Monitoring Microbial Mineralization Using Reverse Stable Isotope Labeling Analysis by Mid-Infrared Laser Spectroscopy

Natural Attenuation of Groundwater Uranium in Post-Neutral-Mining Sites Evidenced from Multiple Isotopes and Dissolved Organic Matter

Although natural attenuation is an economic remediation strategy for uranium (U) contamination, the role of organic molecules in driving U natural attenuation in postmining aquifers is not well-understood. Groundwaters were sampled to investigate the chemical, isotopic, and dissolved organic matter (DOM) compositions and their relationships to U natural attenuation from production wells and postmining wells in a typical U deposit (the Qianjiadian U deposit) mined by neutral in situ leaching. Results showed that Fe(II) concentrations and δ34SSO4 and δ18OSO4 values increased, but U concentrations decreased significantly from production wells to postmining wells, indicating that Fe(III) reduction and sulfate reduction were the predominant processes contributing to U natural attenuation. Microbial humic-like and protein-like components mediated the reduction of Fe(III) and sulfate, respectively. Organic molecules with H/C > 1.5 were conducive to microbe-mediated reduction of Fe(III) and sulfate and facilitated the natural attenuation of dissolved U. The average U attenuation rate was -1.07 mg/L/yr, with which the U-contaminated groundwater would be naturally attenuated in approximately 11.2 years. The study highlights the specific organic molecules regulating the natural attenuation of groundwater U via the reduction of Fe(III) and sulfate.

Physiological versatility of ANME-1 and Bathyarchaeotoa-8 archaea evidenced by inverse stable isotope labeling

BACKGROUND

The trophic strategy is one key principle to categorize microbial lifestyles, by broadly classifying microorganisms based on the combination of their preferred carbon sources, electron sources, and electron sinks. Recently, a novel trophic strategy, i.e., chemoorganoautotrophy-the utilization of organic carbon as energy source but inorganic carbon as sole carbon source-has been specifically proposed for anaerobic methane oxidizing archaea (ANME-1) and Bathyarchaeota subgroup 8 (Bathy-8).

RESULTS

To further explore chemoorganoautotrophy, we employed stable isotope probing (SIP) of nucleic acids (rRNA or DNA) using unlabeled organic carbon and 13C-labeled dissolved inorganic carbon (DIC), i.e., inverse stable isotope labeling, in combination with metagenomics. We found that ANME-1 archaea actively incorporated 13C-DIC into RNA in the presence of methane and lepidocrocite when sulfate was absent, but assimilated organic carbon when cellulose was added to incubations without methane additions. Bathy-8 archaea assimilated 13C-DIC when lignin was amended; however, their DNA was derived from both inorganic and organic carbon sources rather than from inorganic carbon alone. Based on SIP results and supported by metagenomics, carbon transfer between catabolic and anabolic branches of metabolism is possible in these archaeal groups, indicating their anabolic versatility.

CONCLUSION

We provide evidence for the incorporation of the mixed organic and inorganic carbon by ANME-1 and Bathy-8 archaea in the environment. Video Abstract.

High-Temporal-Resolution In Situ Sensor for Oceanic CO2 Isotope Measurement Enabling Multidimensional Isotope Tracing Analysis (R13C, R18O, and R17O) via Laser Absorption Spectroscopy

Combined in situ analysis of oceanic CO2 concentrations and diverse C and O isotope characteristics can offer a unique perspective with multiple isotopic tracing dimensions for identifying marine biogeochemical processes. Applying this strategy in marine environments is urgently required, yet it faces inherent challenges in terms of existing analytical methods and instruments, e.g., a lack of in situ sensors, limited detectable isotope variety, and low-temporal-resolution data. Here, we report an underwater in situ dissolved CO2 isotope sensor based on mid-infrared tunable diode laser absorption spectroscopy (MIR-TDLAS) and membrane extraction technology. Through the proposed targeted strategies, the sensor is capable of providing high-temporal-resolution in situ measurement of all monosubstituted isotopes of dissolved CO2 (16O13C16O, 18O12C16O, and 17O12C16O) at marine background concentrations. The sensor is demonstrated to provide comparable precision to that of isotope ratio mass spectrometry. At 400 ppmv, the precision for R13C, R18O, and R17O could achieve 0.084, 0.042, and 0.013‰, respectively, for a 1 s integration time. By enabling a high-frequency in situ analysis in fixed-point time-series field deployment, a 17O anomaly with strong regularity is observed, which is not obvious in 18O and 13C, and therefore, the superiority of the proposed multidimensional in situ isotope tracing strategy is demonstrated. The developed sensor has great potential to open up new prospects for advancing marine carbon research.

