Human footprints provide snapshot of last interglacial ecology in the Arabian interior

The nature of human dispersals out of Africa has remained elusive because of the poor resolution of paleoecological data in direct association with remains of the earliest non-African people. Here, we report hominin and non-hominin mammalian tracks from an ancient lake deposit in the Arabian Peninsula, dated within the last interglacial. The findings, it is argued, likely represent the oldest securely dated evidence for Homo sapiens in Arabia. The paleoecological evidence indicates a well-watered semi-arid grassland setting during human movements into the Nefud Desert of Saudi Arabia. We conclude that visitation to the lake was transient, likely serving as a place to drink and to forage, and that late Pleistocene human and mammalian migrations and landscape use patterns in Arabia were inexorably linked.

A New Standard DNA Damage (SDD) Data Format

Our understanding of radiation-induced cellular damage has greatly improved over the past few decades. Despite this progress, there are still many obstacles to fully understand how radiation interacts with biologically relevant cellular components, such as DNA, to cause observable end points such as cell killing. Damage in DNA is identified as a major route of cell killing. One hurdle when modeling biological effects is the difficulty in directly comparing results generated by members of different research groups. Multiple Monte Carlo codes have been developed to simulate damage induction at the DNA scale, while at the same time various groups have developed models that describe DNA repair processes with varying levels of detail. These repair models are intrinsically linked to the damage model employed in their development, making it difficult to disentangle systematic effects in either part of the modeling chain. These modeling chains typically consist of track-structure Monte Carlo simulations of the physical interactions creating direct damages to DNA, followed by simulations of the production and initial reactions of chemical species causing so-called "indirect" damages. After the induction of DNA damage, DNA repair models combine the simulated damage patterns with biological models to determine the biological consequences of the damage. To date, the effect of the environment, such as molecular oxygen (normoxic vs. hypoxic), has been poorly considered. We propose a new standard DNA damage (SDD) data format to unify the interface between the simulation of damage induction in DNA and the biological modeling of DNA repair processes, and introduce the effect of the environment (molecular oxygen or other compounds) as a flexible parameter. Such a standard greatly facilitates inter-model comparisons, providing an ideal environment to tease out model assumptions and identify persistent, underlying mechanisms. Through inter-model comparisons, this unified standard has the potential to greatly advance our understanding of the underlying mechanisms of radiation-induced DNA damage and the resulting observable biological effects when radiation parameters and/or environmental conditions change.

Geant4-DNA example applications for track structure simulations in liquid water: A report from the Geant4-DNA Project

This Special Report presents a description of Geant4-DNA user applications dedicated to the simulation of track structures (TS) in liquid water and associated physical quantities (e.g., range, stopping power, mean free path…). These example applications are included in the Geant4 Monte Carlo toolkit and are available in open access. Each application is described and comparisons to recent international recommendations are shown (e.g., ICRU, MIRD), when available. The influence of physics models available in Geant4-DNA for the simulation of electron interactions in liquid water is discussed. Thanks to these applications, the authors show that the most recent sets of physics models available in Geant4-DNA (the so-called "option4" and "option 6" sets) enable more accurate simulation of stopping powers, dose point kernels, and W-values in liquid water, than the default set of models ("option 2") initially provided in Geant4-DNA. They also serve as reference applications for Geant4-DNA users interested in TS simulations.

Numerical insight into the Dual Radiation Action Theory

This work studies the first and second order mechanisms for the induction of lethal lesions in DNA after irradiation with protons and α-particles. The purpose is to numerically study the mechanisms behind the Dual Radiation Action Theory (DRAT) for these heavy particles. A genetic material geometrical model with atomic resolution is used. It accounts for the explicit position of 5.47 × 10⁹ base pairs, organized up to the chromatin level. The GEANT4-DNA Monte Carlo code was employed to simulate the interaction of these ions with the genetic material model. The number of lethal lesions induced by one- and two-track mechanisms was determined as a function of dose. Values of the α/β ratio were estimated as well as corresponding relative biological effectiveness (RBE). The number of lethal lesions produced by one-track and two-track mechanisms depends on the dose and squared dose, respectively, as predicted by the DRAT. RBE values consistent with experimental results were found, at least for LET below ∼100 keV/μm. Double strand break spatial distributions are qualitatively analyzed. According to this work, the α parameter determined from cellular surviving curves depends on both the physical α and β parameters introduced here, and on the specific energy deposited by a single track into the region of interest. We found an increment of the β parameter with LET, yet at a slower rate than α so that the α/β ratio increases with LET. In addition, we observed and explained the saturation of the α parameter as the dose increases above ∼6 Gy.

