Defunct gold mine tailings are natural reservoir for unique bacterial communities revealed by high-throughput sequencing analysis

Sibanda, Timothy; Selvarajan, Ramganesh; Msagati, Titus A.M.; Venkatachalam, S.; Meddows‐Taylor, Stephen

doi:10.1016/j.scitotenv.2018.09.380

Cited by 61 publications

(23 citation statements)

References 37 publications

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“…In addition, the abundance of Actinobacteria was higher in the NR zone than in the other three zones. In all four zones, the abundances of Firmicutes and Chloroflexi were much higher in the NP than in the T. The abovementioned four phyla were commonly found dominant in soil and this feature also remains in heavy metal polluted soils, though with variations depending on diverse environmental impact factors, as proven by recent studies on the root-associated microbiomes in polluted soils [22,23]. This current study showed that soil types and sampling zones, as the main drivers of environmental impact factors including heavy metal stress and oxygen supply, largely explained the microbiomes variation.…”

Section: Resultsmentioning

confidence: 63%

Variation of the Bacterial Community in the Rhizoplane Iron Plaque of the Wetland Plant Typha latifolia

Chi

Yang

et al. 2018

IJERPH

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The survival of wetland plants in iron, sulfur and heavy metals-rich mine tailing ponds has been commonly attributed to the iron plaque (IP) on the root surface that acts as a protective barrier. However, the contribution of bacteria potentially regulates the iron-sulfur cycle and heavy metal exclusion at the root surface has not been studied in depth, particularly from a microbial ecology perspective. In this study, a pot experiment using Typha latifolia, a typical wetland plant, in non-polluted soil (NP) and tailing soil (T) was conducted. Samples from four zones, comprising non-rhizosphere soil (NR), rhizosphere soil (R) and internal (I) and external (E) layers of iron plaque, were collected from the NP and T and analyzed by 16S rRNA sequencing. Simpson index of the genus level showed greater diversities of bacterial community in the NP and its I zone is the most important part of the rhizosphere. PICRUSt predicted that the I zones in both NP and T harbored most of the functional genes. Specifically, functional genes related to sulfur relay and metabolism occurred more in the I zone in the T, whereas those related to iron acquisition and carbon and nitrogen circulation occurred more in the I zone in the NP. Analysis of dominant bacterial communities at genus level showed highest abundance of heavy metal resistant genus Burkholderia in the E zones in both soils, indicating that heavy metal resistance of Typha latifolia driven by Burkholderia mainly occurred at the external layer of IP. Moreover, many bacterial genera, such as Acidithiobacillus, Ferritrophicum, Thiomonas, Metallibacterium and Sideroxydans, involved in iron and sulfur metabolisms were found in the T and most showed higher abundance in the I zone than in the other zones. This work, as the first endeavor to separate the iron plaque into external and internal layers and investigate the variations of the bacterial communities therein, can provide an insight for further understanding the survival strategy of wetland plants, e.g., Typha latifolia, in extreme environment.

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Section: Resultsmentioning

confidence: 63%

Variation of the Bacterial Community in the Rhizoplane Iron Plaque of the Wetland Plant Typha latifolia

Chi

Yang

et al. 2018

IJERPH

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“…The extracted DNA was amplified with a set of primers targeting the hypervariable V1–V3 regions. The primers used were 27F (5′-AGAGTTTGA TCMTGGC-3′) and 518R (5′-GTATTACCGCGGCTGCTGG-3′), as described by Sibanda et al [38]. The PCR amplification reactions contained 25 μL of one Taq 2X Master Mix, 22 μL of Nuclease-free water, and 1.5 μL of both forward and reverse primers at a concentration of 0.2 μmol/L with a 2 μL of extracted DNA (50–100 ng/μL) to make up a volume of 50 μL.…”

Section: Methodsmentioning

confidence: 99%

“…Current approaches in microbial detection (such as next-generation sequencing) have made it possible to extract DNA directly from environmental samples and sequences for identification, diversification, diagnostic, clinical, and monitoring purposes [33,34,35,36,37,38,39]. Recently, high-throughput next-generation sequencing methods applied to the 16S rRNA gene have produced complete descriptions of bacterial communities in various environments, due to the increased number of sequence reads that can be obtained and analyzed.…”

