Palaeoecology of corals and stromatoporoids in a late Silurian biostrome in Estonia

A middle Ludlow biostrome at Katri, western Estonia, the richest accumulation of corals and stromatoporoids in Estonia, is partly exposed in a coastal section ca. 1 m high, 150 m long. The fully marine biostrome consists of 5 layers of skeletal carbonate, grouped into Facies 1 (grainstone-packstone, layers 1, 3 & 5) and Facies 2 (wackestone, interbedded layers 2 & 4). Pressure solution degraded original sedimentary relationships and morphologies of stromatoporoids, tabulates and rugosans which constructed the biostrome, but the two facies have major faunal differences. Facies 1 is rich in stromatoporoids “Stromatopora” bekkeri and Plectostroma scaniense (low to high domical up to ca. 30 cm basal length); and tabulate Favosites forbesi (bulbous to high domical up to ca. 25 cm wide). In Facies 2, all three taxa are less common and much smaller. Instead, the most abundant stromatoporoid is laminar Syringostromella borealis up to 30 cm basal length; the most abundant coral is erect branching Laceripora cribrosa, as scattered fragments up to 24 cm long. Neither occurs in Facies 1. Six other stromatoporoid taxa, 5 other tabulate and 5 rugosan taxa occur uncommonly in the biostrome, mostly in both facies. The Katri biostrome is slightly younger than, but similar facies to, biostromes in the middle Ludlow Hemse Group on Gotland ca. 250 km WSW, with well-known stromatoporoid faunas. Corals are abundant in Hemse biostromes, but taxonomy awaits full study. Several key stromatoporoids occur in both the Hemse biostromes and Katri, but two abundant taxa in Hemse biostromes are absent in Katri and two tabulate corals abundant in Katri are missing in Hemse biostromes. Thus there was wide distribution of such biostromes in the central Baltic large shallow marine carbonate platform, but with previously unreported variable assemblages presumed due to facies features not recognised in the sediments

Non-equilibrium Green's function theory for non-adiabatic effects in quantum transport: inclusion of electron-electron interactions

Non-equilibrium Green's function theory for non-adiabatic effects in quantum transport [Kershaw and Kosov, J.Chem. Phys. 2017, 147, 224109 and J. Chem. Phys. 2018, 149, 044121] is extended to the case of interacting electrons. We consider a general problem of quantum transport of interacting electrons through a central region with dynamically changing geometry. The approach is based on the separation of time scales in the non-equilibrium Green's functions and the use of Wigner transformation to solve the Kadanoff-Baym equations. The Green's functions and correlation self-energy are non-adiabatically expanded up to the second order central time derivatives. We produced expressions for Green's functions with non-adiabatic corrections and modified formula for electric current; both depend not only on instantaneous molecular junction geometry but also on nuclear velocities and accelerations. The theory is illustrated by the study of electron transport through a model single-resonant level molecular junction with local electron-electron repulsion and a dynamically changing geometry

Nonadiabatic corrections to electric current in molecular junction due to nuclear motion at the molecule-electrode interfaces

We present quantum electron transport theory that incorporates dynamical effects of motion of atoms on electrode-molecule interfaces in the calculations of the electric current. The theory is based on non-equilibrium Green's functions. We separate time scales in the Green's functions on fast relative time and slow central time. The derivative with respect to the central time serves as a small parameter in the theory. We solve the real-time Kadanoff-Baym equations for molecular Green's functions using Wigner representation and keep terms up to the second order with respect to the central time derivatives. Molecular Green's functions and consequently the electric current are expressed as functions of molecular junction coordinates as well as velocities and accelerations of molecule-electrode interface nuclei. We apply the theory to model a molecular system and study the effects of non-adiabatic nuclear motion on molecular junction conductivity

Palaeobiology, ecology, and distribution of stromatoporoid faunas in biostromes of the mid-Ludlow of Gotland

