Continuous Bioleaching of Arsenic-Containing Copper-Zinc Concentrate and Shift of Microbial Population under Various Conditions

The goal of this work was to study the bioleaching of arsenic-containing polymetallic concentrate that contained 6.2% Cu, 7.3% Zn and 1.7% As, depending on different temperatures and in the presence of CO2 and molasses in the medium, as well as the difference in the composition of microbial population formed under various conditions. A mixed population of moderately thermophilic and thermotolerant acidophilic microorganisms formed during the continuous bioleaching of copper concentrate was used as an inoculum. The experiments were carried out in a continuous mode in laboratory scale reactors, with a temperature range of 40 °C to 60 °C. To assess the effect of CO2 and molasses on metal leaching and microbial population composition, the experiments were carried out in three reactors: CO2 (~0.01 L/min) was supplied into the first reactor; 0.02% molasses were added to the pulp of the second reactor; and no additional carbon sources were supplied into the control reactor. The highest copper recovery (27%) was achieved at 50°C in the experiment with molasses, while the highest zinc recovery (82.1%) was reached at 45°C in the control experiment. Additional carbon sources affected the extraction of non-ferrous metals only at 60 °C and increased the extraction of copper and zinc by 12.6% and 24.2%, respectively. Both the temperature and carbon source used affected the microbial population composition. The main microbial genera revealed in the populations by next generation sequencing (NGS) were bacteria of the genera Sulfobacillus and Acidithiobacillus, as well as archaea of the genera Ferroplasma, Acidiplasma, and Cuniculiplasma. At low temperatures (40 and 45 °C), Acidithiobacillus, Sulfobacillus, and Ferroplasma predominated, while at temperatures 50–55 °C, the decrease in relative abundance of these genera occurred, and the predominance of Acidiplasma archaea was observed. The usage of both CO2 and molasses led to the increase in Sulfobacillus and Acidiplasma in relative abundance.

A Case of Predominance of Alicyclobacillus tolerans in Microbial Community during Bioleaching of Pentlandite-Chalcopyrite Concentrate

Bacterial isolates assigned to the species Alicyclobacillus tolerans, which occupies an intermediate position between an organotrophic genus Alicyclobacillus and mixotrophic genus Sulfobacillus, were revealed as members of the acidophilic chemolithotrophic community during stirred-tank bioleaching of violarite–pentlandite–chalcopyrite concentrate at 40 °C. Surprisingly, this species succeeded more common iron-oxidizing community members after a series of bioleaching processes in bioreactors. The possibility of mixotrophic and organoheterotrophic growth of Al. tolerans, tolerance to low pH values (1.0–1.15), as well as preservation of cells via sporulation under unfavorable conditions, may explain its key role in the bioleaching of the copper–nickel bulk concentrate. Isolation of two other sulfur-oxidizing pure cultures dominating the microbial community, together with their phylogenetic characterization, allowed the assignment of these isolates to the species Acidithiobacillus caldus. This and other studies of acidophilic microbial communities are important for the development and intensification of the bioleaching processes, including a biobeneficiation approach previously proposed by us.

Effect of Temperature on Biobeneficiation of Bulk Copper-Nickel Concentrate with Thermoacidophilic Microbial Communities

Bioleaching of the bulk copper–nickel sulfide concentrate was proposed as a method to remove nickel from it and to obtain a concentrate containing copper as chalcopyrite. This approach is based on the different refractoriness of sulfide minerals in ferric sulfate solutions and oxidation by acidophilic microorganisms. The bulk concentrate contained 10.8% copper in the form of chalcopyrite (CuFeS2) and 7.2% nickel that occurred in pentlandite ((Ni,Fe)9S8) and violarite (FeNi2S4). Three microbial communities grown at 35, 40, and 50 °C were used for bioleaching. The microbial community at 40 °C was the most diverse in the genus and species composition. At all temperatures of the process, the key roles in bioleaching belonged to mixotrophic and heterotrophic acidophiles. The highest levels of nickel leaching of 97.2 and 96.3% were observed in the case of communities growing at 40 and 50 °C, respectively. At the same time, the bioleach residue, which could be characterized as a marketable high-grade copper (chalcopyrite) concentrate, was obtained only at 40 °C. This solid contained 15.6% copper and 0.54% nickel. Thus, the biobeneficiation of bulk sulfide concentrates can be a promising field of biohydrometallurgy.

