The Impact of the Mode of Pheasant Hanging on the Biogenic Amine Concentration in Muscles

The aim of this study was to assess the impact of hanging position of hunted pheasant carcasses (secured by the head as compared to hanging position secured by the legs) on the biogenic amine concentration in the thigh and breast muscles. The carcasses of feathered game (Phasianus colchicus), left entirely untreated after hunting and placed in a storage space at a pre-set temperature of 7 °C for 21 days were used in the study. Samples of breast and thigh muscles were taken at regular weekly intervals. Measurement of biogenic amines (putrescine, cadaverine, tyramine, tryptamine, histamine, phenylethylamine) was based on high-performance liquid chromatography coupled with triple quadrupole tandem mass spectrometry. Higher biogenic amine concentrations were detected in the muscles (both breast and thigh) of pheasants hanging by their legs compared to pheasants hanging by their heads (no statistically significant difference in biogenic amine concentration between monitored groups was, however, established). Higher concentrations of biogenic amines were found in the thigh muscles compared to breast muscles in both monitored groups. The obtained results show, that hanging the carcasses of pheasants during storage by the head is more suitable method in term of biogenic amine concentration than storing carcasses hanging by the legs

Ab Initio Molecular Dynamics Approach to Quantitative Description of Ion Pairing in Water

Ion pairing of lithium and fluoride in water is described quantitatively using ab initio molecular dynamics simulations. We design a reliable computational protocol for evaluating the ion-ion potential of mean force using density functional based simulation methods. By comparison to classical molecular dynamics with empirical force fields we establish the statistical error of the procedure. We also check the accuracy of the electronic structure description by comparison to experimental structural data and to higher level calculations for model systems. The present approach not only points to deficiencies in force field calculations of potentials of mean force for difficult cases of high charge density ions like the aqueous lithium fluoride pair, but also allows extracting electronic information, such as the amount of charge transfer to solvent and its dependence on the ion-ion distance

Peptide salt bridge stability: From gas phase via microhydration to bulk water simulations

The salt bridge formation and stability in the terminated lysine-glutamate dipep- tide is investigated in water clusters of increasing size up to the limit of bulk water. Proton transfer dynamics between the acidic and basic side chains is described by DFT-based Born-Oppenheimer molecular dynamics simulations. While the desol- vated peptide prefers to be in its neutral state, already the addition of a single water molecule can trigger proton transfer from the glutamate side chain to the lysine side chain, leading to a zwitterionic salt bridge state. Upon adding more water molecules we find that stabilization of the zwitterionic state critically depends on the number of hydrogen bonds between side chain termini, the water molecules, and the peptidic backbone. Employing classical molecular dynamics simulations for larger clusters, we observed that the salt bridge is weakened upon additional hydration. Consequently, long-lived solvent shared ion pairs are observed for about 30 water molecules while solvent separated ion pairs are found when at least 40 or more water molecules hy- drate the dipeptide. These results have implications for the formation and stability of salt bridges at partially dehydrated surfaces of aqueous proteins

Use of Lignocellulosic Materials for PHA Production

Polyhydroxyalkanoates (PHAs) are very promising materials that might serve as an environmentally friendly alternative to petrochemical plastics. The main obstacle preventing PHAs from entering the market massively is the final cost of the polymer material, a significant portion of which is attributed to carbon substrate. Hence, the researchers have been intensively seeking cheap substrates for sustainable production of PHAs. Lignocellulose represents a very promising substrate for PHAs production – it is abundant, cheap, and it does not compete with human food chain. On the other hand, utilization of lignocellulose materials as substrates for biotechnological processes represents a challenge due to many factors, such as necessary hydrolysis of the biomass to yield fermentable sugars and presence of numerous antimicrobial agents. Therefore, this work summarizes recent advances in biotechnological conversion of lignocellulose materials into PHAs. The review not only deals with the process of fermentation, but it also considers different approaches of lignocellulose hydrolysis and detoxification