Six well exposed mid−Ludlow stromatoporoid−dominated reef biostromes in four localities from the Hemse Group in southeastern Gotland, Sweden comprise a stromatoporoid assemblage dominated by four species; Clathrodictyon mohicanum, “Stromatopora” bekkeri, Plectostroma scaniense, and Lophiostroma schmidtii. All biostromes investigated in this area (of approximately 30 km2) are interpreted to belong to a single faunal assemblage forming a dense accumulation of fossils that is probably the best exposed stromatoporoid−rich deposit of the Silurian. The results from this comprehensive study strengthen earlier interpretations of a combination of genetic and environmental control on growth−forms of the stromatoporoids. Growth styles are similar for stromatoporoids in all six biostromes. Differences in biostrome fabric are due to variations in the degree of disturbance by storms. The uniformity of facies and the widespread low−diversity fauna support the view that palaeoenvironmental conditions were similar across the area where these biostromes crop out, and promoted the extraordinary growth of stromatoporoids in this shallow shelf area

The role of Virus "X" (Tortoise Picornavirus) in kidney disease and shell weakness syndrome in European tortoise species determined by experimental infection

Tortoise Picornavirus (ToPV) commonly known as Virus "X" was recently discovered in juvenile European tortoises suffering from soft carapace and plastron as well as kidney disease. Therefore, this virus was a potential candidate to be a causative agent for these disease patterns. Spur thighed tortoises (Testudo graeca) seemed to be more susceptible to establish clinical symptoms than other European species like T. hermanni. Thus this trial investigated the role of ToPV in the described syndrome. Two groups of juvenile European tortoises (T. graeca and T.hermanni) each of 10 animals, were cloacally, oronasally and intracoelomically inoculated with an infectious dose (~ 2000 TICD) of a ToPV strain isolated from a diseased T. graeca. A control group of two animals of each species received non-infected cell culture supernatant. The tortoises were examined daily and pharyngeal and cloacal swabs for detection of ToPV-RNA by RT-PCR were taken from each animal every six days for a period of 6 months. At the end of the study the remaining animals were euthanised and dissected. Bacteriological and parasitological tests were performed and organ samples of all tortoises were investigated by RT-PCR for the presence of ToPV and histopathology. Animals that were euthanised at the end of the experiment, were examined for presence of specific anti-ToPV antibodies. Several animals in both inoculated groups showed retarded growth and a light shell weakness, in comparison to the control animals. Three animals were euthanised during the trial, showing reduced weight gain, retarded growth, severe shell weakness and apathy, in parallel to clinical observations in naturally infected animals. In all inoculated animals of both species an intermittent virus shedding, starting from 18 days post inoculation (d.p.i.), till 164 d.p.i. was detected, while the control animals remained negative. The virus was successfully reisolated in terrapene heart cell culture in 16 of 20 inoculated animals of both species. Histopathology of most inoculated animals revealed a lack of bone remodeling and vacuolisation in kidney tubuli which supports the described pathogenesis of nephropathy and osteodystrophy. Anti- ToPV antibody titres ranged from 1:2 to >1:256 in 13 of 20 animals, whereas all control animals were seronegative. The study proofed the Henle Koch`s postulates of ToPV as causative agent for shell dystrophy and kidney disease in both testudo species. The proposed species specific sensitivity towards clinical disease was not observed

BOUNDARIES AND BREACHES: COMPLEXITIES AND STRATEGIES DOWN ON THE FARM

Employing a wide range of theoretical and methodological tools, practitioners within an array of disciplines have attempted to gain new understanding about the structural changes in the agricultural system in the United States and around the world. From Agricultural Economists to Sociologists, quantitative and qualitative research has attempted to shed light on structural change in agriculture and its implications for the real lives of farmers, their families, and consumers of their goods. The current research adopts a comparative-historical approach to examining the particular affects of structural change in six counties in central Nebraska. The general theoretical frame on which this project is based is Human Ecology, as developed by Robert E. Park. It examines the importance of four environmental orders, the natural-biological, the economic, the political, and the moral-cultural. In order to ameliorate some perceived problems with Park’s stance, including a level of rigidity, his model is modified through the use of the Marxian concept of “overdetermination,” which recognizes the complex relations among a range of social processes. Overdetermination is defined in terms of the recognition of the mutually constitutive nature of all social processes, with the character of each process determined by its relationships with all other social processes. Results suggest a very complex reality in which farmers and their families live in the 21st century. Relations were found among factors and processes both within and between Park’s environmental orders. Farm families have developed and deployed a wide range of strategies in response to structural change within each of the environmental orders. For example, some farmers invest in technology as a means to remain more competitive. Others choose production types that are more labor-intensive and less technologically based. Some farm family members seek off-farm employment or become involved in local political processes while others are involved in civic or religious organizations as a means of coping with the changes they have experienced. Social and geographic isolation impact the strategies adopted, as do natural conditions and processes, such as dominant soil type. Ultimately, this project, while it reveals a wealth of information, also raises many questions that can only be answered by the farm families themselves

