Fluidized muds: a novel setting for the generation of biosphere diversity through geologic time

In situ high-resolution two-dimensional profiles of redox sensitive metal mobility in sediment-water interface and porewater from estuarine sediments

Metals in contaminated sediments may present high environmental risks and ecological threats to benthic organisms. Redox sensitive elements with different oxidation states show variations in solubility as a function of redox status of the sediment water environment. The novel high-resolution ZrO-Chelex-AgI diffusive gradients in thin film (HR-ZCA DGT) technique provided sensitive in situ mapping of metals in the estuarine sediments. The present study investigated the sub-millimeter two-dimensional distributions of DGT-labile S(-II), P(V), and six redox sensitive metals (Fe, Mn, V, Cu, Ni, and Zn) across sediment-water interface (SWI) severely influenced by anthropogenic activity. We for the first time used the V-turning value (the V/Fe ratios at ~0.03) to accurately identify the actual SWI. The diffusion boundary layer (DBL) thickness of Ni, Cu and Zn was consistent with those identified by the dissolved oxygen microelectrode method, and was 3-6 mm above the SWI. No significant release of dissolved Fe and P from sediments into the overlying water was found by diffusion process. The estimated fluxes (F_dif) of Ni, Cu, and Zn at DBL were 4.0-176, -1.1-235, and 5.0-108 μg m^-2 d^-1, respectively, and were significantly higher in sediments near the industrial effluent dumping sites than those in sediments impacted by domestic wastewater releases. Metal diffusion flux was mainly controlled by the particulate matter on the surface sediment and organic degradation. Traditional diffusion flux may have underestimated the flux of metals from the surface sediments. The discharge of hypoxic tributary was an important source of metal pollution in the contaminated estuarine sediments.

Ecohydrology 2.0

This paper aims at a definition of the domain of ecohydrology, a relatively new discipline borne out of an intrusion-as advertised by this Topical Collection of the Rendiconti Lincei-of hydrology and geomorphology into ecology (or vice-versa, depending on the reader's background). The study of hydrologic controls on the biota proves, in our view, significantly broader than envisioned by its original focus that was centered on the critical zone where much of the action of soil, climate and vegetation interactions takes place. In this review of related topics and contributions, we propose a reasoned broadening of perspective, in particular by firmly centering ecohydrology on the fluvial catchment as its fundamental control volume. A substantial unity of materials and methods suggests that our advocacy may be considered legitimate.

Changes in northern Gulf of Mexico sediment bacterial and archaeal communities exposed to hypoxia

Biogeochemical changes in marine sediments during coastal water hypoxia are well described, but less is known about underlying changes in microbial communities. Bacterial and archaeal communities in Louisiana continental shelf (LCS) hypoxic zone sediments were characterized by pyrosequencing 16S rRNA V4-region gene fragments obtained by PCR amplification of community genomic DNA with bacterial- or archaeal-specific primers. Duplicate LCS sediment cores collected during hypoxia had higher concentrations of Fe(II), and dissolved inorganic carbon, phosphate, and ammonium than cores collected when overlying water oxygen concentrations were normal. Pyrosequencing yielded 158,686 bacterial and 225,591 archaeal sequences from 20 sediment samples, representing five 2-cm depth intervals in the duplicate cores. Bacterial communities grouped by sampling date and sediment depth in a neighbor-joining analysis using Chao-Jaccard shared species values. Redundancy analysis indicated that variance in bacterial communities was mainly associated with differences in sediment chemistry between oxic and hypoxic water column conditions. Gammaproteobacteria (26.5%) were most prominent among bacterial sequences, followed by Firmicutes (9.6%), and Alphaproteobacteria (5.6%). Crenarchaeotal, thaumarchaeotal, and euryarchaeotal lineages accounted for 57%, 27%, and 16% of archaeal sequences, respectively. In Thaumarchaeota Marine Group I, sequences were 96-99% identical to the Nitrosopumilus maritimus SCM1 sequence, were highest in surficial sediments, and accounted for 31% of archaeal sequences when waters were normoxic vs. 13% of archaeal sequences when waters were hypoxic. Redundancy analysis showed Nitrosopumilus-related sequence abundance was correlated with high solid-phase Fe(III) concentrations, whereas most of the remaining archaeal clusters were not. In contrast, crenarchaeotal sequences were from phylogenetically diverse lineages, differed little in relative abundance between sampling times, and increased to high relative abundance with sediment depth. These results provide further evidence that marine sediment microbial community composition can be structured according to sediment chemistry and suggest the expansion of hypoxia in coastal waters may alter sediment microbial communities involved in carbon and nitrogen cycling.

River organic matter shapes microbial communities in the sediment of the Rhône prodelta

Microbial-driven organic matter (OM) degradation is a cornerstone of benthic community functioning, but little is known about the relation between OM and community composition. Here we use Rhône prodelta sediments to test the hypothesis that OM quality and source are fundamental structuring factors for bacterial communities in benthic environments. Sampling was performed on four occasions corresponding to contrasting river-flow regimes, and bacterial communities from seven different depths were analyzed by pyrosequencing of 16S rRNA gene amplicons. The sediment matrix was characterized using over 20 environmental variables including bulk parameters (for example, total nitrogen, carbon, OM, porosity and particle size), as well as parameters describing the OM quality and source (for example, pigments, total lipids and amino acids and δ(13)C), and molecular-level biomarkers like fatty acids. Our results show that the variance of the microbial community was best explained by δ(13)C values, indicative of the OM source, and the proportion of saturated or polyunsaturated fatty acids, describing OM lability. These parameters were traced back to seasonal differences in the river flow, delivering OM of different quality and origin, and were directly associated with several frequent bacterial operational taxonomic units. However, the contextual parameters, which explained at most 17% of the variance, were not always the key for understanding the community assembly. Co-occurrence and phylogenetic diversity analysis indicated that bacteria-bacteria interactions were also significant. In conclusion, the drivers structuring the microbial community changed with time but remain closely linked with the river OM input.