Distinct Roles of Acidophiles in Complete Oxidation of High-Sulfur Ferric Leach Product of Zinc Sulfide Concentrate

A two-step process, which involved ferric leaching with biologically generated solution and subsequent biooxidation with the microbial community, has been previously proposed for the processing of low-grade zinc sulfide concentrates. In this study, we carried out the process of complete biological oxidation of the product of ferric leaching of the zinc concentrate, which contained 9% of sphalerite, 5% of chalcopyrite, and 29.7% of elemental sulfur. After 21 days of biooxidation at 40°C, sphalerite and chalcopyrite oxidation reached 99 and 69%, respectively, while the level of elemental sulfur oxidation was 97%. The biooxidation residue could be considered a waste product that is inert under aerobic conditions. The results of this study showed that zinc sulfide concentrate processing using a two-step treatment is efficient and promising. The microbial community, which developed during biooxidation, was dominated by Acidithiobacillus caldus, Leptospirillum ferriphilum, Ferroplasma acidiphilum, Sulfobacillus thermotolerans, S. thermosulfidooxidans, and Cuniculiplasma sp. At the same time, F. acidiphilum and A. caldus played crucial roles in the oxidation of sulfide minerals and elemental sulfur, respectively. The addition of L. ferriphilum to A. caldus during biooxidation of the ferric leach product proved to inhibit elemental sulfur oxidation.

Sulfobacillus thermotolerans: new insights into resistance and metabolic capacities of acidophilic chemolithotrophs

The first complete genome of the biotechnologically important species Sulfobacillus thermotolerans has been sequenced. Its 3 317 203-bp chromosome contains an 83 269-bp plasmid-like region, which carries heavy metal resistance determinants and the rusticyanin gene. Plasmid-mediated metal resistance is unusual for acidophilic chemolithotrophs. Moreover, most of their plasmids are cryptic and do not contribute to the phenotype of the host cells. A polyphosphate-based mechanism of metal resistance, which has been previously unknown in the genus Sulfobacillus or other Gram-positive chemolithotrophs, potentially operates in two Sulfobacillus species. The methylcitrate cycle typical for pathogens and identified in the genus Sulfobacillus for the first time can fulfill the energy and/or protective function in S. thermotolerans Kr1 and two other Sulfobacillus species, which have incomplete glyoxylate cycles. It is notable that the TCA cycle, disrupted in all Sulfobacillus isolates under optimal growth conditions, proved to be complete in the cells enduring temperature stress. An efficient antioxidant defense system gives S. thermotolerans another competitive advantage in the microbial communities inhabiting acidic metal-rich environments. The genomic comparisons revealed 80 unique genes in the strain Kr1, including those involved in lactose/galactose catabolism. The results provide new insights into metabolism and resistance mechanisms in the Sulfobacillus genus and other acidophiles.

Disentangling effects of temperature on microbial community and copper extraction in column bioleaching of low grade copper sulfide

The lack of knowledge about responses of microbial community to temperature in copper sulfide bioleaching, and subsequent effects on copper extraction hampered understanding of how to improve bioleaching efficiency. This study presents first detailed quantitative data on microbial diversity and dynamics during bioleaching of low grade copper sulfide at different temperatures. The results demonstrate that temperature had significant effects on microbial community and copper extraction. The microbial structures on the ore surfaces were independent of communities in the leachates. Different species dominated the communities at different temperatures and portions of laboratory scale heap column. Moderate thermophiles rather than extreme thermophiles dominated the communities at 65 °C. The height of ore bed was sufficient to affect microbial communities at 30 °C and 65 °C. Sulfur-oxidizers were very important to improve copper extraction. High microbial diversity also were beneficial to enhance copper extraction within a certain temperature range in the final stage.

