and eleventh centuries. The fault strand that slipped during the most recent event (MRE) extends to just below the modern ground surface and juxtaposes alluvial-fan sediments that lack in datable material with the modern ground surface, thus preventing us from dating the MRE except to constrain the event to post-eleventh century. These data suggest that the historical earthquakes of 634 or 659/660, 873, 1068, and 1546 probably ruptured this fault segment.     

Laboratory estimates of normal and shear fracture compliance

Laboratory estimates of the normal (B_n) and shear (B_t) compliance of artificial fractures in samples of Jurassic and Carboniferous limestone under wet and dry conditions are presented. The experiments were performed over a range of confining pressures (from 5 MPa up to 60 MPa), at ultrasonic frequencies in a Triaxial Hoek cell, using the pulse‐echo reflection technique. The results of this study confirm that the B_n/B_t ratio of a fracture is dependent on the fluid fill. A value of B_n/ B_t of less than 0.05 was obtained for our wet (honey saturated) sample which is consistent with the prediction that this ratio should be close to zero for fluid saturated fractures. Values of B_n/B_t for the dry sample are significantly higher and increase with confining pressure from 0.2 to 0.5. It is suggested that a Bn/Bt ratio of 0.5 is probably a more representative value to use in modelling studies of gas filled fractures than the common assumption that Bn ≈ Bt.     

The geomorphic legacy of water and erosion control structures in a semiarid rangeland watershed

Control over water supply and distribution is critical for agriculture in drylands where manipulating surface runoff often serves the dual purpose of erosion control. However, little is known of the geomorphic impacts and legacy effects of rangeland water manipulation infrastructure, especially if not maintained. This study investigated the geomorphic impacts of structures such as earthen berms, water control gates, and stock tanks, in a semiarid rangeland in the southwestern USA that is responding to both regional channel incision that was initiated over a century ago, and a more recent land use change that involved cattle removal and abandonment of structures. The functional condition of remnant structures was inventoried, mapped, and assessed using aerial imagery and lidar data. Headcut initiation, scour, and channel incision associated with compromised lateral channel berms, concrete water control structures, floodplain water spreader berms, and stock tanks were identified as threats to floodplains and associated habitat. Almost half of 27 identified lateral channel berms (48%) have been breached and 15% have experienced lateral scour; 18% of 218 shorter water spreader berms have been breached and 17% have experienced lateral scour. A relatively small number of 117 stock tanks (6%) are identified as structurally compromised based on analysis of aerial imagery, although many currently do not provide consistent water supplies. In some cases, the onset of localized disturbance is recent enough that opportunities for mitigation can be identified to alter the potentially damaging erosion trajectories that are ultimately driven by regional geomorphic instability. Understanding the effects of prior land use and remnant structures on channel and floodplain morphologic condition is critical because both current land management and future land use options are constrained by inherited land use legacy effects. Published 2017. This article is a U.S. Government work and is in the public domain in the USA     

Excavation of subglacial bedrock channels by seasonal meltwater flow

Subglacial water flow drives the excavation of a variety of bedrock channels including tunnel valleys and inner gorges. Subglacial floods of various magnitudes – events occurring once per year or less frequently with discharges larger than a few hundred cubic metres per second – are often invoked to explain the erosive power of subglacial water flow. In this study we examine whether subglacial floods are necessary to carve bedrock channels, or if more frequent melt season events (e.g. daily production of meltwater) can explain the formation of substantial bedrock channels over a glacial cycle. We use a one‐dimensional numerical model of bedrock erosion by subglacial meltwater, where water flows through interacting distributed and channelized drainage systems. The shear stresses produced drive bedrock erosion by bed‐ and suspended‐load abrasion. We show that seasonal meltwater discharge can incise an incipient bedrock channel a few tens of centimetres deep and several metres wide, assuming abrasion is the only mechanism of erosion, a particle size of D=256 mm and a prescribed sediment supply per unit width. Using the same sediment characteristics, flood flows yield wider but significantly shallower bedrock channels than seasonal meltwater flows. Furthermore, the smaller the shear stresses produced by a flood, the deeper the bedrock channel. Shear stresses produced by seasonal meltwater are sufficient to readily transport boulders as bedload. Larger flows produce greater shear stresses and the sediment is carried in suspension, which produces fewer contacts with the bed and less erosion. We demonstrate that seasonal meltwater discharge can excavate bedrock volumes commensurate with channels several tens of metres to a few hundred metres wide and several tens of metres deep over several thousand years. Such simulated channels are commensurate with published observations of tunnel valleys and inner gorges. Copyright © 2018 John Wiley & Sons, Ltd.     

