A national reconnaissance of trace organic compounds (TOCs) in United States lotic ecosystems.

We collaborated with 26 groups from universities across the United States to sample 42 sites for 33 trace organic compounds (TOCs) in water and sediments of lotic ecosystems. Our goals were 1) to further develop a national database of TOC abundance in United States lotic ecosystems that can be a foundation for future research and management, and 2) to identify factors related to compound abundance. Trace organic compounds were found in 93% of water samples and 56% of sediment samples. Dissolved concentrations were 10-1000× higher relative to sediment concentrations. The ten most common compounds in water samples with detection frequency and maximum concentration were sucralose (87.5%, 12,000ng/L), caffeine (77.5%, 420ng/L), sulfamethoxazole (70%, 340ng/L), cotinine (65%, 130ng/L), venlafaxine (65%, 1800ng/L), carbamazepine (62.5%, 320ng/L), triclosan (55%, 6800ng/L), azithromycin (15%, 970ng/L), diphenylhydramine (40%, 350ng/L), and desvenlafaxine (35%, 4600ng/L). In sediment, the most common compounds were venlafaxine (32.5%, 19ng/g), diphenhydramine (25%, 41ng/g), azithromycin (15%, 11ng/g), fluoxetine (12.5%, 29ng/g) and sucralose (12.5%, 16ng/g). Refractory compounds such as sucralose may be good indicators of TOC contamination in lotic ecosystems, as there was a correlation between dissolved sucralose concentrations and with the total number of compounds detected in water. Discharge and human demographic (population size) characteristics were not good predictors of compound abundance in water samples. This study further confirms the ubiquity of TOCs in lotic ecosystems. Although concentrations measured rarely approached acute aquatic-life criteria, the chronic effects, bioaccumulative potential, or potential mixture effects of multiple compounds are relatively unknown.

Staphylococcus epidermidis pan-genome sequence analysis reveals diversity of skin commensal and hospital infection-associated isolates.

BACKGROUND: While Staphylococcus epidermidis is commonly isolated from healthy human skin, it is also the most frequent cause of nosocomial infections on indwelling medical devices. Despite its importance, few genome sequences existed and the most frequent hospital-associated lineage, ST2, had not been fully sequenced. RESULTS: We cultivated 71 commensal S. epidermidis isolates from 15 skin sites and compared them with 28 nosocomial isolates from venous catheters and blood cultures. We produced 21 commensal and 9 nosocomial draft genomes, and annotated and compared their gene content, phylogenetic relatedness and biochemical functions. The commensal strains had an open pan-genome with 80% core genes and 20% variable genes. The variable genome was characterized by an overabundance of transposable elements, transcription factors and transporters. Biochemical diversity, as assayed by antibiotic resistance and in vitro biofilm formation, demonstrated the varied phenotypic consequences of this genomic diversity. The nosocomial isolates exhibited both large-scale rearrangements and single-nucleotide variation. We showed that S. epidermidis genomes separate into two phylogenetic groups, one consisting only of commensals. The formate dehydrogenase gene, present only in commensals, is a discriminatory marker between the two groups. CONCLUSIONS: Commensal skin S. epidermidis have an open pan-genome and show considerable diversity between isolates, even when derived from a single individual or body site. For ST2, the most common nosocomial lineage, we detect variation between three independent isolates sequenced. Finally, phylogenetic analyses revealed a previously unrecognized group of S. epidermidis strains characterized by reduced virulence and formate dehydrogenase, which we propose as a clinical molecular marker.

Spatial variability in the speciation and bioaccumulation of mercury in an arid subtropical reservoir ecosystem.

Patterns of spatial variation of mercury and methylmercury (MeHg) were examined in sediments and muscle tissue of largemouth bass (Micropterus salmoides) from Amistad International Reservoir, a large and hydrologically complex subtropical water body in the Rio Grande drainage. The distributions of both Hg and MeHg were compared with environmental and biological factors known to influence production of MeHg. The highest concentrations of total Hg (THg) in sediment were found in the Rio Grande arm of the reservoir, whereas MeHg was highest at sites in the Devils River arm and inundated Pecos River (often more than 3.0 ng/g). Conditions in the sediments of the Devils River arm and Pecos River channel were likely more favorable to the production of MeHg, with higher sediment porewater dissolved organic carbon, and porewater sulfate levels in the optimal range for methylation. Although the detection of different groups of sulfate-reducing bacteria by polymerase chain reaction (PCR) was generally correlated with MeHg concentrations, bacterial counts via fluorescent in situ hybridization (FISH) did not correlate with MeHg. A sample of 156 largemouth bass (<30 cm) showed a spatial pattern similar to that of MeHg in sediments, where fish from the Devils River arm of the reservoir had higher muscle Hg concentrations than those collected in the Rio Grande arm. In 88 bass of legal sport fishing size (>35 cm), 77% exceeded the 0.3 mg/kg U.S. Environmental Protection Agency screening value. This study shows that significant variation in sediment MeHg and biotic Hg concentration can exist within lakes and reservoirs and that it can correspond to variation in environmental conditions and Hg methylation.

Temporal analyses of Salmonellae in a headwater spring ecosystem reveals the effects of precipitation and runoff events.

Sediments and water from the spring and slough arm of Spring Lake, the pristine headwaters of the San Marcos River, Texas, were analyzed for Salmonellae by culture and molecular techniques before and after three major precipitation events, each with intermediate dry periods. Polymerase chain reaction (PCR)-assisted analyses of enrichment cultures detected Salmonellae in samples after all three precipitation events, but failed to detect them immediately prior to the rainfall events. Detection among individual locations differed with respect to the precipitation event analyzed, and strains isolated were highly variable with respect to serovars. These results demonstrate that rainwater associated effects, most likely surface runoff, provide an avenue for short-term pollution of aquatic systems with Salmonellae that do not, however, appear to establish for the long-term in water nor sediments.