Nonequilibrium Green's function theory for nonadiabatic effects in quantum electron transport

We develop nonequilibribrium Green's function based transport theory, which includes effects of nonadiabatic nuclear motion in the calculation of the electric current in molecular junctions. Our approach is based on the separation of slow and fast timescales in the equations of motion for the Green's functions by means of the Wigner representation. Time derivatives with respect to central time serves as a small parameter in the perturbative expansion enabling the computation of nonadiabatic corrections to molecular Green's functions. Consequently, we produce series of analytic expressions for non-adiabatic electronic Green's functions (up to the second order in the central time derivatives); which depend not solely on instantaneous molecular geometry but likewise on nuclear velocities and accelerations. Extended formula for electric current is derived which accounts for the non-adiabatic corrections. This theory is concisely illustrated by the calculations on a model molecular junction

Beef and cone-in-cone calcite fibrous cements associated with the end-Permian and end-Triassic mass extinctions: Reassessment of processes of formation

This paper is a contribution to IGCP630.This paper reassesses published interpretation that beef and cone-in-cone (B-CIC) fibrous calcite cement were precipitated contemporaneously just below the sea floor in unconsolidated sediment, in limestones associated with the end-Permian (P/T) and end-Triassic (T/J) mass extinctions. That interpretation introduced the concept of a sub-seafloor carbonate factory associated with ocean acidification by raised carbon dioxide driven by volcanic eruption, coinciding with mass extinction. However, our new fieldwork and petrographic analysis, with literature comparison, reveals several problems with this concept. Two key points based on evidence in the T/J transition of UK are: A) that B-CIC calcite deposits form thin scattered layers and lenses at several horizons, not a distinct deposit associated with volcanic activity; B) B-CIC calcite is more common in Early Jurassic sediments after the extinction and after the end of the Central Atlantic Magmatic Province volcanism proposd to have supplied the carbon dioxide required. Our samples from Late Triassic, Early Jurassic and Early Cretaceous limestones in southern UK show that B-CIC calcite occurs in both marine and non-marine sediments, therefore ocean processes are not mandatory for its formation. There is no proof that fibrous calcite was formed before lithification, but our Early Jurassic samples do prove fibrous calcite formed after compaction, thus interpretation of crystal growth in unconsolidated sediment is problematic. Furthermore, B-CIC crystals mostly grew both upwards and downwards equally, contradicting the interpretation of the novel carbonate factory that they grew preferentially upwards in soft sediment. Finally, Early Jurassic and Early Cretaceous examples are not associated with mass extinction. Three further key points derived from literature include: A) B-CIC calcite is widespread geographically and stratigraphically, not clustered around mass extinctions or the PETM event; B) isotope signatures suggest BCIC calcite formed under high pressure in burial at 70-120 oC, incompatible with interpretation of formation of B-CIC calcite at the redox boundary below the ocean floor; and C) B-CIC calcite reported in P/T boundary microbialites in one site in Iran is the only occurrence known despite extensive published studies of similar shallow marine settings, demonstrating its formation is localised to the Iran site. Based on the above evidence, our opinion is that B-CIC calcite is best explained as a later diagenetic feature unrelated to rapid Earth-surface environmental change associated with mass extinctions; thus a novel carbonate factory is highly unlikely

Colorectal Cancer Through Simulation and Experiment

Colorectal cancer has continued to generate a huge amount of research interest over several decades, forming a canonical example of tumourigenesis since its use in Fearon and Vogelstein’s linear model of genetic mutation. Over time, the field has witnessed a transition from solely experimental work to the inclusion of mathematical biology and computer-based modelling. The fusion of these disciplines has the potential to provide valuable insights into oncologic processes, but also presents the challenge of uniting many diverse perspectives. Furthermore, the cancer cell phenotype defined by the ‘Hallmarks of Cancer’ has been extended in recent times and provides an excellent basis for future research. We present a timely summary of the literature relating to colorectal cancer, addressing the traditional experimental findings, summarising the key mathematical and computational approaches, and emphasising the role of the Hallmarks in current and future developments. We conclude with a discussion of interdisciplinary work, outlining areas of experimental interest which would benefit from the insight that mathematical and computational modelling can provide