Influence of acid mine drainage on microbial communities in stream and groundwater samples at Guryong Mine, South Korea

Metal-oxide precipitation influences microbiome structure in hyporheic zones receiving acid rock drainage

Streams impacted by historic mining activity are characterized by acidic pH, unique microbial communities, and abundant metal-oxide precipitation, all of which can influence groundwater-surface water exchange. We investigate how metal-oxide precipitates and hyporheic mixing mediate the composition of microbial communities in two streams receiving acid-rock and mine drainage near Silverton, Colorado, USA. A large, neutral pH hyporheic zone facilitated the precipitation of metal particles/colloids in hyporheic porewaters. A small, low pH hyporheic zone, limited by the presence of a low-permeability, iron-oxyhydroxide layer known as ferricrete, led to the formation of steep geochemical gradients and high dissolved-metal concentrations. To determine how these two hyporheic systems influence microbiome composition, we installed well clusters and deployed in situ microcosms in each stream to sample porewaters and sediments for 16S rRNA gene sequencing. Results indicated that distinct hydrogeochemical conditions were present above and below the ferricrete in the low pH system. A positive feedback loop may be present in the low pH stream where microbially mediated precipitation of iron-oxides contributes to additional clogging of hyporheic pore spaces, separating abundant, iron-oxidizing bacteria (Gallionella spp.) above the ferricrete from rare, low-abundance bacteria below the ferricrete. Metal precipitates and colloids that formed in the neutral pH hyporheic zone were associated with a more diverse phylogenetic community of nonmotile, nutrient-cycling bacteria that may be transported through hyporheic pore spaces. In summary, biogeochemical conditions influence, and are influenced by, hyporheic mixing, which mediates the distribution of micro-organisms and, thus, the cycling of metals in streams receiving acid-rock and mine drainage.

IMPORTANCE

In streams receiving acid-rock and mine drainage, the abundant precipitation of iron minerals can alter how groundwater and surface water mix along streams (in what is known as the "hyporheic zone") and may shape the distribution of microbial communities. The findings presented here suggest that neutral pH streams with large, well-mixed hyporheic zones may harbor and transport diverse microorganisms attached to particles/colloids through hyporheic pore spaces. In acidic streams where metal oxides clog pore spaces and limit hyporheic exchange, iron-oxidizing bacteria may dominate and phylogenetic diversity becomes low. The abundance of iron-oxidizing bacteria in acid mine drainage streams has the potential to contribute to additional clogging of hyporheic pore spaces and the accumulation of toxic metals in the hyporheic zone. This research highlights the dynamic interplay between hydrology, geochemistry, and microbiology at the groundwater-surface water interface of acid mine drainage streams.

Image Mapping Accuracy Evaluation Using UAV with Standalone, Differential (RTK), and PPP GNSS Positioning Techniques in an Abandoned Mine Site

Global navigation satellite systems (GNSSs) provide a common positioning method that utilizes satellite signals to determine the spatial location of a receiver. However, there are several error factors in standalone GNSS positioning due to instrumental, procedural, and environmental factors that arise during the signal transmission process, and the final positioning error can be up to several meters or greater in length. Thus, real-time kinematic (RTK) correction and post-mission precise point positioning (PPP) processing technologies are proposed to improve accuracy and accomplish precise position measurements. To evaluate the geolocation accuracy of mosaicked UAV images of an abandoned mine site, we compared each orthomosaic image and digital elevation model obtained using standalone GNSS positioning, differential (RTK) GNSS positioning, and post-mission PPP processing techniques. In the three types of error evaluation measure (i.e., relative camera location error, ground control points-based absolute image mapping error, and volumetric difference of mine tailings), we found that the RTK GNSS positioning method obtained the best performance in terms of the relative camera location error and the absolute image mapping error evaluations, and the PPP post-processing correction effectively reduced the error (69.5% of the average total relative camera location error and 59.3% of the average total absolute image mapping error) relative to the standalone GNSS positioning method. Although differential (RTK) GNSS positioning is widely used in positioning applications that require very high accuracy, post-mission PPP processing can also be used in various fields in which it is either not feasible to operate expensive equipment to receive RTK GNSS signals or network RTK services are unavailable.