Aging process does not necessarily enhance the toxicity of polystyrene microplastics to Microcystis aeruginosa

Microplastic (MP) pollution in aquatic systems has attracted increasing attention in recent years. MPs will inevitably encounter aging process in the environment. However, research on the effects of aged MPs on freshwater ecosystems remains limited. This study compared the properties of pristine and aged polystyrene (PS) MPs of different sizes (20 nm, 200 nm, 2000 nm) and determined the effects of aging on the toxicity of PS MPs to typical freshwater cyanobacteria, Microcystis aeruginosa. Aging process induced significant changes to the properties of the MPs, especially their microstructures and surface functional groups. Aging process also influenced zeta potential, which could further affect stability and toxicity of PS MPs. After 96 h exposure, increase of algal growth and photosynthetic activity was observed in the treatment of pristine 200 nm, aged 20 nm and aged 200 nm PS MPs. In addition, pristine 20 nm, pristine 200 nm, pristine 2000 nm, aged 20 nm and aged 200 nm PS MPs were adsorbed on algal cell surface, which could influence the cell permeability. Pristine PS MPs promoted microcystin synthesis and release, which could do harm to drinking water safety and freshwater ecosystems. However, there was no significant increase in aged PS MPs treatments. Furthermore, the increased ¹³C content of algal cells in all pristine PS MPs treatments indicated that M. aeruginosa assimilated more CO₂ and generate more energy to resist the stress of pristine PS MPs when compared with aged PS MPs. These results indicate that aging process did not necessarily enhance the toxicity and biological risk of PS MPs to freshwater ecosystems. Findings of this study fill the knowledge gap in understanding the effects and risks of aged MPs on freshwater ecosystems.

Sewage contamination assessment in an urbanized tropical estuary in Northeast Brazil using elemental, isotopic and molecular proxies

The Capibaribe Estuarine System (CES) is a tropical estuary located within a densely populated metropolitan region in the Brazilian Northeast, providing multiple ecosystem services including artisanal fisheries, tourism, and navigation. A significant load of domestic and industrial effluents is causing visible environmental degradation that needs to be characterized. This study evaluated the degree of contamination by domestic sewage and the relative contribution of organic carbon (OC) sources in sediments, measuring carbon-to-nitrogen atomic (C/N)_a ratios, δ¹³C of OC, and linear alkylbenzene concentrations (LAB). The SIAR mixing model indicated that estuarine phytoplankton and sewage contribute 73% and 22% to OC, respectively, based on sedimentary (C/N)_a ratios that varied from 8.5 to 13, and δ¹³C ranging from -25.21 to -21.63‰. This suggests that eutrophication of CES is triggered by sewage inflow. The CES was moderately contaminated by LAB, and the highest concentrations observed in the inner portion, from 287 to 1349 ng g^-1 dry weight, suggests the retention of sewage. The mixing isotopic model indicated a significant dilution process of sewage-derived OC by estuarine phytoplankton. The lowest LAB in the lower estuary (317-320 ng g^-1 dw) probably resulted from marine dilution. Principal component analysis demonstrated that mud regulates sedimentary OC content, and that the sewage plume regulates sedimentary LAB. High degradation of LAB isomers probably reflects the net heterotrophic condition of this system, also suggesting these compounds are introduced into CES partially degraded. Our results pointed out that degraded OM is a result of chronic and long-term sewage input. Considering the implications of sewage pollution to environmental and public health, there is an urgent need of better policies to improve domestic effluent treatment capacity, reducing contamination of estuarine environments.

Generation of 8–20 μm Mid-Infrared Ultrashort Femtosecond Laser Pulses via Difference Frequency Generation

Mid-infrared (MIR) ultrashort laser pulses have a wide range of applications in the fields of environmental monitoring, laser medicine, food quality control, strong-field physics, attosecond science, and some other aspects. Recent years have seen great developments in MIR laser technologies. Traditional solid-state and fiber lasers focus on the research of the short-wavelength MIR region. However, due to the limitation of the gain medium, they still cannot cover the long-wavelength region from 8 to 20 µm. This paper summarizes the developments of 8–20 μm MIR ultrafast laser generation via difference frequency generation (DFG) and reviews related theoretical models. Finally, the feasibility of MIR power scaling by nonlinear-amplification DFG and methods for measuring the power of DFG-based MIR are analyzed from the author’s perspective.

Microbial Degradation Rates of Natural Bitumen

Microorganisms are present in nearly every oil or bitumen sample originating from temperate reservoirs. Nevertheless, it is very difficult to obtain reliable estimates about microbial processes taking place in deep reservoirs, since metabolic rates are rather low and differ strongly during artificially cultivation. Here, we demonstrate the importance and impact of microorganisms entrapped in microscale water droplets for the overall biodegradation process in bitumen. To this end, we measured degradation rates of heavily biodegraded bitumen from the Pitch Lake (Trinidad and Tobago) using the novel technique of reverse stable isotope labeling, allowing precise measurements of comparatively low mineralization rates in the ng range in microcosms under close to natural conditions. Freshly taken bitumen samples were overlain with artificial brackish water and incubated for 945 days. Additionally, three-dimensional distribution of water droplets in bitumen was studied with computed tomography, revealing a water bitumen interface of 1134 cm² per liter bitumen, resulting in an average mineralization rate of 9.4-38.6 mmol CO₂ per liter bitumen and year. Furthermore, a stable and biofilm-forming microbial community established on the bitumen itself, mainly composed of fermenting and sulfate-reducing bacteria. Our results suggest that small water inclusions inside the bitumen substantially increase the bitumen-water interface and might have a major impact on the overall oil degradation process.

