Bacterial Indicators Are Ubiquitous Members of Pelagic Microbiome in Anthropogenically Impacted Coastal Ecosystem.

Coastal zones are exposed to various anthropogenic impacts, such as different types of wastewater pollution, e.g., treated wastewater discharges, leakage from sewage systems, and agricultural and urban runoff. These various inputs can introduce allochthonous organic matter and microbes, including pathogens, into the coastal marine environment. The presence of fecal bacterial indicators in the coastal environment is usually monitored using traditional culture-based methods that, however, fail to detect their uncultured representatives. We have conducted a year-around in situ survey of the pelagic microbiome of the dynamic coastal ecosystem, subjected to different anthropogenic pressures to depict the seasonal and spatial dynamics of traditional and alternative fecal bacterial indicators. To provide an insight into the environmental conditions under which bacterial indicators thrive, a suite of environmental factors and bacterial community dynamics were analyzed concurrently. Analyses of 16S rRNA amplicon sequences revealed that the coastal microbiome was primarily structured by seasonal changes regardless of the distance from the wastewater pollution sources. On the other hand, fecal bacterial indicators were not affected by seasons and accounted for up to 34% of the sequence proportion for a given sample. Even more so, traditional fecal indicator bacteria (Enterobacteriaceae) and alternative wastewater-associated bacteria (Lachnospiraceae, Ruminococcaceae, Arcobacteraceae, Pseudomonadaceae and Vibrionaceae) were part of the core coastal microbiome, i.e., present at all sampling stations. Microbial source tracking and Lagrangian particle tracking, which we employed to assess the potential pollution source, revealed the importance of riverine water as a vector for transmission of allochthonous microbes into the marine system. Further phylogenetic analysis showed that the Arcobacteraceae in our data set was affiliated with the pathogenic Arcobacter cryaerophilus, suggesting that a potential exposure risk for bacterial pathogens in anthropogenically impacted coastal zones remains. We emphasize that molecular analyses combined with statistical and oceanographic models may provide new insights for environmental health assessment and reveal the potential source and presence of microbial indicators, which are otherwise overlooked by a cultivation approach.

Numerical modelling of mercury evasion in a two-layered Adriatic Sea using a coupled atmosphere-ocean model.

A new mercury (Hg) evasion model for the Adriatic Sea was developed accounting for the ocean mixed layer depth in order to decrease Hg depletion at the surface. Previously modelled airborne Hg species and measured Hg in the ocean were used. Simulations were run using one- and two-way coupled atmosphere-ocean models. Discrepancies in evasion between the applied coupling schemes were shown to be insignificant. The model was evaluated by applying various wind parameterisations and diffusive coefficient formulae. Relatively high discrepancies among the applied methods were observed. The results of a shorter simulation were extrapolated over a one-year period by applying a measurement-based adaptation. We obtained good agreement with previously published data on Hg evasion in the entire Mediterranean area, thus confirming the suitability of the new model for Hg evasion simulations. Model computations performed for the Adriatic Sea resulted in levels of evasion approximately two times lower than previously estimated.

High-resolution pollutant dispersion modelling in contaminated coastal sites.

The recent developments in pollutant measurement methods and techniques necessitate improvements in modelling approaches. The models used so far have been based on seasonally averaged data, which is insufficient for making short-term predictions. We have improved the existing modelling tools for pollutant transport and dispersion on three levels. We significantly refined the numerical grid; we used temporally and spatially non-uniform meteorological parameters for predicting pollutant dispersion and transformation processes; we used grid nesting in order to improve the open boundary condition. We worked on a typical contaminated site (The Gulf of Trieste), where mercury poses a significant environmental threat and where an oil-spill is a realistic possibility. By calculating evasion we improved the mass balance of mercury in the Gulf. We demonstrated that the spreading of river plumes under typical wind conditions is different than has so far been indicated by model simulations. We also simulated an oil-spill in real time. The improved modelling approaches and the upgraded models are now suitable for use with the state-of-the-art measurements technology and can represent an important contribution to the decision-making process.

Polyelectrolyte-mediated bridging interactions: columnar macromolecular phases.

We present a mean-field theory for charged polymer chains in an external electrostatic field in the weak and strong coupling limits. We apply the theory to describe the statistical mechanics of flexible polyelectrolyte chains in a hexagonal columnar lattice of stiff cylindrical macroions, such as DNA, in a bathing solution of a uni-univalent salt (e.g. NaCl). The salt effects are first described in the Debye-Hückel framework. This yields the macroion electrostatic field in the screened Coulomb form, which we take to represent the mean field into which the chains are immersed. We introduce the Green's function for the polyelectrolyte chains and derive the corresponding Edwards equation which we solve numerically in the Wigner-Seitz cylindrical cell using the ground state dominance ansatz. The solutions indicate the presence of polyelectrolyte bridging, which results in a like-charge attraction between stiff macroions. Then we reformulate the Edwards theory for the strong coupling case and use the standard Poisson-Boltzmann picture to describe the salt solution. We begin with the free energy which we minimize to obtain the Euler-Lagrange equations. The solutions yield self-consistently determined monomer density and electrostatic fields. We furthermore calculate the free energy density as well as the total osmotic pressure in the system. We again show that bridging implicates like-charge attractions of entropic origin between stiff cylindrical macroions. By analyzing the osmotic pressure we demonstrate that, in certain parts of the parameter space, a phase transition occurs between two phases of the same hexagonal symmetry.

Hole interactions with molecular vibrations on DNA.

We report on a study of the interactions between holes and molecular vibrations on dry DNA using photoinduced infrared absorption spectroscopy. Laser photoexcited holes are found to have a room-temperature lifetime in excess of tau > 1 ms, clearly indicating the presence of localization. However, from a quantitative model analysis of the frequency shifts of vibrational modes caused by the holes, we find the hole-vibrational coupling constant to be relatively small, lambda approximately 0.2. This interaction leads to a change in the conformational energy of DeltaE0 approximately 0.015 eV, which is too small to cause self-trapping at room temperature. We conclude that, at least in the dry (A) form, DNA is best understood in terms of a double chain of coupled quantum dots arising from the pseudorandom chain sequence of base pairs, in which Anderson localization prevents the formation of a metallic state.