Leaching experiments and risk assessment to explore the migration and risk of potentially toxic elements in soil from black shale

Black shale is rich in potentially toxic elements (PTEs) that migrate through rock weathering or rainfall, adversely affecting human health and the environment. In this study, simulated rainfall leaching experiments were used to investigate the migration patterns and leaching kinetics of PTEs in black shale from the Lower Cambrian Hetang Formation and to analyze the water quality index (WQI) of PTEs in the leachate. A comparison between the risk of PTEs in the leachate and those in the soil was also made to determine the risk sources, risk status, and distribution characteristics of PTEs in the study area. The WQI of the indoor column experimental leachate indicated the highest As contamination. The geo-accumulation index (I_geo) and potential ecological risk (Er) of soils in the entire region revealed that the risk of Cd was the highest. Furthermore, by mapping the distribution of I_geo and Er in soils, the risk level in the region where black shale is located was found to be significantly higher than that in other areas. Comparing the leaching rate of PTEs with the WQI from leaching experiments, the risk associated with As in soil can be inferred to originate mainly from the leaching of black shale. Previous studies on PTEs in black shale in the study area tended to focus on Cd; however, this study found that the risk of As was not negligible. The health risk assessment also showed that the risk at the location of black shale was beyond the accepted range. Overall, this study provided a new and important evaluation law for the level of pollution by PTEs and health risks in typical black shale regions.

Short-term Effects of Cadmium and Mercury on Soil Nematode Communities in a Pot Experiment

Analysis of soil nematode feeding groups and functional guilds were used as a valuable tool to detect heavy metal pollution. Effects of cadmium (Cd) at 5 mg/kg, mercury (Hg) at 20mg/kg, combined Cd and Hg at 5+20mg/kg on the nematode communities were studied after three months application. Nematodes were collected from soil in rhizosphere of Morning glories (Pharhiris nil) which were applied as heavy metal accumulators and were grown in the experimental pots. Both single and combined heavy metals had marked effects on the nematode abundance, life-history strategies and feeding type composition. Bacteriovores and c-p 2 group were found to be the most abundant trophic group and functional guild, respectively. Acrobeloides and Pratylenchus were the most two abundant genera, decreasing number of them was responsible for the significant difference between control and polluted treatments. Cd-5 and Cd-Hg 5+20 presented lower values of nematode diversity index (H') and evenness index (J') than Hg-20. The combination of Cd and Hg showed lower nematode trophic diversity (TD), in comparison with single Cd or Hg. Conversely, heavy metals addition exhibited no pronounced effect on Maturity index (MI), structural index (SI) and enrichment index (EI). Our results demonstrate that genera composition is a better indicator to short-term heavy metal effects than some common indicator indices and emphasize that deeper assemblage analyses are needed for a correct interpretation of short-term disturbance on soil nematodes.

Leachability characteristic of heavy metals and associated health risk study in typical copper mining-impacted sediments

A total of 100 samples were collected from the sediments of a typical copper mining area, south China. Leaching concentrations of selected heavy metals (Ni, Cd, Cu, Pb, Zn, Ba, As, and Hg) were measured to evaluate their distribution patterns and associated health risk. Leaching concentrations of Cu (3.58 ± 1.49 mg/L), Pb (1.50 ± 1.06 mg/L), and Zn (4.04 ± 1.68 mg/L) were significantly higher than the other metals in the samples. By evaluating the spatial heterogeneity, it was found that leaching metal concentrations did not decrease with environmental gradients, mostly caused by diverse distribution in pollution sources. The hazard index and carcinogenic risk indices showed significant risks of human exposure. For public safety, priority governance should be given to the main pollutants (Cd, Cu, Pb, Zn, and As) in sediments. In future studies, the integrated data will be urgently required for local stakeholders to conduct environmental monitoring and remediation scenarios.

