Composition of bacterial community and isolation of bacteria responsible for diuron degradation in sediment and soil under anaerobic condition

The herbicide diuron is extensively used in the agriculture sector and is detected widely in the environment. Although several studies on the degradation of diuron by aerobic micro-organisms have been reported, the degradation of diuron by anaerobic micro-organisms has not been received much attention. Also, no pure culture that can degrade diuron under anaerobic conditions has yet been reported. The evaluation of diuron degradation in the soil and sediment slurries showed that diuron led to a decrease in the biodiversity of the bacterial communities. Two mixed bacterial cultures, one from the soil and the other from sediment slurries, were isolated from the enrichment media under anaerobic conditions. After 30 days of incubation at 30 oC, the mixed bacterial culture from the soil degraded 84.5 ± 5.5%, and that from the sediment slurry degraded 94.5 ± 3.0% of diuron in liquid mineral medium at an initial concentration of 20 mg/L. 1-(3,4-dichlorophenylurea (DCPU), 3-(3-chlorophenyl)-1,1-dimethylurea (CPDMU), and 3,4-dichloroaniline (3,4-DCA) were the major diuron metabolites produced by both the indigenous micro-organisms and the isolated bacteria.

Distribution of ETBE-degrading microorganisms and functional capability in groundwater, and implications for characterising aquifer ETBE biodegradation potential

Microbes in aquifers are present suspended in groundwater or attached to the aquifer sediment. Groundwater is often sampled at gasoline ether oxygenate (GEO)-impacted sites to assess the potential biodegradation of organic constituents. However, the distribution of GEO-degrading microorganisms between the groundwater and aquifer sediment must be understood to interpret this potential. In this study, the distribution of ethyl tert-butyl ether (ETBE)-degrading organisms and ETBE biodegradation potential was investigated in laboratory microcosm studies and mixed groundwater-aquifer sediment samples obtained from pumped monitoring wells at ETBE-impacted sites. ETBE biodegradation potential (as determined by quantification of the ethB gene) was detected predominantly in the attached microbial communities and was below detection limit in the groundwater communities. The copy number of ethB genes varied with borehole purge volume at the field sites. Members of the Comamonadaceae and Gammaproteobacteria families were identified as responders for ETBE biodegradation. However, the detection of the ethB gene is a more appropriate function-based indicator of ETBE biodegradation potential than taxonomic analysis of the microbial community. The study shows that a mixed groundwater-aquifer sediment (slurry) sample collected from monitoring wells after minimal purging can be used to assess the aquifer ETBE biodegradation potential at ETBE-release sites using this function-based concept.

Trace Metal Levels and Nutrient Characteristics of Crude Oil-Contaminated Soil Amended with Biochar–Humus Sediment Slurry

Biochar utilization for environmental remediation applications has become very popular. We investigated the trace metal levels and soil nutrient characteristics of a biochar–humus sediment slurry treatment of a simulated crude oil-contaminated soil in the present work. The results revealed that biochar prepared at moderate pyrolysis temperature (500 °C) could still retain a significantly higher nutrient content than those prepared at high temperatures (700 and 900 °C). Despite the suitability for soil treatment, one-pot treatment studies seem not to be very effective for monitoring trace metal sorption to biochar because trace metals do not biodegrade and remain in the system.

New Insights into the Ecology and Physiology of Methanomassiliicoccales from Terrestrial and Aquatic Environments