Carbon ion fragmentation effects on the nanometric level behind the Bragg peak depth

In this study, fragmentation yields of carbon therapy beams are estimated using the Geant4 simulation toolkit version 9.5. Simulations are carried out in a step-by-step mode using the Geant4-DNA processes for each of the major contributing fragments. The energy of the initial beam is taken 400 MeV amu(-1) as this is the highest energy, which is used for medical accelerators and this would show the integral role of secondary contributions in radiotherapy irradiations. The obtained results showed that 64% of the global dose deposition is initiated by carbon ions, while up to 36% is initiated by the produced fragments including all their isotopes. The energy deposition clustering yields of each of the simulated fragments are then estimated using the DBSCAN clustering algorithm and they are compared to the yields of the incident primary beam.

Two deep evolutionary lineages in the circumtropical glasseye Heteropriacanthus cruentatus (Teleostei, Priacanthidae) with admixture in the south-western Indian Ocean

A phylogeographic study of the circumtropical glasseye Heteropriacanthus cruentatus was conducted. Molecular analyses indicate two mitochondrial cytochrome c oxidase subunit I (coI) lineages that are 10·4% divergent: one in the western Atlantic (Caribbean) and another that was detected across the Indo-Pacific. A fixed single nucleotide polymorphism (SNP) was detected at a nuclear locus (S7 ribosomal protein) and is consistent with this finding. There is evidence of recent dispersal from the Atlantic to the Indian Ocean with individuals of mixed lineages detected in South Africa and the Mozambique Channel. Using coalescent analyses of the mitochondrial dataset, time of divergence between lineages was estimated to be c. 15·3 million years. The deep divergence between these two lineages indicates distinct evolutionary units, however, due to the lack of morphological differences and evidence of hybridization between lineages, taxonomic revision is not suggested at this time.

Long-term sperm storage in the brownbanded bamboo shark Chiloscyllium punctatum

This study investigated the birth of a brownbanded bamboo shark Chiloscyllium punctatum at the Steinhart Aquarium. Genetic analyses suggest this is the longest documented case of sperm storage for any species of shark (45 months).

Experimental and Monte Carlo-simulated spectra of standard mammography-quality beams

A spectrometric study of standard mammography-quality beams by using experimental and Monte Carlo simulation methods was carried out in this work. The qualities of these beams are described according to the International Electrotechical Commission 61267 standard and the Technical Report Series 457 International Atomic Energy Agency report. Specifically, the non-attenuated RQR-M beam series was studied.

METHODS

A Si-PIN diode-based spectrometer and the PENELOPE Monte Carlo code (v. 2008F1) were used for experiments and simulations, respectively. In addition, an ionization chamber was used to determine the half-value layers (HVLs) of each beam quality. The measurements were done in the mammography dosimeter calibration setup of our laboratory, and the Monte Carlo simulations reproduced such conditions.

RESULTS

The relative differences between the HVLs calculated from experimental and simulated spectra were lower than 2.4% for all the beam qualities studied. These differences are 1.2% and 3.1% when comparing the HVLs calculated from the experimental and simulated spectra to those determined by using the ionization chamber, respectively. A semi-empirical relation was found to obtain the nominal tube potential from the effective tube potential.

CONCLUSION

According to our results, the mammography beams used in this work have energy spectra similar to clinical beams.

Evaluation of the mean energy deposit during the impact of charged particles on liquid water

The DNA strand break yield due to the impact of ionizing particles on living beings is closely related to the number of inelastic events per unit absorbed dose produced by these particles. The higher this number, the higher the probability of causing DNA strand breaks per unit absorbed dose. In a previous work, it was found that the total number of events produced by primary particles and the secondary electrons is almost independent of the type and energy of the incident particle (or LET). This finding could be supported by a quasi-constant mean energy deposit by inelastic event (ε). In this work, ε was defined and determined for electrons and the non-negative charge states of hydrogen (H⁰,⁺) and helium (He⁰,⁺,²⁺) species impacting on liquid water. Ionization, excitation and charge transfer (up to two-electron transfers) processes have been included in present calculations. We found that, for liquid water, ε is within 13.7 ± 4.1 eV, 14.2 ± 1.7 eV and 13.8 ± 1.4 eV for electrons, hydrogen and helium species, respectively, with impact energies changing over three orders of magnitude. Unlike the mean excitation energy, the mean energy deposit per inelastic event depends not only on the target molecule but also on the projectile features. However, this dependence is relatively weak. This fact supports the quasi-independent number of inelastic events per unit absorbed dose found previously when charged particles impact on matter.