A meta-taxonomic investigation of the prokaryotic diversity of water bodies impacted by acid mine drainage from the São Domingos mine in southern Portugal

The prokaryotic communities of water bodies contaminated by acid mine drainage from the São Domingos mining area in southern Portugal were analyzed using a meta-taxonomics approach with 16S rRNA gene sequences. Samples were collected in two seasonal sampling campaigns (summer and winter of 2017) from the most contaminated sites from where the water flows downstream to the freshwater reservoir of the river Chança. The physicochemical data indicate a trend of decreasing acid mine drainage contamination downstream of the mining area to the Chança's reservoir. The most contaminated sites (pH = 2.3-3.1) are distinguished by prokaryotic diversity with high abundances of operational taxonomics units related to acidophiles (genera Metallibacterium, Acidibacter, Leptospirillum, Acidobacterium, Thiomonas, Acidicapsa, Acidocella, Acidiphilium; family Acidobacteriaceae, order CPla-3 termite group). Likewise, in the transition zone in the mouth of the contaminated water flow into the Chança´s reservoir (pH = 6.4), a specific prokaryotic flora exists with some acidophiles, but notably with a cyanobacteria bloom and a high abundance of the genus Sediminibacterium (family I; order Subsection III). Moreover, the strong correlation between the abundance of acidophiles and characteristic physiochemical parameters (metals, acidity, and sulfate) confirm their potential as biomarkers of acid mine drainage pollution.

Effects of Mercury (Hg) on Soil Nematodes: A Microcosm Approach

Mercury (Hg), one of the most toxic heavy metals, is commonly used in the gold extraction process in small-scale mining operations in many countries. Our previous field work on the impact of mining on soil nematode assemblages in a small-scale mining area in Sibutad, the Philippines, revealed no significant negative effects despite sometimes strongly elevated Hg concentrations. Using a microcosm approach, we now applied similar Hg concentrations as commonly found in these field sites (2.5, 5, and 10 mg/kg Hg) and determined their impact on nematode assemblages from a different soil with different physicochemical soil attributes. Our results demonstrate (a) limited "bottling" effects (incubation effects) after a 45-day incubation period: a nematode abundance decrease of up to 37%, but absence of significant differences in diversity and nematode assemblage composition; (b) that total nematode abundance already decreased at Hg concentrations (2.5 mg/kg), which did not yield significant impacts on other nematode assemblage descriptors, such as assemblage composition and different diversity indices; and (c) that the Hg concentrations found in the Sibutad field sites can be detrimental to soil nematode assemblages. The discrepancy between our microcosm and the field-based results is probably related to differences in physicochemical soil attributes (e.g., OM contents, soil pH), which suggests that nematode-based environmental assessments should be interpreted in a context-dependent manner.

Stream microbial diversity in response to environmental changes: review and synthesis of existing research

The importance of microbial activity to ecosystem function in aquatic ecosystems is well established, but microbial diversity has been less frequently addressed. This review and synthesis of 100s of published studies on stream microbial diversity shows that factors known to drive ecosystem processes, such as nutrient availability, hydrology, metal contamination, contrasting land-use and temperature, also cause heterogeneity in bacterial diversity. Temporal heterogeneity in stream bacterial diversity was frequently observed, reflecting the dynamic nature of both stream ecosystems and microbial community composition. However, within-stream spatial differences in stream bacterial diversity were more commonly observed, driven specifically by different organic matter (OM) compartments. Bacterial phyla showed similar patterns in relative abundance with regard to compartment type across different streams. For example, surface water contained the highest relative abundance of Actinobacteria, while epilithon contained the highest relative abundance of Cyanobacteria and Bacteroidetes. This suggests that contrasting physical and/or nutritional habitats characterized by different stream OM compartment types may select for certain bacterial lineages. When comparing the prevalence of physicochemical effects on stream bacterial diversity, effects of changing metal concentrations were most, while effects of differences in nutrient concentrations were least frequently observed. This may indicate that although changing nutrient concentrations do tend to affect microbial diversity, other environmental factors are more likely to alter stream microbial diversity and function. The common observation of connections between ecosystem process drivers and microbial diversity suggests that microbial taxonomic turnover could mediate ecosystem-scale responses to changing environmental conditions, including both microbial habitat distribution and physicochemical factors.

