ALBERT

Description: The Taupo Volcanic Zone (TVZ) is one of the world's most productive regions of rhyolitic volcanism and contains the highly active Okataina Volcanic Centre (OVC). Within the TVZ, intra-arc extension is expressed as normal faulting within a zone known as the Taupo Rift. The OVC is located within a complex part of the rift, where volcanism and deformation is considered influenced by rift structure and kinematics. There has been significant research on the structural, volcanic and geophysical properties of the rift and OVC, but less focus on deformation using geodetic data. The limited studies that have utilized geodetic data do not clearly resolve the distribution of deformation and strain rates within the rift and OVC. This is essential to ensure that deformation signals from volcanic processes at the OVC are correctly identified and distinguished from those related to regional tectonic or local hydrothermal processes within the rift. In this paper, we present a picture of contemporary deformation at the OVC and within the surrounding rift in detail, using existing and new GPS campaign and continuous GPS (cGPS) data collected between 1998 and 2011. The results show a highly heterogeneous deformation and strain rate field (both extension and shortening) through the study area, partitioned into different parts of the rift. Our results agree well with earlier geodetic studies, as well as identify new features, but some deformation patterns conflict with long-term geological observations. In the OVC, we observe a locally rotated horizontal velocity field, significant vertical deformation and variable strain rates across the caldera. In the Tarawera Rift, we identify elevated extension and shear rates, which may have significant implications for volcanism there. A shortening pattern is identified through the central rift, which is unexpected in an intra-arc rifting environment. We attempt to explain the source/s of shortening and extension and discuss their implications for geodetic monitoring efforts in the OVC.

Description: The mechanical damage characteristics of sandstone subjected to cyclic loading is very significant to evaluate the stability and safety of deep excavation damage zones. However to date, there are very few triaxial experimental studies of sandstone under cyclic loading. Moreover, few X-ray micro-computed tomography (micro-CT) observations have been adopted to reveal the damage mechanism of sandstone under triaxial cyclic loading. Therefore, in this research, a series of triaxial cyclic loading tests and X-ray micro-CT observations were conducted to analyse the mechanical damage characteristics of sandstone with respect to different confining pressures. The results indicated that at lower confining pressures, the triaxial strength of sandstone specimens under cyclic loading is higher than that under monotonic loading; whereas at confining pressures above 20 MPa, the triaxial strength of sandstone under cyclic loading is approximately equal to that under monotonic loading. With the increase of cycle number, the crack damage threshold of sandstone first increases, and then significantly decreases and finally remains constant. Based on the damage evolution of irreversible deformation, it appears that the axial damage value of sandstone is all higher than the radial damage value before the peak strength; whereas the radial damage value is higher than the axial damage value after the peak strength. The evolution of Young's modulus and Poisson's ratio of sandstone can be characterized as having four stages: (i) Stage I: material strengthening; (ii) Stage II: material degradation; (iii) Stage III: material failure and (iv) Stage IV: structure slippage. X-ray micro-CT observations demonstrated that the CT scanning surface images of sandstone specimens are consistent with actual surface crack photographs. The analysis of the cross-sections of sandstone supports that the system of crack planes under triaxial cyclic loading is much more complicated than that under triaxial monotonic loading. More axial and lateral tensile cracks were observed in the specimens under cyclic loading than under monotonic loading.

Description: Joint analysis of the seismic velocities and geoid, gravity and gravity gradients are used to constrain the viscosity profile within the mantle as well as the lateral density variations. Recent ESA's Gravity field and steady-state Ocean Circulation Explorer measurements of the second-order derivatives of the Earth's gravity potential give new possibilities to determine these mantle properties. Using a simple mantle model and seismic tomography results, we investigate how the gravitational potential, the three components of the gravity vector and the gravity gradients can bring information on the radial viscosity profile and on the mantle mass anomalies. We start with lateral density variations in the Earth's mantle based either on slab history or deduced from seismic tomography. The main uncertainties are: for the latter case, the relationship between seismic velocity and density—the so-called density/velocity scaling factor—and for the former case, the variation with depth of the density contrast between the cold slabs and the surrounding mantle. We perform a Monte Carlo search for the viscosity and the density/velocity scaling factor profiles within the mantle, which allows to fit the observed geoid, gravity and gradients of gravity. We compute the posterior probability distribution of the unknown parameters, and find that the gravity gradients improve the estimate of the scaling factor within the upper mantle, because of their sensitivity to the masses within the upper mantle, whereas the geoid and the gravity better constrain the scaling factor in the lower mantle. In the upper mantle, it is less than 0.02 in the upper part and about 0.08–0.14 in the lower part, and it is significantly larger for depths greater than 1200 km (about 0.32–0.34). In any case, the density/velocity scaling factor between 670 and 1150 km depth is not well constrained. We show that the viscosity of the upper part of the mantle is strongly correlated with the viscosity of the lower part of the mantle and that the viscosity profile is characterized by a decrease in the lower part of the upper mantle (about 10 20 –2  x  10 20 Pa s) and by an increase (about 10 23 –2  x  10 23 Pa s) at the top of the lower mantle (between 670 and 1150 km). The viscosity of the mantle below 1150 km depth is well estimated in our Monte Carlo search and is about 10 22 –4  x  10 22 Pa s.