Comparison of GEANT4 very low energy cross section models with experimental data in water

PURPOSE

The GEANT4 general-purpose Monte Carlo simulation toolkit is able to simulate physical interaction processes of electrons, hydrogen and helium atoms with charge states (H0, H+) and (He0, He+, He2+), respectively, in liquid water, the main component of biological systems, down to the electron volt regime and the submicrometer scale, providing GEANT4 users with the so-called "GEANT4-DNA" physics models suitable for microdosimetry simulation applications. The corresponding software has been recently re-engineered in order to provide GEANT4 users with a coherent and unique approach to the simulation of electromagnetic interactions within the GEANT4 toolkit framework (since GEANT4 version 9.3 beta). This work presents a quantitative comparison of these physics models with a collection of experimental data in water collected from the literature.

METHODS

An evaluation of the closeness between the total and differential cross section models available in the GEANT4 toolkit for microdosimetry and experimental reference data is performed using a dedicated statistical toolkit that includes the Kolmogorov-Smirnov statistical test. The authors used experimental data acquired in water vapor as direct measurements in the liquid phase are not yet available in the literature. Comparisons with several recommendations are also presented.

RESULTS

The authors have assessed the compatibility of experimental data with GEANT4 microdosimetry models by means of quantitative methods. The results show that microdosimetric measurements in liquid water are necessary to assess quantitatively the validity of the software implementation for the liquid water phase. Nevertheless, a comparison with existing experimental data in water vapor provides a qualitative appreciation of the plausibility of the simulation models. The existing reference data themselves should undergo a critical interpretation and selection, as some of the series exhibit significant deviations from each other.

CONCLUSIONS

The GEANT4-DNA physics models available in the GEANT4 toolkit have been compared in this article to available experimental data in the water vapor phase as well as to several published recommendations on the mass stopping power. These models represent a first step in the extension of the GEANT4 Monte Carlo toolkit to the simulation of biological effects of ionizing radiation.

An investigation on the capabilities of the PENELOPE MC code in nanodosimetry

The Monte Carlo (MC) method has been widely implemented in studies of radiation effects on human genetic material. Most of these works have used specific-purpose MC codes to simulate radiation transport in condensed media. PENELOPE is one of the general-purpose MC codes that has been used in many applications related to radiation dosimetry. Based on the fact that PENELOPE can carry out event-by-event coupled electron-photon transport simulations following these particles down to energies of the order of few tens of eV, we have decided to investigate the capacities of this code in the field of nanodosimetry. Single and double strand break probabilities due to the direct impact of gamma rays originated from Co60 and Cs137 isotopes and characteristic x-rays, from Al and C K-shells, have been determined by use of PENELOPE. Indirect damage has not been accounted for in this study. A human genetic material geometrical model has been developed, taking into account five organizational levels. In an article by Friedland et al. [Radiat. Environ. Biophys. 38, 39-47 (1999)], a specific-purpose MC code and a very sophisticated DNA geometrical model were used. We have chosen that work as a reference to compare our results. Single and double strand-break probabilities obtained here underestimate those reported by Friedland and co-workers by 20%-76% and 50%-60%, respectively. However, we obtain RBE values for Cs137, AlK and CK radiations in agreement with those reported in previous works [Radiat. Environ. Biophys. 38, 39-47 (1999)] and [Phys. Med. Biol. 53, 233-244 (2008)]. Some enhancements can be incorporated into the PENELOPE code to improve its results in the nanodosimetry field.

Urinary excretion of trace elements in humans after sodium 2,3-dimercaptopropane-1-sulfonate challenge test

OBJECTIVE

To evaluate the effects of intravenous sodium 2,3-dimercaptopropane-1-sulfonate (DMPS, Dimaval) on urinary excretion of essential trace elements in subjects who received this chelating agent as a mercury challenge test.

SUBJECTS

Eleven subjects sought medical attention due to concern with the toxicity of mercury released from dental amalgam fillings.

DESIGN

The subjects were given DMPS 3 mg/kg intravenously. Spot urine samples were collected 1 hour before and 1 hour after the DMPS dose for laboratory analysis. In addition to mercury, the urinary excretion of copper, zinc, selenium, magnesium, manganese, molybdenum, chromium, cobalt, and aluminum were measured.

RESULTS

A significant increase in urinary excretion of mercury (3- to 107-fold) was observed after the DMPS dose. The DMPS treatment led to a 2- to 119-fold increase in copper excretion; 3- to 43.8-fold in selenium excretion; 1.6- to 44-fold in zinc excretion; and 1.75- to 42.7-fold in magnesium excretion. The excretion of manganese, chromium, cobalt, aluminium, and molybdenum remained unchanged.

CONCLUSIONS

In this study, an intravenous DMPS challenge test produced a significant increase in mercury excretion and also led to an increased excretion of copper, selenium, zinc, and magnesium.