Intensified bioleaching of chalcopyrite by communities with enriched ferrous or sulfur oxidizers

The chalcopyrite bioleaching by enriched ferrous or sulfur oxidizers was investigated. The bioleaching was also intensified three times by the enriched communities. The results indicated that copper recoveries extracted by the enriched ferrous and sulfur oxidizers (Fe-O and S-O) were 38.87% and 43.13%, compared with that by the original community (35.35%). The positive effects of re-introducing S-enriched community to Fe-O and S-O groups were observed with copper extraction rates up to 41.67% and 46.45%. CCA indicated that the community dynamics intensified by S-enriched community was closer to that of the no re-inoculated one, but the Fe-enriched community drove a great fluctuation. A mechanism model for S-enriched community intensifying chalcopyrite bioleaching was proposed. More sulfur oxidizers in community slowed down jarosite formation and maintained lower ORP, which was propitious to chalcopyrite dissolution. Meanwhile, they accelerated S⁰ decomposition and decreased pH, which promoted acid leaching of chalcopyrite at a low cost.

Responses of microbial community to pH stress in bioleaching of low grade copper sulfide

The microbial diversity and dynamics in the leachates and on the ore surfaces of different depth of the column were analyzed during bioleaching of low grade copper sulfide at different pH, after inoculation with the same inoculum containing mesophiles and moderate thermophiles. The results indicate that low pH was beneficial to enhance copper extraction. The highest copper extraction (86%) was obtained when pH was controlled at 1.0-1.5. The microbial structures on the ore surfaces were independent of community structures in the leachate, even at the top portion of column. Microbial richness and evenness increased with decreasing pH during bioleaching. pH had significant effects on microbial community structure in the leachate and on the mineral surface of different depth of the column. Leptospirillum ferriphilum accounted for the highest proportions of the community at most times when pH was operated during bioleaching, especially at the end of run.

Microbial community dynamics in Inferno Crater Lake, a thermally fluctuating geothermal spring

Understanding how microbial communities respond and adjust to ecosystem perturbation is often difficult to interpret due to multiple and often simultaneous variations in observed conditions. In this research, we investigated the microbial community dynamics of Inferno Crater Lake, an acidic geothermal spring in New Zealand with a unique thermal cycle that varies between 30 and 80 °C over a period of 40-60 days. Using a combination of next-generation sequencing, geochemical analysis and quantitative PCR we found that the microbial community composition was predominantly chemolithotrophic and strongly associated with the thermal cycle. At temperatures >65 °C, the microbial community was dominated almost exclusively by sulphur-oxidising archaea (Sulfolobus-like spp.). By contrast, at mesophilic temperatures the community structure was more mixed, comprising both archaea and bacteria but dominated primarily by chemolithotrophic sulphur and hydrogen oxidisers. Multivariate analysis of physicochemical data confirmed that temperature was the only significant variable associated with community turnover. This research contributes to our understanding of microbial community dynamics in variable environments, using a naturally alternating system as a model and extends our limited knowledge of acidophile ecology in geothermal habitats.

Environmental factors influencing the structural dynamics of soil microbial communities during assisted phytostabilization of acid-generating mine tailings: a mesocosm experiment

Compost-assisted phytostabilization has recently emerged as a robust alternative for reclamation of metalliferous mine tailings. Previous studies suggest that root-associated microbes may be important for facilitating plant establishment on the tailings, yet little is known about the long-term dynamics of microbial communities during reclamation. A mechanistic understanding of microbial community dynamics in tailings ecosystems undergoing remediation is critical because these dynamics profoundly influence both the biogeochemical weathering of tailings and the sustainability of a plant cover. Here we monitor the dynamics of soil microbial communities (i.e. bacteria, fungi, archaea) during a 12-month mesocosm study that included 4 treatments: 2 unplanted controls (unamended and compost-amended tailings) and 2 compost-amended seeded tailings treatments. Bacterial, fungal and archaeal communities responded distinctively to the revegetation process and concurrent changes in environmental conditions and pore water chemistry. Compost addition significantly increased microbial diversity and had an immediate and relatively long-lasting buffering-effect on pH, allowing plants to germinate and thrive during the early stages of the experiment. However, the compost buffering capacity diminished after six months and acidification took over as the major factor affecting plant survival and microbial community structure. Immediate changes in bacterial communities were observed following plant establishment, whereas fungal communities showed a delayed response that apparently correlated with the pH decline. Fluctuations in cobalt pore water concentrations, in particular, had a significant effect on the structure of all three microbial groups, which may be linked to the role of cobalt in metal detoxification pathways. The present study represents, to our knowledge, the first documentation of the dynamics of the three major microbial groups during revegetation of compost-amended, metalliferous mine tailings.