Description: X-ray crystallography provides excellent structural data on protein–DNA interfaces, but crystallographic complexes typically contain only small fragments of large DNA molecules. We present a new approach that can use longer DNA substrates and reveal new protein–DNA interactions even in extensively studied systems. Our approach combines rigid-body computational docking with hydrogen/deuterium exchange mass spectrometry (DXMS). DXMS identifies solvent-exposed protein surfaces; docking is used to create a 3-dimensional model of the protein–DNA interaction. We investigated the enzyme uracil-DNA glycosylase (UNG), which detects and cleaves uracil from DNA. UNG was incubated with a 30 bp DNA fragment containing a single uracil, giving the complex with the abasic DNA product. Compared with free UNG, the UNG–DNA complex showed increased solvent protection at the UNG active site and at two regions outside the active site: residues 210–220 and 251–264. Computational docking also identified these two DNA-binding surfaces, but neither shows DNA contact in UNG–DNA crystallographic structures. Our results can be explained by separation of the two DNA strands on one side of the active site. These non-sequence-specific DNA-binding surfaces may aid local uracil search, contribute to binding the abasic DNA product and help present the DNA product to APE-1, the next enzyme on the DNA-repair pathway.

Description: Relative sea level curves contain coupled information about absolute sea level change and vertical lithospheric movement. Such curves may be constructed based on, for example tide gauge data for the most recent times and different types of geological data for ancient times. Correct account for vertical lithospheric movement is essential for estimation of reliable values of absolute sea level change from relative sea level data and vise versa. For modern times, estimates of vertical lithospheric movement may be constrained by data (e.g. GPS-based measurements), which are independent from the relative sea level data. Similar independent data do not exist for ancient times. The purpose of this study is to test two simple inversion approaches for simultaneous estimation of lithospheric uplift rates and absolute sea level change rates for ancient times in areas where a dense coverage of relative sea level data exists and well-constrained average lithospheric movement values are known from, for example glacial isostatic adjustment (GIA) models. The inversion approaches are tested and used for simultaneous estimation of lithospheric uplift rates and absolute sea level change rates in southwest Scandinavia from modern relative sea level data series that cover the period from 1900 to 2000. In both approaches, a priori information is required to solve the inverse problem. A priori information about the average vertical lithospheric movement in the area of interest is critical for the quality of the obtained results. The two tested inversion schemes result in estimated absolute sea level rise of ~1.2/1.3 mm yr –1 and vertical uplift rates ranging from approximately –1.4/–1.2 mm yr –1 (subsidence) to about 5.0/5.2 mm yr –1 if an a priori value of 1 mm yr –1 is used for the vertical lithospheric movement throughout the study area. In case the studied time interval is broken into two time intervals (before and after 1970), absolute sea level rise values of ~0.8/1.2 mm yr –1 (before 1970) and ~2.0 mm yr –1 (after 1970) are found. The uplift patterns resulting from the different inversions suggest that the lithospheric post-GIA response changes near the border between the Danish Basin and the Fennoscandian Shield. The obtained patterns of vertical lithospheric movement rates are comparable to results from other studies based on different and similar data types. Main differences between the inversion results and the results from other studies are caused by factors such as the simplifications included in the inversion approach, such as neglecting local sea level variation caused by the dominant wind patterns, and the a priori values chosen for the vertical uplift rates. The tests of the inversion schemes reveal that realistic values of absolute sea level rise and lithospheric uplift may be simultaneously estimated provided that reliable prior knowledge regarding the overall lithospheric uplift in the study area is available beforehand. In the presented parametrizations, only one absolute sea level change rate value is estimated for each studied time interval while several vertical movement rates are found, and the inverse estimate of absolute sea level change rate is practically insensitive with respect to the choice of a priori value of absolute sea level change, as long as the uncertainty assigned to this a priori value is kept sufficiently high.

Description: The Pyrenean mountain range is a slowly deforming belt with continuous and moderate seismic activity. To quantify its deformation field, we present the velocity field estimated from a GPS survey of the Pyrenees spanning 18 yr. The PotSis and ResPyr networks, including a total of 85 GPS sites, were installed and first measured in 1992 and 1995–1997, respectively, and remeasured in 2008 and 2010. We obtain a deformation field with velocities less than 1 mm yr –1 across the range. The estimated velocities for individual stations do not differ significantly from zero with 95 per cent confidence. Even so, we estimate a maximum extensional horizontal strain rate of 2.0 ± 1.7 nanostrain per year in a N–S direction in the western part of the range. We do not interpret the vertical displacements due to their large uncertainties. In order to compare the horizontal strain rates with the seismic activity, we analyse a set of 194 focal mechanisms using three methods: (i) the ‘r’ factor relating their P and T axes, (ii) the stress tensors obtained by fault slip inversion and (iii) the strain-rate tensors. Stress and strain-rate tensors are estimated for: (i) the whole data set, (ii) the eastern and western parts of the range separately, and (iii) eight zones, which are defined based on the seismicity and the tectonic patterns of the Pyrenees. Each of these analyses reveals a lateral variation of the deformation style from compression and extension in the east to extension and strike-slip in the west of the range. Although the horizontal components of the strain-rate tensors estimated from the seismic data are slightly smaller in magnitude than those computed from the GPS velocity field, they are consistent within the 2 uncertainties. Furthermore, the orientations of their principal axes agree with the mapped active faults.