Members of the archaeal order Methanomassiliicoccales are methanogens mainly associated with animal digestive tracts. However, environmental members remain poorly characterized as no representatives not associated with a host have been cultivated so far. In this study, metabarcoding screening combined with quantitative PCR analyses on a collection of diverse non-host-associated environmental samples revealed that Methanomassiliicoccales were very scarce in most terrestrial and aquatic ecosystems. Relative abundance of Methanomassiliicoccales and substrates/products of methanogenesis were monitored during incubation of environmental slurries. A sediment slurry enriched in Methanomassiliicoccales was obtained from a freshwater sample. It allowed the reconstruction of a high-quality metagenome-assembled genome (MAG) corresponding to a new candidate species, for which we propose the name of Candidatus ‘Methanomassiliicoccus armoricus MXMAG1’. Comparison of the annotated genome of MXMAG1 with the published genomes and MAGs from Methanomassiliicoccales belonging to the 2 known clades (‘free-living’/non-host-associated environmental clade and ‘host-associated’/digestive clade) allowed us to explore the putative physiological traits of Candidatus ‘M. armoricus MXMAG1’. As expected, Ca. ‘Methanomassiliicoccus armoricus MXMAG1’ had the genetic potential to produce methane by reduction of methyl compounds and dihydrogen oxidation. This MAG encodes for several putative physiological and stress response adaptations, including biosynthesis of trehalose (osmotic and temperature regulations), agmatine production (pH regulation), and arsenic detoxication, by reduction and excretion of arsenite, a mechanism that was only present in the ‘free-living’ clade. An analysis of co-occurrence networks carried out on environmental samples and slurries also showed that Methanomassiliicoccales detected in terrestrial and aquatic ecosystems were strongly associated with acetate and dihydrogen producing bacteria commonly found in digestive habitats and which have been reported to form syntrophic relationships with methanogens.

A bigger splat: The catastrophic geology of a 1.2-b.y.-old terrestrial megaclast, northwest Scotland

Rockfalls are relatively little described from the ancient geological record, likely due to their poor preservation potential. At Clachtoll, northwest Scotland, a megaclast (100 m × 60 m × 15 m) of Neoarchean Lewisian gneiss with an estimated mass of 243 kt is associated with basal breccias of the Mesoproterozoic Stoer Group. Foliation in the megablock is misoriented by ~90° about a subvertical axis relative to that in the underlying basement gneisses, and it is cut by fracture networks filled with Stoer Group red sandstone. Bedded clastic fissure fills on top of the megablock preserve way-up criteria consistent with passive deposition during burial. Sediment-filled fractures on the lateral flanks and base show characteristics consistent with forceful injection. Using numerical calculations, we propose that rift-related seismic shaking caused the megablock to fall no more than 15 m onto unconsolidated wet sediment. On impact, overpressure and liquefaction of the water-laden sands below the basement block were sufficient to cause hydrofracturing and upward sediment slurry injection. In addition, asymmetrically distributed structures record internal deformation of the megablock as it slowed and came to rest. The megablock is unrelated to the younger Stac Fada impact event, and represents one of the oldest known terrestrial rockfall features on Earth.

Expanding known dinoflagellate distributions: investigations of slurry cultures from Caspian Sea sediment

To investigate the disparity between plankton and cyst records, sediment slurry cultures were used to isolate the motile stage of dinoflagellates from Caspian Sea sediment. This has resulted in new records for this area ofKryptoperidinium foliaceum,Gymnodinium aureolumandWoloszynskiasp. and for the cyst record,Scrippsiella acuminata. TwoGonyaulaxspecies were isolated, one was identified asGonyaulax balticaand the other an unknown species. Cultures ofLingulodinium polyedrawere also isolated. The approach of using slurries was useful to provide cultures from sediments that were relatively poor in dinoflagellate cysts with contents.

Inorganic nitrogen release from sediment slurry of riverine and estuarine ecosystems located at different river regimes

The purpose of the present study was to compare the nature of dissolved inorganic nitrogen (DIN=ammonium (NH4+) and nitrite+nitrate (NO2+3=(NO2–+NO3–)) release from aerobic sediment slurry at two different hydrologic flow regimes. The watershed of the Guadalupe River–Estuary system receives more freshwater inflow than does the watershed of the Nueces River–Estuary system; thus, the Nueces Estuary is more saline than is the Guadalupe Estuary. Sediment samples were collected using cores, analysed for organic matter and grain size, and used to perform laboratory experiments to measure DIN release. During the experiments, DIN concentrations in overlying water were measured for 48h in five different salinity treatments. Ammonium concentrations were higher in the Nueces River and Estuary treatments than in similarly treated samples from the Guadalupe River and Estuary. An increase in NO2+3 concentrations along salinity gradients of the Nueces Estuary treatments indicated favourable condition for nitrification. The Guadalupe River sediments that were not exposed to salinity had an increase in NH4+ concentration at 7.5ppt. The different DIN release among salinity treatments indicated that hydrologic forcing on organic matter deposition and salinity have an important role on the retention and release of inorganic nitrogen at the sediment–water aerobic layers in rivers and estuaries.