Assessment of stability and fluctuations of cultured lower airway bacterial communities in people with cystic fibrosis.

BACKGROUND: Routine clinical culture detects a subset of the cystic fibrosis (CF) airways microbiota based on culture-independent (molecular) methods. This study aimed to determine how extended sputum culture of viable bacteria changes over time in relation to clinical status and predicts exacerbations. METHODS: Sputa from patients at a baseline stable and up to three subsequent time-points were analysed by extended-quantitative culture; aerobe/anaerobe densities, ecological indexes and community structure were assessed together with clinical outcomes. RESULTS: Eighty patients were prospectively recruited. Sputa were successfully collected and cultured at 199/267 (74.5%) study visits. Eighty-two sputa from 25 patients comprised a complete sample-set for longitudinal analyses. Bacterial density, ecological indexes and clinical outcomes were unchanged in 18 patients with three sequential stable visits. Conversely, in 7 patients who had an exacerbation, total bacterial and aerobe densities differed over four study visits (P < .001) with this difference particularly apparent between the baseline visit and completion of acute antibiotic treatment where a decrease in density was observed. Bacterial communities were more similar within than between patients but stable patients had the least variation in community structure over time. Using logistic regression in a further analysis, baseline features in 37 patients without compared to 15 patients with a subsequent exacerbation showed that clinical measures rather than bacterial density or ecological indexes were independent predictors of an exacerbation. CONCLUSIONS: Greater fluctuation in the viable bacterial community during treatment of an exacerbation than between stable visits was observed. Extended-quantitative culture did not provide prognostic information of a future exacerbation.

Benthic invertebrate exposure and chronic toxicity risk analysis for cyclic volatile methylsiloxanes: Comparison of hazard quotient and probabilistic risk assessment approaches.

This study utilized probabilistic risk assessment techniques to compare field sediment concentrations of the cyclic volatile methylsiloxane (cVMS) materials octamethylcyclotetrasiloxane (D4, CAS # 556-67-2), decamethylcyclopentasiloxane (D5, CAS # 541-02-6), and dodecamethylcyclohexasiloxane (D6, CAS # 540-97-6) to effect levels for these compounds determined in laboratory chronic toxicity tests with benthic organisms. The concentration data for D4/D5/D6 in sediment were individually sorted and the 95th centile concentrations determined in sediment on an organic carbon (OC) fugacity basis. These concentrations were then compared to interpolated 5th centile benthic sediment no-observed effect concentration (NOEC) fugacity levels, calculated from a distribution of chronic D4/D5/D6 toxicologic assays per OECD guidelines using a variety of standard benthic species. The benthic invertebrate fugacity biota NOEC values were then compared to field-measured invertebrate biota fugacity levels to see if risk assessment evaluations were similar on a field sediment and field biota basis. No overlap was noted for D4 and D5 95th centile sediment and biota fugacity levels and their respective 5th centile benthic organism NOEC values. For D6, there was a small level of overlap at the exposure 95th centile sediment fugacity and the 5th centile benthic organism NOEC fugacity value; the sediment fugacities indicate that a negligible risk (1%) exists for benthic species exposed to D6. In contrast, there was no indication of risk when the field invertebrate exposure 95th centile biota fugacity and the 5th centile benthic organism NOEC fugacity values were compared.

Evaluation of triclosan in Minnesota lakes and rivers: Part I - ecological risk assessment.

Triclosan, an antimicrobial compound found in consumer products, may be introduced into the aquatic environment via residual concentrations in municipal wastewater treatment effluent. We conducted an aquatic risk assessment that incorporated the available measured triclosan data from Minnesota lakes and rivers. Although only data reported from Minnesota were considered in the risk assessment, the developed toxicity benchmarks can be applied to other environments. The data were evaluated using a series of environmental fate models to ensure the data were internally consistent and to fill any data gaps. Triclosan was not detected in over 75% of the 567 surface water and sediment samples. Measured environmental data were used to model the predicted environmental exposures to triclosan in surface water, surface sediment, and biota tissues. Toxicity benchmarks based on fatty acid synthesis inhibition and narcosis were determined for aquatic organisms based, in part, on a species sensitivity distribution of chronic toxicity thresholds from the available literature. Predicted and measured environmental concentrations for surface water, sediment, and tissue were below the effects benchmarks, indicating that exposure to triclosan in Minnesota lakes and rivers would not pose an unacceptable risk to aquatic organisms.

