A rapid and accurate approach to identify single nucleotide polymorphisms of mitochondrial DNA using MALDI-TOF mass spectrometry

Background: Single nucleotide polymorphisms (SNPs) of mitochondrial DNA (mtDNA) are involved in physiological and pathological conditions. We developed a rapid, accurate, highly sensitive and high-throughput approach with low cost to identify mtDNA SNPs. Methods: Matrix-assisted laser desorption/ionization time-of-flight mass spectrometry (MALDI-TOF MS) was used to detect 18 SNPs of mtDNA by uniplex and multiplex assays. The sensitivity and specificity of the MALDI-TOF MS were evaluated. The accuracy of the approach was validated by the comparison of using the robust sequencing analysis. Results: The detection limit achieved with the assays corresponded to the identification of five-genome equivalence of mtDNA per reaction after first round PCR amplification. The testing system enabled the discrimination of as little as 5% of mtDNA polymorphism in the predominating background of mtDNA not containing the SNP. No false positive and false negative results were obtained using the uniplex and multiplex MALDI-TOF MS assays for the analysis of the 18 SNPs compared with those obtained by sequencing analysis. Conclusions: Possible fields which could benefit from this powerful and sensitive tool include forensic medicine, tracing of matrilineage, transplantation immunology, transfusion medicine, the diagnosis of mtDNA mutation related disorders, and the research regarding aging, apoptosis and carcinogenesis based on physiologic and pathogenic alterations of mtDNA for the analysis of large-scale samples, multiple SNPs or rare mtDNA. Clin Chem Lab Med 2008;46:299-30

Sulfur Mineralogy at the Mars Phoenix Landing Site

The Mars Phoenix Scout mission landed at the northernmost location (approx.68deg N) of any lander or rover on the martian surface. This paper compares the S mineralogy at the Phoenix landing site with S mineralogy of soils studied by previous Mars landers. S-bearing phases were not directly detected by the payload onboard the Phoenix spacecraft. Our objective is to derive the possible mineralogy of S-bearing phases at the Phoenix landing site based upon Phoenix measurements in combination with orbital measurements, terrestrial analog and Martian meteorite studies, and telescopic observations

Spectroscopic examinations of hydro- and glaciovolcanic basaltic tuffs: Modes of alteration and relevance for Mars

Hydro- and glaciovolcanism are processes that have taken place on both Earth and Mars. The amount of materials produced by these processes that are present in the martian surface layer is unknown, but may be substantial. We have used Mars rover analogue analysis techniques to examine altered tuff samples collected from multiple hydrovolcanic features, tuff rings and tuff cones, in the American west and from glaciovolcanic hyaloclastite ridges in Washington state and in Iceland. Analysis methods include VNIR-SWIR reflectance, MWIR thermal emissivity, thin section petrography, XRD, XRF, and Mössbauer spectroscopy. We distinguish three main types of tuff that differ prominently in petrography and VNIR-SWIR reflectance: minimally altered sideromelane tuff, gray to brown colored smectite-bearing tuff, and highly palagonitized tuff. Differences are also observed between the tuffs associated with hydrovolcanic tuff rings and tuff cones and those forming glaciovolcanic hyaloclastite ridges. For the locations sampled, hydrovolcanic palagonite tuffs are more smectite and zeolite rich while the palagonitized hyaloclastites from the sampled sites are largely devoid of zeolites and relatively lacking in smectites as well. The gray to brown colored tuffs are only observed in the hydrovolcanic deposits and appear to represent a distinct alteration pathway, with formation of smectites without associated palagonite formation. This is attributed to lower temperatures and possibly longer time scale alteration. Altered hydro- or glaciovolcanic materials might be recognized on the surface of Mars with rover-based instrumentation based on the results of this study

Flow Equations without Mean Field Ambiguity

We compare different methods used for non-perturbative calculations in strongly interacting fermionic systems. Mean field theory often shows a basic ambiguity related to the possibility to perform Fierz transformations. The results may then depend strongly on an unphysical parameter which reflects the choice of the mean field, thus limiting the reliability. This ambiguity is absent for Schwinger-Dyson equations or fermionic renormalization group equations. Also renormalization group equations in a partially bosonized setting can overcome the Fierz ambiguity if the truncation is chosen appropriately. This is reassuring since the partially bosonized renormalization group approach constitutes a very promising basis for the explicit treatment of condensates and spontaneous symmetry breaking even for situations where the bosonic correlation length is large.Comment: New version to match the one published in PRD. New title (former title: Solving Mean Field Ambiguity by Flow Equations), added section IX and appendix B. More explanations in the introduction and conclusions. 16 pages, 6 figures and 3 tables uses revtex

