Chemical signatures of the Anthropocene in the Clyde Estuary, UK: sediment hosted Pb, 207/206 Pb, Total Petroleum Hydrocarbons (TPH), Polyaromatic Hydrocarbon (PAH) and Polychlorinated Bipheny (PCB) pollution records

The sediment concentrations of total petroleum hydrocarbons (TPHs), polyaromatic hydrocarbons (PAHs), polychlorinated biphenyls (PCBs), Pb and 207/206Pb isotope ratios were measured in seven cores from the middle Clyde estuary (Scotland, UK) with an aim of tracking the late Anthropocene. Concentrations of TPHs ranged from 34 to 4386 mg kg−1, total PAHs from 19 to 16 163 μg kg−1 and total PCBs between less than 4.3 to 1217 μg kg−1. Inventories, distributions and isomeric ratios of the organic pollutants were used to reconstruct pollutant histories. Pre-Industrial Revolution and modern non-polluted sediments were characterized by low TPH and PAH values as well as high relative abundance of biogenic-sourced phenanthrene and naphthalene. The increasing industrialization of the Clyde gave rise to elevated PAH concentrations and PAH isomeric ratios characteristic of both grass/wood/coal and petroleum and combustion (specifically petroleum combustion). Overall, PAHs had the longest history of any of the organic contaminants. Increasing TPH concentrations and a concomitant decline in PAHs mirrored the lessening of coal use and increasing reliance on petroleum fuels from about the 1950s. Thereafter, declining hydrocarbon pollution was followed by the onset (1950s), peak (1965–1977) and decline (post-1980s) in total PCB concentrations. Lead concentrations ranged from 6 to 631 mg kg−1, while 207/206Pb isotope ratios spanned 0.838–0.876, indicative of various proportions of ‘background’, British ore/coal and Broken Hill type petrol/industrial lead. A chronology was established using published Pb isotope data for aerosol-derived Pb and applied to the cores

Baryon Decuplet to Octet Electromagnetic Transitions in Quenched and Partially Quenched Chiral Perturbation Theory

We calculate baryon decuplet to octet electromagnetic transition form factors in quenched and partially quenched chiral perturbation theory. We work in the isospin limit of SU(3) flavor, up to next-to-leading order in the chiral expansion, and to leading order in the heavy baryon expansion. Our results are necessary for proper extrapolation of lattice calculations of these transitions. We also derive expressions for the case of SU(2) flavor away from the isospin limit.Comment: 16 pages, 3 figures, revtex

Hadronic Electromagnetic Properties at Finite Lattice Spacing

Electromagnetic properties of the octet mesons as well as the octet and decuplet baryons are augmented in quenched and partially quenched chiral perturbation theory to include O(a) corrections due to lattice discretization. We present the results for the SU(3) flavor group in the isospin limit as well as the results for SU(2) flavor with non-degenerate quarks. These corrections will be useful for extrapolation of lattice calculations using Wilson valence and sea quarks, as well as calculations using Wilson sea quarks and Ginsparg-Wilson valence quarks.Comment: 19 pages, 0 figures, RevTeX

Impact Assesment of ionising Radiation on Wildlife

This is the Impact Assessment of ionising Radiation on Wildlife document produced by the Environment Agency in 2001. This report describes the behaviour and transport of radionuclides in the environment, considers the impact of ionising radiation on wildlife, and makes recommendations on an approach for the Impact assessment of ionising radiation on wildlife for England and Wales. The assessment approach focuses on three ecosystems representative of those considered potentially most at risk from the impact of authorised radioactive discharges, namely a coastal grassland (terrestrial ecosystem); estuarine and freshwater ecosystems. The likely scale of the impact on wildlife is also assessed in light of a preliminary analysis based on this assessment approach. The report demonstrates the behaviour and transfer of radionuclides in a number of different ecosystem types. Particular emphasis is placed on exposure pathways in those ecosystems most likely to be impacted by the authorised discharges of radioactivity within England and Wales. The use of biomarker techniques is reviewed in the report, and their application to the study of exposure to multiple contaminants is discussed

Axial-flexural coupled vibration and buckling of composite beams using sinusoidal shear deformation theory

A finite element model based on sinusoidal shear deformation theory is developed to study vibration and buckling analysis of composite beams with arbitrary lay-ups. This theory satisfies the zero traction boundary conditions on the top and bottom surfaces of beam without using shear correction factors. Besides, it has strong similarity with Euler–Bernoulli beam theory in some aspects such as governing equations, boundary conditions, and stress resultant expressions. By using Hamilton’s principle, governing equations of motion are derived. A displacement-based one-dimensional finite element model is developed to solve the problem. Numerical results for cross-ply and angle-ply composite beams are obtained as special cases and are compared with other solutions available in the literature. A variety of parametric studies are conducted to demonstrate the effect of fiber orientation and modulus ratio on the natural frequencies, critical buckling loads, and load-frequency curves as well as corresponding mode shapes of composite beams

A comparison of terrestrial laser scanning and structure-from-motion photogrammetry as methods for digital outcrop acquisition

Terrestrial laser scanning (TLS) has been used extensively in Earth Science for acquisition of digital outcrop data over the past decade. Structure-from-­motion (SfM) photogrammetry has recently emerged as an alternative and competing technology. The real-world performance of these technologies for ground-based digital outcrop acquisition is assessed using outcrops from North East England and the United Arab Emirates. Both TLS and SfM are via­ble methods, although no single technology is universally best suited to all situations. There are a range of practical considerations and operating conditions where each method has clear advantages. In comparison to TLS, SfM benefits from being lighter, more compact, cheaper, more easily replaced and repaired, with lower power requirements. TLS in comparison to SfM provides intrinsically validated data and more robust data acquisition in a wide range of operating conditions. Data post-processing is also swifter. The SfM data sets were found to contain systematic inaccuracies when compared to their TLS counterparts. These inaccuracies are related to the triangulation approach of the SfM, which is distinct from the time-of-flight principle employed by TLS. An elaborate approach is required for SfM to produce comparable results to TLS under most circumstances

Would Functional Agricultural Foods Improve Human Health?