Anaerobic Degradation of Paraffins by Thermophilic Actinobacteria under Methanogenic Conditions

Microbial anaerobic alkane degradation is a key process in subsurface oil reservoirs and anoxic environments contaminated with petroleum, with a major impact on global carbon cycling. However, the thermophiles capable of water-insoluble paraffins (>C₁₇) degradation under methanogenic conditions has remained understudied. Here, we established thermophilic (55 °C) n-paraffins-degrading (C₂₁-C₃₀) cultures from an oil reservoir. After over 900 days of incubation, the even-numbered n-paraffins were biodegraded to methane. The bacterial communities are dominated by a novel class-level lineage of actinobacteria, 'Candidatus Syntraliphaticia'. These 'Ca. Syntraliphaticia'-like metagenome-assembled genomes (MAGs) encode a complete alkylsuccinate synthases (ASS) gene operon, as well as hydrogenases and formate dehydrogenase, and several enzymes potentially involved in alkyl-CoA oxidation and the Wood-Ljungdahl pathway. Metatranscriptomic analysis suggests that n-paraffins are activated via fumarate addition reaction, and oxidized into carbon dioxide, hydrogen/formate and acetate by 'Ca. Syntraliphaticia', that could be further converted to methane by the abundant hydrogenotrophic and acetoclastic methanogens. We also found a divergent methyl-CoM reductase-like complex (MCR) and a canonical MCR in two MAGs representing 'Ca. Methanosuratus' (within candidate phylum Verstraetearchaeota), indicating the capability of methane and short-chain alkane metabolism in the oil reservoir. Ultimately, this result offers new insights into the degradability and the mechanisms of n-paraffins under methanogenic conditions at high temperatures.

Quantification of microbial degradation activities in biological activated carbon filters by reverse stable isotope labelling

Biological activated carbon (BAC) filters are frequently used in drinking water production for removing dissolved organic carbon (DOC) via adsorption of organic compounds and microbial degradation. However, proper methods are still missing to distinguish the two processes. Here, we introduce reverse stable isotope labelling (RIL) for assessing microbial activity in BAC filters. We incubated BAC samples from three different BAC filters (two granular activated carbon- and one extruded activated carbon-based) in a buffer amended with ¹³C-labelled bicarbonate. By monitoring the release of ¹²C–CO₂ from the mineralization of DOC, we could demonstrate the successful application of RIL in analysing microbial DOC degradation during drinking water treatment. Changing the water flow rates through BAC filters did not alter the microbial activities, even though apparent DOC removal efficiencies changed accordingly. Microbial DOC degradation activities quickly recovered from backwashing which was applied for removing particulate impurities and preventing clogging. The size distributions of activated carbon particles led to vertical stratification of microbial activities along the filter beds. Our results demonstrate that reverse isotope labelling is well suited to measure microbial DOC degradation on activated carbon particles, which provides a basis for improving operation and design of BAC filters.

Applying reverse stable isotope labeling analysis by mid-infrared laser spectroscopy to monitor BDOC in recycled wastewater

Biological stability of treated wastewater is currently determined by methods such as biological oxygen demand, ATP-quantification, or flow-cytometric cell counting. However, the continuous increase in water reclamation for wastewater reuse requires new methods for quantifying degradation of biodegradable dissolved organic carbon (BDOC) ranging from very small to high concentrations of dissolved organic carbon (DOC). Furthermore, direct activity measures or absolute concentrations of BDOC are needed that produce comparable and reproducible results in all laboratories. Measuring carbon mineralization by CO₂ evolution presents a suitable approach for directly measuring the microbial degradation activity. In this work, we investigated the extent of BDOC in water samples from effluent of a wastewater treatment plant and after purification by ultrafiltration over 204 days. BDOC monitoring was performed with the recently introduced reverse stable isotope labeling (RIL) analysis using mid-infrared spectroscopy for the monitoring of microbial CO₂ production. Average BDOC degradation rates ranged from 0.11 to 0.32 mg L^-1 d^-1 for wastewater treatment plant effluent and from 0.03 to 0.22 mg L^-1 d^-1 after ultrafiltration. BDOC was degraded over >90 days indicating the long-term instability of the DOC. Degradation experiments over 88 days revealed first order kinetic rate constants for BDOC which corresponded to 12.7 · 10^-3 d^-1 for wastewater treatment plant effluent and 2.7 · 10^-3 d^-1 after ultrafiltration, respectively. A thorough sensitivity analysis of the RIL showed that the method is very accurate and sensitive with method detection limits down to 10 μg· L^-1 of measured CO₂.