Section: Introductionmentioning

confidence: 99%

Profiling Bacterial Diversity and Potential Pathogens in Wastewater Treatment Plants Using High-Throughput Sequencing Analysis

et al. 2019

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Next-generation sequencing provides new insights into the diversity and structure of bacterial communities, as well as the fate of pathogens in wastewater treatment systems. In this study, the bacterial community structure and the presence of pathogenic bacteria in three wastewater treatment plants across Gauteng province in South Africa were studied. The physicochemical results indicated that the quality of wastewater varies considerably from one plant to the others. Proteobacteria, Actinobacteria, Firmicutes, and Chloroflexi were the dominant phyla across the three wastewater treatment plants, while Alphaproteobacteria, Actinobacteria, Bacilli, and Clostridia were the dominant classes. The dominant bacterial functions were highly associated with carbohydrate, energy, and amino acid metabolism. In addition, potential pathogenic bacterial members identified from the influent/effluent samples included Roseomonas, Bacillus, Pseudomonas, Clostridium, Mycobacterium, Methylobacterium, and Aeromonas. The results of linear discriminant analysis (LDA) effect size analysis also confirmed that these bacterial pathogens were significantly abundant in the wastewater treatment systems. Further, the results of this study highlighted that the presence of bacterial pathogens in treated effluent pose a potential contamination risk, transmitted through soil, agriculture, water, or sediments. There is thus a need for continuous monitoring of potential pathogens in wastewater treatment plants (WWTPs) in order to minimize public health risk.

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“…Microorganisms that grow in metal-rich tailings are important players in the process of bioleaching of low-grade ores and show potential for metal mobilization and immobilization 8 . Strategies such as selective metal accumulation through membrane transporters, the production of metal chelating biopolymers and the production of siderophores for selective metal capture were identified in strains of the genera that compose the microbiome 13,36 .…”

Section: Discussionmentioning

confidence: 99%

“…With the developments in high-throughput metagenomics sequencing, it is now possible to characterize the uncultured microbial taxa and to ascertain their ecological role 6 . Exposure to metals can negatively affect microbial diversity and biomass 7,8 and inhibit microbial functions 9 . Mine tailings are characteristically oligotrophic environments and loaded with toxic metal(loid)s, making them challenging for microorganism survival 10,11 .…”

Section: Introductionmentioning

confidence: 99%

Tailings microbial community profile and prediction of its functionality in basins of tungsten mine

Coimbra

Farias

Francisco

et al. 2019

Sci Rep

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In a circular economy concept, where more than 300 million tons of mining and quarrying wastes are produced annually, those are valuable resources, supplying metals that are extracted today by other processes, if innovative methods and processes for efficient extraction of these elements are applied. This work aims to assess microbiological and chemical spatial distribution within two tailing basins from a tungsten mine, using a MiSeq approach targeting the 16S rRNA gene, to relate microbial composition and function with chemical variability, thus, providing information to enhance the efficiency of the exploitation of these secondary sources. The tailings sediments core microbiome comprised members of family Anaerolineacea and genera Acinetobacter, Bacillus, Cellulomonas, Pseudomonas, Streptococcus and Rothia, despite marked differences in tailings physicochemical properties. The higher contents of Al and K shaped the community of Basin 1, while As-S-Fe contents were correlated with the microbiome composition of Basin 2. The predicted metabolic functions of the microbiome were rich in genes related to metabolism pathways and environmental information processing pathways. An in-depth understanding of the tailings microbiome and its metabolic capabilities can provide a direction for the management of tailings disposal sites and maximize their potential as secondary resources.

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Defunct gold mine tailings are natural reservoir for unique bacterial communities revealed by high-throughput sequencing analysis

Cited by 61 publications

References 37 publications

Variation of the Bacterial Community in the Rhizoplane Iron Plaque of the Wetland Plant Typha latifolia

Variation of the Bacterial Community in the Rhizoplane Iron Plaque of the Wetland Plant Typha latifolia

Profiling Bacterial Diversity and Potential Pathogens in Wastewater Treatment Plants Using High-Throughput Sequencing Analysis

Tailings microbial community profile and prediction of its functionality in basins of tungsten mine

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