Concern over diet-health relationships has moved to the forefront of public health concerns in the UK and much of the developed world. It has been estimated, for example, that obesity costs the UK National Health Service up to £6b per year (Rayner and Scarborough, 2005), but if all consumers were to follow recommended healthy eating guidelines there would be major implications for food consumption, land use and international trade (Srinivasan et al, 2006). This is unlikely to happen, at least in the short term, but it is realistic to anticipate some dietary adjustment toward the recommendations, resulting in an improvement in diet quality (Mazzocchi et al, 2007). Although consumers are reluctant to make major changes to their diets, they may be prepared to substitute existing foods for healthier alternatives. Three of the most prominent nutritional recommendations are to consume more fruit and vegetables, which contain phytochemicals beneficial to health, reduce consumption of saturated fatty acids (SFA) and increase intake of long-chain n-3 fatty acids (FA). In the first case, consumption of fruit and vegetables has been stable at around three 80 g portions per person per day according to the Health Survey for England. It is estimated that 42,200 deaths per year could be avoided in England and 411,000 Quality Adjusted Life Years (QALYs) could be saved if fruit and vegetable consumption were increased to the recommended 5 portions per day (Ofcom 2006). As well as continuing to encourage people to eat more, it could be desirable to ‘intensify’ the beneficial phytochemical content of existing fruit and vegetables.Agribusiness, Agricultural and Food Policy, Farm Management, Food Consumption/Nutrition/Food Safety, Industrial Organization,

A User‐Friendly Workbook to Facilitate Rapid and Accurate Rare Earth Element Analyses by ICP‐MS for Multispiked Samples

The rare earth elements (REEs) are widely used as geochemical tracers in the earth, planetary, and ocean sciences. Inductively coupled plasma‐mass spectrometry (ICP‐MS) has become the method of choice to analyze REE concentrations because it can rapidly measure the entire REE spectrum at the same time. This Technical Report presents a user‐friendly "REE Calculation Workbook" in Microsoft Excel to be used for calculating REE abundances in samples equilibrated with a multielement REE spike. This Workbook can be conveniently used to calculate REE concentrations in natural samples for spiked and unspiked elements measured by ICP‐MS. For the spiked elements, their concentrations are calculated using isotope dilution equations. Using these spiked elements as references, concentrations of the four mono‐isotopic REE elements, and other REE elements that are treated as mono‐isotopic elements (in our case, La and Lu), can be calculated. The REE Workbook can be easily set up for use with different REE spikes. Evaluation of our analytical quality using a quadrupole ICP‐MS on 10‐ml‐sized seawater samples shows that our analyses are comparable to high‐precision thermal ionization mass spectrometry (TIMS) studies, with much less time spent processing and analyzing, and with the added advantages of determining mono‐isotopic elements. An important result is the clear demonstration of enrichments in Gd and Er compared to neighboring elements in seawater samples. In addition, we compare and evaluate commonly used reference standards BCR‐1, Post‐Archean Australian Shale (PAAS), and North American Shale Composite (NASC)

Chiral Analysis of Quenched Baryon Masses

We extend to quenched QCD an earlier investigation of the chiral structure of the masses of the nucleon and the delta in lattice simulations of full QCD. Even after including the meson-loop self-energies which give rise to the leading and next-to-leading non-analytic behaviour (and hence the most rapid variation in the region of light quark mass), we find surprisingly little curvature in the quenched case. Replacing these meson-loop self-energies by the corresponding terms in full QCD yields a remarkable level of agreement with the results of the full QCD simulations. This comparison leads to a very good understanding of the origins of the mass splitting between these baryons.Comment: 23 pages, 6 figure

Virus expression detection reveals RNA-sequencing contamination in TCGA

Background: Contamination of reagents and cross contamination across samples is a long-recognized issue in molecular biology laboratories. While often innocuous, contamination can lead to inaccurate results. Cantalupo et al., for example, found HeLa-derived human papillomavirus 18 (H-HPV18) in several of The Cancer Genome Atlas (TCGA) RNA-sequencing samples. This work motivated us to assess a greater number of samples and determine the origin of possible contaminations using viral sequences. To detect viruses with high specificity, we developed the publicly available workflow, VirDetect, that detects virus and laboratory vector sequences in RNA-seq samples. We applied VirDetect to 9143 RNA-seq samples sequenced at one TCGA sequencing center (28/33 cancer types) over 5 years. Results: We confirmed that H-HPV18 was present in many samples and determined that viral transcripts from H-HPV18 significantly co-occurred with those from xenotropic mouse leukemia virus-related virus (XMRV). Using laboratory metadata and viral transcription, we determined that the likely contaminant was a pool of cell lines known as the "common reference", which was sequenced alongside TCGA RNA-seq samples as a control to monitor quality across technology transitions (i.e. microarray to GAII to HiSeq), and to link RNA-seq to previous generation microarrays that standardly used the "common reference". One of the cell lines in the pool was a laboratory isolate of MCF-7, which we discovered was infected with XMRV; another constituent of the pool was likely HeLa cells. Conclusions: Altogether, this indicates a multi-step contamination process. First, MCF-7 was infected with an XMRV. Second, this infected cell line was added to a pool of cell lines, which contained HeLa. Finally, RNA from this pool of cell lines contaminated several TCGA tumor samples most-likely during library construction. Thus, these human tumors with H-HPV or XMRV reads were likely not infected with H-HPV 18 or XMRV