Fruit development in Capsicum annuum: changes in capsaicin, lignin, free phenolics, and peroxidase patterns

Pepper fruits, of Capsicum annuum cv. Padron, undergo changes in content of capsaicinoids, lignin, and free phenolics during the maturation process. Although capsaicinoids increase with development, the maximal levels of free phenolics and lignin are observed during the early stages of development. A decrease of peroxidase activity was observed during maturation, and this was related with a decrease in other physiological parameters studied, namely chlorophylls and pH. Subcellular fractionation studies reveal that most peroxidase activity is localized in the soluble fraction throughout development. The changes in the peroxidase activity were accompanied by changes in the different isoenzymes. Acidic isoenzymes increased whereas the basic isoenzymes decreased over the same period, and the changes in these isoenzymes were related with capsaicin metabolism.

[Asymptomatic cholelithiasis: indications for cholecystectomy based on the levels of acute phase proteins]

Prophylactic cholecystectomy for asymptomatic gallstones is still controversial. Aim of the study was to assess whether the determination of serum acute phase proteins (APP) could be utilized as a criterion for cholecystectomy, as they are suggestive of the presence in the blood of cytokines released from the inflamed gallbladder wall, even when clinical signs are missing. In 75 cases of gallstones, free from other coexistent inflammatory processes, red cell sedimentation rate, plasmatic cortisol, immunoglobulin (IgA, IgG, IgM), electrophoresis of the proteins, CPR, fibrinogen, haptoglobin, alfa-1-antitrypsin and bile culture have been detected. The patients have been subdivided into two groups: patients with asymptomatic or mildly symptomatic disease and patients with a clear clinical pattern of acute cholecystitis. In the latter alfa-1-globulin, alfa-2-globulin, ESR, CPR and cortisol turned out to be significantly elevated, while in 20-30% of the former CPR, beta-globulin and cortisol were increased, too. The study demonstrates that among the patients with asymptomatic gallstones there is a population having PFA values higher than normal. This is suggestive of a cytokines activation which, when other inflammatory processes can be excluded, is likely due to gallbladder inflammation and surgery will likely be indicated.

[Embryonic quality in the use of urofolitropin vs recombinant FSH for in vitro fertilization]

There were no differences in both groups as tho the age of the patients; received doses of both types of FSH, nor HMG; but there was as to the amount of captured ovocytes, amount, and quality, embrionary, in special 1+ 2+ in favor of the group that received urofolitropine, specially under 35 years of age. In this study there was better qualy and amount, embrionary, obtained with the use of urofolitropine, as compared with FSH recombinant for in vitro fertilization.

[Apparent heterogeneous distribution of progesterone receptors in certain cases of endometrial carcinoma]

The progesterone receptor contents in the cytosol of two of three samples of same tumor was measured in 19 cases of endometrial cancer. The receptor concentration in one sample of each tumor was calculated by Scatchard analysis of specific binding data; in the other, one or two samples of each tumor, the receptor concentration was calculated by using a single point. All tumors did have receptors at least in one of the two or three samples. Ten tumors showed certain consistency in the receptor content in the two or three samples. On the other hand, a striking variability in the receptor content between the two or three samples of each of the remaining tumors was found, ranging from zero to several hundred femtomoles/mg of protein. In seven cases, follow-up was possible during 66 months, and the response to progestagen treatment was independent from the progesterone-receptor content. Our results suggest that the analysis of a single site of a tumor would reveal values that might not be representative of the tumor and, furthermore, it would explain, at least partially, the uncertain response to progestagen therapy that has been frequently described.

Purification of a basic peroxidase isoenzyme from Capsicum fruits and the immunoinhibition of its capsaicin oxidation capacity by antibodies raised against horseradish peroxidase

Pepper fruits contain a peroxidase isoenzyme of basic pI, the peroxidase isoenzyme B6, located in vacuoles and the principal component of peroxidase polymorphism in the whole fruit. This isoenzyme was purified by preparative isoelectric focusing in glycerol-stabilized 3.0-10.0 pH gradients and characterized for its ability to oxidize capsaicin (8-methyl-N-vanillyl-6-nonenamide). Spectrophotometric studies illustrated that the capsaicin oxidation by pepper peroxidase isoenzyme B6 was H2O2-dependent and was totally abolished by antibodies raised against horseradish peroxidase. From these studies, it can be concluded that capsaicin is oxidized by pepper peroxidase isoenzyme B6, thus confirming a role for this peroxidase isoenzyme in capsaicin turnover and degradation.

[Tuberculous myocarditis. Presentation of a case and review of the literature]

We report a case of a 22 year-old drug addict man with overt heart failure and cardiomegaly. The patient had no prior history of tuberculosis and not clinical features to suggest this diagnosis. Tuberculosis myocarditis was found at the necropsy. It is important to point out the frequency of this pathology, the uncommon clinical presentation of this case; as well as the lack of immunologic response to the tuberculous bacillus.