Ecological risk assessment of imidacloprid applied to experimental rice fields: Accurateness of the RICEWQ model and effects on ecosystem structure.

The fate of imidacloprid and its potential side-effects on biological communities and ecosystem functioning was studied in experimental rice plots. In addition, the influence of applying a withholding period of zero days (actual practices) and seven days (recommended in EU) on this was evaluated. Predicted environmental concentrations (PEC) of imidacloprid calculated with the higher-tier model RICEWQ agreed well with concentrations measured in the field. Methodologies generally used in the EU and USA for lower-tier PEC calculation, however, severely underestimated actual field concentrations and hence appear to need further evaluation and eventually amendments. Effects on several biological communities (especially ostracods, dipterans and coleopterans) were noted following imidacloprid application, with greatest effects in the paddy were as applied a withholding period of 7 days. An increase in the density of snails (Physa acuta), however, may have prevented effects on ecosystem functioning through functional redundancy. Implications of study findings for the ecological risk assessment of imidacloprid and potential mitigation measures are discussed.

Assessment of heavy metal contamination levels and toxicity in sediments and fishes from the Mediterranean Sea (southern coast of Sfax, Tunisia).

Contamination of heavy metals in sediment is regarded as a global crisis with a large share in industrializing cities like Sfax (Tunisia). Seven heavy metals such as Cadmium (Cd), Copper (Cu), Iron (Fe), Mercury (Hg), Nickel (Ni), Lead (Pb), and Zinc (Zn), and one metalloid such as Arsenic (As) in sediments and fish (D. annularis, L. aurata, and S. vulgaris) were investigated from the Southern coast of Sfax in Tunisia. The range of metals in sediments were 13.11-36; 4.42-7.92; 8.23-28.56; 50,564-11,956; 2.9-6.8; 9.13-30.51; 65.06-151.50, and 47-546 kg(-1) DW for As, Cd, Cu, Fe, Hg, Ni, Pb, and Zn. The level of studied metals in sediment samples exceeded the limits of the quality assessment guidelines (SQGs). The potential ecological risk index (PERI) proved that the investigated region could pose moderate risk for the aquatic biota. Metal bioaccumulation in the fish muscles varied significantly among species. Indeed, S. vulgaris and D. annularis accumulated higher amount of metal than L. aurata. The target hazard quotients (THQ) of individual heavy metals in fish, except for As and Hg, revealed safe levels for human consumption. Nevertheless, the total THQ indexes exceeded 1 suggesting the combined effects on muscles fish, which may constitute a risk to population's health.

Glyphosate and aminomethylphosphonic acid chronic risk assessment for soil biota.