Multiwavelength Variability of Sagittarius A* in 2019 July

We report timing analysis of near-infrared (NIR), X-ray, and sub-millimeter (submm) data during a three-day coordinated campaign observing Sagittarius A*. Data were collected at 4.5 micron with the Spitzer Space Telescope, 2-8 keV with the Chandra X-ray Observatory, 3-70 keV with NuSTAR, 340 GHz with ALMA, and at 2.2 micron with the GRAVITY instrument on the Very Large Telescope Interferometer. Two dates show moderate variability with no significant lags between the submm and the infrared at 99% confidence. July 18 captured a moderately bright NIR flare (F_K ~ 15 mJy) simultaneous with an X-ray flare (F ~ 0.1 cts/s) that most likely preceded bright submm flux (F ~ 5.5 Jy) by about +34 (+14 -33) minutes at 99% confidence. The uncertainty in this lag is dominated by the fact that we did not observe the peak of the submm emission. A synchrotron source cooled through adiabatic expansion can describe a rise in the submm once the synchrotron-self-Compton NIR and X-ray peaks have faded. This model predicts high GHz and THz fluxes at the time of the NIR/X-ray peak and electron densities well above those implied from average accretion rates for Sgr A*. However, the higher electron density postulated in this scenario would be in agreement with the idea that 2019 was an extraordinary epoch with a heightened accretion rate. Since the NIR and X-ray peaks can also be fit by a non-thermal synchrotron source with lower electron densities, we cannot rule out an unrelated chance coincidence of this bright submm flare with the NIR/X-ray emission.Comment: Accepted for publication in The Astrophysical Journa

Dynamics of fluctuations in a fluid below the onset of Rayleigh-B\'enard convection

We present experimental data and their theoretical interpretation for the decay rates of temperature fluctuations in a thin layer of a fluid heated from below and confined between parallel horizontal plates. The measurements were made with the mean temperature of the layer corresponding to the critical isochore of sulfur hexafluoride above but near the critical point where fluctuations are exceptionally strong. They cover a wide range of temperature gradients below the onset of Rayleigh-B\'enard convection, and span wave numbers on both sides of the critical value for this onset. The decay rates were determined from experimental shadowgraph images of the fluctuations at several camera exposure times. We present a theoretical expression for an exposure-time-dependent structure factor which is needed for the data analysis. As the onset of convection is approached, the data reveal the critical slowing-down associated with the bifurcation. Theoretical predictions for the decay rates as a function of the wave number and temperature gradient are presented and compared with the experimental data. Quantitative agreement is obtained if allowance is made for some uncertainty in the small spacing between the plates, and when an empirical estimate is employed for the influence of symmetric deviations from the Oberbeck-Boussinesq approximation which are to be expected in a fluid with its density at the mean temperature located on the critical isochore.Comment: 13 pages, 10 figures, 52 reference

Estimating the age of domestic fowl (Gallus gallus domesticus L. 1758) cockerels through spur development

Determining the age of bird remains after the cessation of growth is challenging due to the absence of techniques such as tooth eruption and wear available for mammals. Without these techniques, it is difficult to reconstruct hunting strategies, husbandry regimes, and wider human–animal relationships. This paper presents a new method, developed from a collection (n = 71) of known-age specimens of domestic fowl (Gallus gallus domesticus L. 1758), for assessing age based on the fusion and size of the tarsometatarsal spur. Using this method, we reconstruct the demographics of domestic fowl from Iron Age to Early Modern sites in Britain to reveal the changing dynamics of human–domestic fowl relationships. We highlight the advanced age that cockerels often attained in their early history and how their life expectancies have subsequently declined

Magnetic Field Generation in Stars

Enormous progress has been made on observing stellar magnetism in stars from the main sequence through to compact objects. Recent data have thrown into sharper relief the vexed question of the origin of stellar magnetic fields, which remains one of the main unanswered questions in astrophysics. In this chapter we review recent work in this area of research. In particular, we look at the fossil field hypothesis which links magnetism in compact stars to magnetism in main sequence and pre-main sequence stars and we consider why its feasibility has now been questioned particularly in the context of highly magnetic white dwarfs. We also review the fossil versus dynamo debate in the context of neutron stars and the roles played by key physical processes such as buoyancy, helicity, and superfluid turbulence,in the generation and stability of neutron star fields. Independent information on the internal magnetic field of neutron stars will come from future gravitational wave detections. Thus we maybe at the dawn of a new era of exciting discoveries in compact star magnetism driven by the opening of a new, non-electromagnetic observational window. We also review recent advances in the theory and computation of magnetohydrodynamic turbulence as it applies to stellar magnetism and dynamo theory. These advances offer insight into the action of stellar dynamos as well as processes whichcontrol the diffusive magnetic flux transport in stars.Comment: 41 pages, 7 figures. Invited review chapter on on magnetic field generation in stars to appear in Space Science Reviews, Springe

Scale-free static and dynamical correlations in melts of monodisperse and Flory-distributed homopolymers: A review of recent bond-fluctuation model studies

It has been assumed until very recently that all long-range correlations are screened in three-dimensional melts of linear homopolymers on distances beyond the correlation length $\xi$ characterizing the decay of the density fluctuations. Summarizing simulation results obtained by means of a variant of the bond-fluctuation model with finite monomer excluded volume interactions and topology violating local and global Monte Carlo moves, we show that due to an interplay of the chain connectivity and the incompressibility constraint, both static and dynamical correlations arise on distances $r \gg \xi$. These correlations are scale-free and, surprisingly, do not depend explicitly on the compressibility of the solution. Both monodisperse and (essentially) Flory-distributed equilibrium polymers are considered.Comment: 60 pages, 49 figure

The PHENIX Experiment at RHIC

The physics emphases of the PHENIX collaboration and the design and current status of the PHENIX detector are discussed. The plan of the collaboration for making the most effective use of the available luminosity in the first years of RHIC operation is also presented.Comment: 5 pages, 1 figure. Further details of the PHENIX physics program available at http://www.rhic.bnl.gov/phenix