Geochemical production of reactive oxygen species from biogeochemically reduced Fe

The photochemical reduction of Fe(III) complexes to Fe(II) is a well-known initiation step for the production of reactive oxygen species (ROS) in sunlit waters. Here we show a geochemical mechanism for the same in dark environments based on the tidally driven, episodic movement of anoxic groundwaters through oxidized, Fe(III) rich sediments. Sediment samples were collected from the top 5 cm of sediment in a saline tidal creek in the estuary at Murrell's Inlet, South Carolina and characterized with respect to total Fe, acid volatile sulfides, and organic carbon content. These sediments were air-dried, resuspended in aerated solution, then exposed to aqueous sulfide at a range of concentrations chosen to replicate the conditions characteristic of a tidal cycle, beginning with low tide. No detectable ROS production occurred from this process in the dark until sulfide was added. Sulfide addition resulted in the rapid production of hydrogen peroxide, with maximum concentrations of 3.85 μM. The mechanism of hydrogen peroxide production was tested using a simplified three factor representation of the system based on hydrogen sulfide, Fe(II) and Fe(III). The resulting predictive model for maximum hydrogen peroxide agreed with measured hydrogen peroxide in field-derived samples at the 95% level of confidence, although with a persistent negative bias suggesting a minor undiscovered peroxide source in sediments.

Fluvial sediment supply, mud banks, cheniers and the morphodynamics of the coast of South America between the Amazon and Orinoco river mouths

The overarching morphosedimentary control on the coast of South America between the Amazon and Orinoco rivers is the massive muddy discharge of the Amazon (from c. 754×106 to 1000×106 t a−1). This mud supply by the world’s largest river reflects sediment sourcing from the Andes, weathering in a tropical–equatorial climate and the extremely high water discharge (ca 173 000 m3 s−1). Amazon mud forms an estuarine mega-turbidity maximum on the shelf that feeds the growth of a subaqueous delta. About 15–20% of this mud forms coastal banks that migrate towards the mouth of the Orinoco, which has constructed a large subaerial delta. This muddy coast exhibits interspersed beaches and cheniers constructed from sand supplied by the smaller rivers and by the Orinoco, and is characterized by extremely large spatio-temporal geomorphic variability resulting from intense wave-reworking of the migrating banks, mangrove colonization and destruction, and erosion in interbank areas. These dynamic processes also drive important biogeochemical recycling, enhancing coastal productivity while efficiently remineralizing organic matter and promoting authigenic mineral formation. This muddy coast is being impacted by human-induced changes, in Guyana in particular. The Amazon–Orinoco coast provides an analogue for muddy, wave-dominated shorefaces in the geological record.

Man and his spaceships: Vehicles for extraterrestrial colonization?

The resiliency and adaptive ability of microbial life in real time on Earth relies heavily upon horizontal gene transfer. Based on that knowledge, how likely is earth based microbial life to colonize extraterrestrial targets such as Mars? To address this question, we consider manned and unmanned space exploration, the resident microbiota that is likely to inhabit those vehicles, the adaptive potential of that microbiota in an extraterrestrial setting especially with regards to mobile genetic elements, and the likelihood that Mars like environments could initiate and sustain colonization.

Microbial stowaways: inimitable survivors or hopeless pioneers?

The resiliency of prokaryotic life has provided colonization across the globe and in the recesses of Earth's most extreme environments. Horizontal gene transfer provides access to a global bank of genetic resources that creates diversity and allows real-time adaptive potential to the clonal prokaryotic world. We assess the likelihood that this Earth-based strategy could provide survival and adaptive potential, in the case of microbial stowaways off Earth.

Diversity and spatial distribution of prokaryotic communities along a sediment vertical profile of a deep-sea mud volcano

We investigated the top 30-cm sediment prokaryotic community structure in 5-cm spatial resolution, at an active site of the Amsterdam mud volcano, East Mediterranean Sea, based on the 16S rRNA gene diversity. A total of 339 and 526 sequences were retrieved, corresponding to 25 and 213 unique (≥98% similarity) phylotypes of Archaea and Bacteria, respectively, in all depths. The Shannon-Wiener diversity index H was higher for Bacteria (1.92-4.03) than for Archaea (0.99-1.91) and varied differently between the two groups. Archaea were dominated by anaerobic methanotrophs ANME-1, -2 and -3 groups and were related to phylotypes involved in anaerobic oxidation of methane from similar habitats. The much more complex Bacteria community consisted of 20 phylogenetic groups at the phylum/candidate division level. Proteobacteria, in particular δ-Proteobacteria, was the dominant group. In most sediment layers, the dominant phylotypes of both the Archaea and Bacteria communities were found in neighbouring layers, suggesting some overlap in species richness. The similarity of certain prokaryotic communities was also depicted by using four different similarity indices. The direct comparison of the retrieved phylotypes with those from the Kazan mud volcano of the same field revealed that 40.0% of the Archaea and 16.9% of the Bacteria phylotypes are common between the two systems. The majority of these phylotypes are closely related to phylotypes originating from other mud volcanoes, implying a degree of endemicity in these systems.