Glyphosate is a broad-spectrum herbicide used widely in agriculture, horticulture, private gardens, and public infrastructure, where it is applied to areas such as roadsides, railway tracks, and parks to control the growth of weeds. The exposure risk from glyphosate and the primary soil metabolite aminomethylphosphonic acid (AMPA) on representative species of earthworms, springtails, and predatory soil mites and the effects on nitrogen-transformation processes by soil microorganisms were assessed under laboratory conditions based on internationally recognized guidelines. For earthworms, the reproductive no-observed-effect concentration (NOEC) was 472.8 mg glyphosate acid equivalent (a.e.)/kg dry soil, which was the highest concentration tested, and 198.1 mg/kg dry soil for AMPA. For predatory mites, the reproductive NOEC was 472.8 mg a.e./kg dry soil for glyphosate and 320 mg/kg dry soil for AMPA, the highest concentrations tested. For springtails, the reproductive NOEC was 472.8 mg a.e./kg dry soil for glyphosate and 315 mg/kg dry soil for AMPA, the highest concentrations tested. Soil nitrogen-transformation processes were unaffected by glyphosate and AMPA at 33.1 mg a.e./kg soil and 160 mg/kg soil, respectively. Comparison of these endpoints with worst-case soil concentrations expected for glyphosate (6.62 mg a.e./kg dry soil) and AMPA (6.18 mg/kg dry soil) for annual applications at the highest annual rate of 4.32 kg a.e./ha indicate very low likelihood of adverse effects on soil biota. Environ Toxicol Chem 2016;35:2742-2752. © 2016 The Authors. Environmental Toxicology and Chemistry Published by Wiley Periodicals, Inc. on behalf of SETAC.

Characterization of leaf blade- and leaf sheath-associated bacterial communities and assessment of their responses to environmental changes in CO2, temperature, and nitrogen levels under field conditions.

Rice shoot-associated bacterial communities at the panicle initiation stage were characterized and their responses to elevated surface water-soil temperature (ET), low nitrogen (LN), and free-air CO2 enrichment (FACE) were assessed by clone library analyses of the 16S rRNA gene. Principal coordinate analyses combining all sequence data for leaf blade- and leaf sheath-associated bacteria revealed that each bacterial community had a distinct structure, as supported by PC1 (61.5%), that was mainly attributed to the high abundance of Planctomycetes in leaf sheaths. Our results also indicated that the community structures of leaf blade-associated bacteria were more sensitive than those of leaf sheath-associated bacteria to the environmental factors examined. Among these environmental factors, LN strongly affected the community structures of leaf blade-associated bacteria by increasing the relative abundance of Bacilli. The most significant effect of FACE was also observed on leaf blade-associated bacteria under the LN condition, which was explained by decreases and increases in Agrobacterium and Pantoea, respectively. The community structures of leaf blade-associated bacteria under the combination of FACE and ET were more similar to those of the control than to those under ET or FACE. Thus, the combined effects of environmental factors need to be considered in order to realistically assess the effects of environmental changes on microbial community structures.

Are standard tests sensitive enough to evaluate effects of human pharmaceuticals in aquatic biota? Facing changes in research approaches when performing risk assessment of drugs.

Nowadays, the presence of pharmaceutical products in aquatic environments is not only common, but is also of significant concern regarding the adverse effect they may produce to aquatic biota. In order to determine the adverse effects of caffeine (CAF), ibuprofen (IBU), carbamazepine (CBZ) and novobiocin (NOV), at environmental occurring concentrations, standardized endpoints applied in current guidelines were evaluated in four organisms including bioluminescence response in Vibrio fischeri, growth inhibition in Isochrysis galbana (marine water) and Pseudokirchneriella subcapitata (fresh water) and fertilization and embryo-larval development in Paracentrotus lividus. To reach this aim bioassays were implemented by exposing organisms to water spiked with drugs dissolved in DMSO (0.001% v/v). Risk characterization was performed, calculating the environmental impact of drugs by calculating environmental concentration and predicted no effect concentration ratio (MEC/PNEC). Results indicate that acute toxicity was found above environmental concentrations in the order of mg L(-1) for bacteria bioluminescence, microalgae growth inhibition and sea urchin fertilization. However, teratogenicity was observed on sea urchin after exposure to environmental concentrations of drugs at 0.00001 mg L(-1); at this concentration CBZ and IBU were found to reduce significantly the embryo-larval development compared to controls (p<0.01). The risk calculated for selected drugs suggested they are harmless for aquatic environment except when applying the embryo-larval development endpoint. Endpoints applied in this study showed the necessity of using more sensitive responses, when assessing risk of pharmaceuticals in aquatic environments, since endpoints applied in current guidelines may not be suitable.