Pilot test of pollution control and metal resource recovery for acid mine drainage

The study was undertaken in order to recover the metal resources from acid mine drainage (AMD). A 300 m(3)/d continuous system was designed and fractional precipitation technology employed for the main metals Fe, Cu, Zn, and Mn recovery. The system was operated for six months using actual AMD in situ. The chemicals' input and also the retention time was optimized. Furthermore, the material balance was investigated. With the system, the heavy metals of the effluent after the Mn neutralization precipitation were below the threshold value of the Chinese integrated wastewater discharge limit. The precipitates generated contained 42%, 12%, 31%, and 18% for Fe, Cu, Zn, and Mn, respectively, and the recovery rates of Fe, Cu, Zn, and Mn were 82%, 79%, 83%, and 83%, respectively. The yield range of the precipitate had significant correlation with the influent metal content. Using the X-ray diffraction analysis, the refinement for Fe, Cu, and Zn could be achieved through the processes of roasting and floatation. Cost-benefit was also discussed; the benefit from the recycled metal was able to pay for the cost of chemical reagents used. Most important of all, through the use of this technology, the frustrating sludge problems were solved.

Microbial diversity, tolerance, and biodegradation potential of urban wetlands with different input regimes

Though microbial transformations are the primary mechanism of contaminant attenuation in wetlands, much remains to be known about microbial communities in urban wetlands. In this study, the microbial communities from urban wetlands with different runoff regimes (i.e., a contaminated remnant wetland, a constructed wetland, and a remnant wetland) were assessed for their capacity to attenuate and tolerate typical urban runoff pollutants. Results from denaturing gradient gel electrophoresis of 16S rRNA genes showed relatively high similarity in community composition among the wetlands. Community-level physiological profiles had similar results but exhibited within-site variation in both the contaminated remnant and remnant wetlands. All wetland communities were less tolerant to copper than 2,4-dichlorophenoxyacetic acid; however, the contaminated remnant wetland had the highest tolerance. All study wetlands had a limited capacity to biodegrade model chlorinated aromatic compounds (e.g., 2,4-dichlorophenoxyacetic acid and 3-chlorobenzoate). Though having different input regimes and contaminant exposure histories, the study wetlands were generally similar with respect to microbial community diversity and function. Additionally, the generally low capacity for these wetlands to biodegrade mobile chlorinated organic contaminants offers preliminary insight into the limited ecosystem services these wetlands may provide in urban environments.

GeoChip-based analysis of the functional gene diversity and metabolic potential of microbial communities in acid mine drainage

Acid mine drainage (AMD) is an extreme environment, usually with low pH and high concentrations of metals. Although the phylogenetic diversity of AMD microbial communities has been examined extensively, little is known about their functional gene diversity and metabolic potential. In this study, a comprehensive functional gene array (GeoChip 2.0) was used to analyze the functional diversity, composition, structure, and metabolic potential of AMD microbial communities from three copper mines in China. GeoChip data indicated that these microbial communities were functionally diverse as measured by the number of genes detected, gene overlapping, unique genes, and various diversity indices. Almost all key functional gene categories targeted by GeoChip 2.0 were detected in the AMD microbial communities, including carbon fixation, carbon degradation, methane generation, nitrogen fixation, nitrification, denitrification, ammonification, nitrogen reduction, sulfur metabolism, metal resistance, and organic contaminant degradation, which suggested that the functional gene diversity was higher than was previously thought. Mantel test results indicated that AMD microbial communities are shaped largely by surrounding environmental factors (e.g., S, Mg, and Cu). Functional genes (e.g., narG and norB) and several key functional processes (e.g., methane generation, ammonification, denitrification, sulfite reduction, and organic contaminant degradation) were significantly (P < 0.10) correlated with environmental variables. This study presents an overview of functional gene diversity and the structure of AMD microbial communities and also provides insights into our understanding of metabolic potential in AMD ecosystems.