Dynamics of Electron Localization in Warm vs. Cold Water Clusters

The process of electron localization on a cluster of 32 water molecules at 20, 50, and 300~K is unraveled using ab initio molecular dynamics simulations. In warm, liquid clusters, the excess electron relaxes from an initial diffuse and weakly bound structure to an equilibrated, strongly bound species within 1.5 ps. In contrast, on cold, glassy clusters the relaxation processes is not completed and the electron becomes trapped in a metastable surface state with an intermediate binding energy. These results question the validity of extrapolations of the properties of solvated electrons from cold clusters of increasing size to the liquid bulk

Machine learning potentials for complex aqueous made

Simulation techniques based on accurate and efficient representations of potential energy surfaces are urgently needed for the understanding of complex systems such as solid–liquid interfaces. Here we present a machine learning framework that enables the efficient development and validation of models for complex aqueous systems. Instead of trying to deliver a globally optimal machine learning potential, we propose to develop models applicable to specific thermodynamic state points in a simple and user-friendly process. After an initial ab initio simulation, a machine learning potential is constructed with minimum human effort through a data-driven active learning protocol. Such models can afterward be applied in exhaustive simulations to provide reliable answers for the scientific question at hand or to systematically explore the thermal performance of ab initio methods. We showcase this methodology on a diverse set of aqueous systems comprising bulk water with different ions in solution, water on a titanium dioxide surface, and water confined in nanotubes and between molybdenum disulfide sheets. Highlighting the accuracy of our approach with respect to the underlying ab initio reference, the resulting models are evaluated in detail with an automated validation protocol that includes structural and dynamical properties and the precision of the force prediction of the models. Finally, we demonstrate the capabilities of our approach for the description of water on the rutile titanium dioxide (110) surface to analyze the structure and mobility of water on this surface. Such machine learning models provide a straightforward and uncomplicated but accurate extension of simulation time and length scales for complex systems

Chasing charge localization and chemical reactivity following photoionization in liquid water

The ultrafast dynamics of the cationic hole formed in bulk liquid water following ionization is investigated by ab initio molecular dynamics simulations and an experimentally accessible signature is suggested that might be tracked by femtosecond pump-probe spectroscopy. This is one of the fastest fundamental processes occurring in radiation-induced chemistry in aqueous systems and biological tissue. However, unlike the excess electron formed in the same process, the nature and time evolution of the cationic hole has been hitherto little studied. Simulations show that an initially partially delocalized cationic hole localizes within similar to 30 fs after which proton transfer to a neighboring water molecule proceeds practically immediately, leading to the formation of the OH radical and the hydronium cation in a reaction which can be formally written as H(2)O(+) + H(2)O -> OH + H(3)O(+). The exact amount of initial spin delocalization is, however, somewhat method dependent, being realistically described by approximate density functional theory methods corrected for the self-interaction error. Localization, and then the evolving separation of spin and charge, changes the electronic structure of the radical center. This is manifested in the spectrum of electronic excitations which is calculated for the ensemble of ab initio molecular dynamics trajectories using a quantum mechanics/molecular mechanics (QM/MM) formalism applying the equation of motion coupled-clusters method to the radical core. A clear spectroscopic signature is predicted by the theoretical model: as the hole transforms into a hydroxyl radical, a transient electronic absorption in the visible shifts to the blue, growing toward the near ultraviolet. Experimental evidence for this primary radiation-induced process is sought using femtosecond photoionization of liquid water excited with two photons at 11 eV. Transient absorption measurements carried out with similar to 40 fs time resolution and broadband spectral probing across the near-UV and visible are presented and direct comparisons with the theoretical simulations are made. Within the sensitivity and time resolution of the current measurement, a matching spectral signature is not detected. This result is used to place an upper limit on the absorption strength and/or lifetime of the localized H(2)O((aq))(+) species. (C) 2011 American Institute of Physics. doi:10.1063/1.3664746