Does Micro-CT scanning damage DNA in museum specimens?

X-ray micro-computed tomography and DNA sequencing are useful and increasingly common tools in taxonomy and collections research. Whilst the benefits of each method are continually evaluated and debated individually, how the methods impact each other requires more attention. We compared DNA fragment length and the barcode sequence CO1 in samples throughout a CT-scanning protocol, for a range of X-ray exposures and energies. We found no evidence of DNA damage, but advise caution when using precious or archival material, highlighting the need for further investigations and considering potential areas for research.NatSCA supports open access publication as part of its mission is to promote and support natural science collections. NatSCA uses the Creative Commons Attribution License (CCAL) http://creativecommons.org/licenses/by/2.5/ for all works we publish. Under CCAL authors retain ownership of the copyright for their article, but authors allow anyone to download, reuse, reprint, modify, distribute, and/or copy articles in NatSCA publications, so long as the original authors and source are cited. The attached file is the published version of the article

Differences in clinicopathologic variables between Borrelia C6 antigen seroreactive and Borrelia C6 seronegative glomerulopathy in dogs.

BackgroundRapidly progressive glomerulonephritis has been described in dogs that seroreact to Borrelia burgdorferi, but no studies have compared clinicopathologic differences in Lyme-seroreactive dogs with protein-losing nephropathy (PLN) versus dogs with Borrelia-seronegative PLN.Hypothesis/objectivesDogs with Borrelia C6 antigen-seroreactive PLN have distinct clinicopathologic findings when compared to dogs with Borrelia seronegative PLN.AnimalsForty dogs with PLN and Borrelia C6 antigen seroreactivity and 78 C6-seronegative temporally matched dogs with PLN.MethodsRetrospective prevalence case-control study. Clinical information was retrieved from records of dogs examined at the University of California, Davis, Veterinary Medical Teaching Hospital. Histopathologic findings in renal tissue procured by biopsy or necropsy of dogs with PLN were reviewed.ResultsRetrievers and retriever mixes were overrepresented in seroreactive dogs (P < .001). Seroreactive dogs were more likely to have thrombocytopenia (P < .001), azotemia (P = .002), hyperphosphatemia (P < .001), anemia (P < .001), and neutrophilia (P = .003). Hematuria, glucosuria, and pyuria despite negative urine culture were more likely in seroreactive dogs (all P ≤ .002). Histopathologic findings were consistent with immune-complex glomerulonephritis in 16 of 16 case dogs and 7 of 23 control dogs (P = 006). Prevalence of polyarthritis was not different between groups (P = .17).Conclusions and clinical importanceC6 seroreactivity in dogs with PLN is associated with a clinicopathologically distinct syndrome when compared with other types of PLN. Early recognition of this syndrome has the potential to improve outcomes through specific aggressive and early treatment

Excitation spectrum of bosons in a finite one-dimensional circular waveguide via the Bethe ansatz

The exactly solvable Lieb-Liniger model of interacting bosons in one-dimension has attracted renewed interest as current experiments with ultra-cold atoms begin to probe this regime. Here we numerically solve the equations arising from the Bethe ansatz solution for the exact many-body wave function in a finite-size system of up to twenty particles for attractive interactions. We discuss the novel features of the solutions, and how they deviate from the well-known string solutions [H. B. Thacker, Rev. Mod. Phys.\ \textbf{53}, 253 (1981)] at finite densities. We present excited state string solutions in the limit of strong interactions and discuss their physical interpretation, as well as the characteristics of the quantum phase transition that occurs as a function of interaction strength in the mean-field limit. Finally we compare our results to those of exact diagonalization of the many-body Hamiltonian in a truncated basis. We also present excited state solutions and the excitation spectrum for the repulsive 1D Bose gas on a ring.Comment: 13 pages, 12 figure

Fair game: exploring the dynamics, perception and environmental impact of ‘surplus’ wild foods in England 10kya-present

This paper brings together zooarchaeological data from Neolithic to Post-medieval sites in England to explore the plasticity of cultural attitudes to the consumption of wild animals. It shows how, through time, game has been considered variously as ‘tabooed’ and ‘edible’, each having implications for patterns of biodiversity and wildlife management. The essential points being made are that deeper-time studies can reveal how human perceptions of ‘surplus foods’ have the potential to both create and remedy problems of environmental sustainability and food security. Perhaps more significantly, this paper argues that understanding the bio-cultural past of edible wild animal species has the potential to transform human attitudes to game in the present. This is important at a time when food security and the production of surplus are pressing national and global concerns

Spatial nonlocal pair correlations in a repulsive 1D Bose gas

We analytically calculate the spatial nonlocal pair correlation function for an interacting uniform 1D Bose gas at finite temperature and propose an experimental method to measure nonlocal correlations. Our results span six different physical realms, including the weakly and strongly interacting regimes. We show explicitly that the characteristic correlation lengths are given by one of four length scales: the thermal de Broglie wavelength, the mean interparticle separation, the healing length, or the phase coherence length. In all regimes, we identify the profound role of interactions and find that under certain conditions the pair correlation may develop a global maximum at a finite interparticle separation due to the competition between repulsive interactions and thermal effects.Comment: Final published version, modified titl

Site Percolation and Phase Transitions in Two Dimensions

The properties of the pure-site clusters of spin models, i.e. the clusters which are obtained by joining nearest-neighbour spins of the same sign, are here investigated. In the Ising model in two dimensions it is known that such clusters undergo a percolation transition exactly at the critical point. We show that this result is valid for a wide class of bidimensional systems undergoing a continuous magnetization transition. We provide numerical evidence for discrete as well as for continuous spin models, including SU(N) lattice gauge theories. The critical percolation exponents do not coincide with the ones of the thermal transition, but they are the same for models belonging to the same universality class.Comment: 8 pages, 6 figures, 2 tables. Numerical part developed; figures, references and comments adde

Exact solutions to the four Goldstone modes around a dark soliton of the nonlinear Schroedinger equation

This article is concerned with the linearisation around a dark soliton solution of the nonlinear Schr\"odinger equation. Crucially, we present analytic expressions for the four linearly-independent zero eigenvalue solutions (also known as Goldstone modes) to the linearised problem. These solutions are then used to construct a Greens matrix which gives the first-order spatial response due to some perturbation. Finally we apply this Greens matrix to find the correction to the dark-soliton wavefunction of a Bose-Einstein condensate in the presence of fluctuations.Comment: 14 pages, 3 figures, submitted to Journal of Physics