Description: The Himalaya is the result of the on-going convergence and collision of India and Asia. The internal configuration and processes that govern the rise of the Himalayan Mountains and Tibetan Plateau are crucial to understand continental collision zones. However, knowledge of the prior configuration of the colliding plates is equally important, since inherited (pre-orogenic/basement) structures can undeniably influence the development of the orogenic architecture throughout the orogen's cycle of collision and eventual collapse. Three northeast-trending palaeotopographic ridges of faulted Precambrian Indian basement underlie the Ganga basin south of the Himalaya. Our paper illustrates a crustal-scale fault origin for these ridges and succeeds in determining how far north beneath the Himalayan system they extend and how they ultimately govern the location of upper crustal faults in southern Tibet. Spectrally filtered EGM2008 Bouguer gravity data and edges in its horizontal gradient at different source depths (‘gravity worms’) over northern Peninsular India, the Himalaya and southern Tibet reveal several continuous Himalayan cross-strike discontinuities interpreted to represent crustal faults. Gravity lineaments in Peninsular India coincide with edges of the Precambrian basement ridges and megakinks up to 100 km wide develop in foreland cover sequences between the interpreted basement faults. The interpreted basement faults project northward beneath the Himalayan system and southern Tibet. Our results suggest that several active Himalayan cross-strike faults, such as the ones related to many graben in southern Tibet, are rooted in the underplated Indian lower crust or step en échelon along interpreted basement faults. Our interpretation thus suggests that south Tibet graben are spatially related to deep-seated crustal-scale faults rooted in the underplated Indian crust. These major discontinuities partition the Himalayan range into distinct zones, and could ultimately contribute to lateral variability in tectonic evolution along the orogen's strike.

Description: We demonstrate a single DNA molecule optical mapping assay able to resolve a specific Escherichia coli strain from other strains. The assay is based on competitive binding of the fluorescent dye YOYO-1 and the AT-specific antibiotic netropsin. The optical map is visualized by stretching the DNA molecules in nanofluidic channels. We optimize the experimental conditions to obtain reproducible barcodes containing as much information as possible. We implement a multi-ligand transfer matrix method for calculating theoretical barcodes from known DNA sequences. Our method extends previous theoretical approaches for competitive binding of two types of ligands to many types of ligands and introduces a recursive approach that allows long barcodes to be calculated with standard computer floating point formats. The identification of a specific E . coli strain (CCUG 10979) is based on mapping of 50–160 kilobasepair experimental DNA fragments onto the theoretical genome using the developed theory. Our identification protocol introduces two theoretical constructs: a P -value for a best experiment-theory match and an information score threshold. The developed methods provide a novel optical mapping toolbox for identification of bacterial species and strains. The protocol does not require cultivation of bacteria or DNA amplification, which allows for ultra-fast identification of bacterial pathogens.

Description: Natural gas is an extremely important bridge fuel to a low-carbon energy economy for improving local air quality. Coal to synthetic natural gas (SNG) is an effective way to convert the high-carbon energy (coal) into the low-carbon energy with rich hydrogen (natural gas). For the modern coal to SNG industry, the high-temperature methanation (HTM) catalyst plays an important role, and the advanced evaluation process should necessitate the elimination of mass transfer effect. Some simple but effective model catalysts, such as slab and sphere, can be very helpful in defining the reaction conditions, and thus facilitating the evaluation process for real HTM catalysts. In this work, slab and sphere model catalysts were adopted to derive mass transfer and reaction-coupled equations, the numerical methods were used to solve the coupled equations for the concentration profiles in catalysts, and the effectiveness factors were accordingly calculated. By taking advantage of the Thiele module and the Weisz–Prater module , the criteria for the elimination of mass transfer effect in the HTM catalyst evaluation process were successfully defined. This work also complements the Weisz–Prater criterion by incorporating ‘negative reaction orders’.

Description: The energy expended for conditioning buildings around the world is worryingly large and increasing every year. Currently, almost half of houses around the world use some type of energy-expensive conventional air-conditioning system. These systems are high emitters of gases such as carbon dioxide and so high contributors to climate change. Consequently, alternatives must be considered. Earth–air heat exchangers (EAHEs) and phase-change materials (PCMs) may be options; they have, however, limitations. This paper proposes a novel hybrid space-conditioning system combining EAHEs with PCMs, which uses surfaces as sources of heating or cooling to provide better temperature distribution across a space and comfort enhancement with low energy use. The idea is to use an EAHE to provide cool air to discharge the PCM, consequently helping to overcome most of the limitations of both strategies. Two of a series of experiments undertaken to test the proposed system are reported in this article. The EAHE + PCM system compared with a reference room could decrease temperature swings by up to 47%. The system was proved to work although further work is required to make it commercially viable.