Past and future evolution in the Thames Estuary

In order to manage estuaries effectively, it is important to be able to predict how they are likely to change in the future, both to natural and anthropogenic forcing. This paper looks at historical morphological development of the Thames Estuary, taking into account the effect of human intervention, and uses the ASMITA morphological model to predict the long-term evolution of the estuary into the future, assuming either historic rates of sea-level rise or accelerated sea-level rise. The historical sediment budget for the Thames Estuary was examined and source and sink terms, including fluvial sediment supply and historical dredging rates, were included in the ASMITA model. ASMITA predictions showed good overall agreement with the historical data, highlighting the benefits of detailed historical review and the inclusion of anthropogenic effects in the model. Future ASMITA predictions for the period 2000 to 2100 suggest that, under both historical and accelerated sea-level rise scenarios, the estuary will experience accretion, but, for the accelerated sea-level rise scenario, accretion will be at a slower rate than sea level rise. With accelerated sea-level rise, intertidal profiles were predicted to be up to 0.5 m lower with respect to high water.     

A laboratory study of seismic velocity and attenuation anisotropy in near-surface sedimentary rocks

The laboratory ultrasonic pulse‐echo method was used to collect accurate P‐ and S‐wave velocity (±0.3%) and attenuation (±10%) data at differential pressures of 5–50 MPa on water‐saturated core samples of sandstone, limestone and siltstone that were cut parallel and perpendicular to the vertical borehole axis. The results, when expressed in terms of the P‐ and S‐wave velocity and attenuation anisotropy parameters for weakly transversely isotropic media (ɛ, γ, ɛ_Q, γ_Q) show complex variations with pressure and lithology. In general, attenuation anisotropy is stronger and more sensitive to pressure changes than velocity anisotropy, regardless of lithology. Anisotropy is greatest (over 20% for velocity, over 70% for attenuation) in rocks with visible clay/organic matter laminations in hand specimens. Pressure sensitivities are attributed to the opening of microcracks with decreasing pressure. Changes in magnitude of velocity and attenuation anisotropy with effective pressure show similar trends, although they can show different signs (positive or negative values of ɛ, ɛ_Q, γ, γ_Q). We conclude that attenuation anisotropy in particular could prove useful to seismic monitoring of reservoir pressure changes if frequency‐dependent effects can be quantified and modelled.     

The settling dynamics of flocculating mud and sand mixtures: part 2—numerical modelling

Estuarine and coastal sediment transport is characterised by the transport of both sand-sized particles (of diameter greater than 63?μm) and muddy fine-grained sediments (silt, diameter less than 63?μm; clay, diameter less than 2?μm). These fractions are traditionally considered as non-cohesive and cohesive, respectively, because of the negligible physico-chemical attraction that occurs between sand grains. However, the flocculation of sediment particles is not only caused by physico-chemical attraction. Cohesivity of sediment is also caused by biology, in particular the sticky extra-cellular polymeric substances secreted by diatoms, and the effect of biology in binding sediment particles can be much larger than that of physico-chemical attraction. As demonstrated by Manning (2008) and further expanded in part 1 of this paper (Manning et al., submitted), the greater binding effect of biology allows sand particles to flocculate with mud. In many estuaries, both the sand and fine sediment fractions are transported in significant quantities. Many of the more common sediment transport modelling suites now have the capability to combine mud and sand transport. However, in all of these modelling approaches, the modelling of mixed sediment transport has still essentially separated the modelling of sand and mud fractions assuming that these different fractions do not interact except at the bed. However, the use of in situ video techniques has greatly enhanced the accuracy and reliability of settling velocity measurements and has led to a re-appraisal of this widely held assumption. Measurements of settling velocity in mixed sands presented by Manning et al. (2009) have shown strong evidence for the flocculation of mixed sediments, whilst the greater understanding of the role of biology in flocculation has identified mechanisms by which this mud-sand flocculation can occur. In the first part of this paper (Manning et al., submitted), the development of an empirical flocculation model is described which represents the interaction between sand and mud particles in the flocculation process. Measurements of the settling velocity of varying mud-sand mixtures are described, and empirical algorithms governing the variation of settling velocity with turbulence, suspended sediment concentration and mud-sand content are derived. The second part of this paper continues the theme of examination of the effects of mud-sand interaction on flocculation. A 1DV mixed transport model is developed and used to reproduce the vertical transport of mixed sediment fractions. The 1DV model is used to reproduce the measured settling velocities in the laboratory experiments described in the part 1 paper and also to reproduce measurements of concentration of mixed sediments in the Outer Thames. In both modelling exercises, the model is run using the algorithms developed in part 1 and repeated using an assumption of no interaction between mud and sand in the flocculation process. The results of the modelling show a significant improvement in the ability of the 1DV to reproduce the observed sediment behaviour when the empirical equations are used. This represents further strong evidence of the interaction between sand and mud in the flocculation process.