Shift of bacterial communities in heavy metal-contaminated agricultural land during a remediation process

Huang, Chi‐Chun; Liang, Chen-Jui; Yang, Ting-I; Chen, Jiann‐Long; Wang, Wei-Kuang

doi:10.1371/journal.pone.0255137

Cited by 31 publications

(20 citation statements)

References 60 publications

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“…We expected to find a higher diversity in the neutral-pH zones (zones 1, 5, and 6), since other studies had previously reported that neutral-pH environments exhibit greater bacterial diversity when compared to with acidic soil environments, such as those of zones 2, 3, and 4 ( Fierer and Jackson, 2006 ; Xiao et al, 2021 ). In terms of representation, there was an overrepresentation of the Pseudomonadaceae family in the six zones, an expected result considering previous results from different heavy metal soil samples, including mine tailings ( Gagnon et al, 2020 ; Huang et al, 2021 ). The relative abundance of the Erwiniaceae family differed between zones, having a higher abundance in zones 2, 3, and 4 (old tailings).…”

Section: Resultssupporting

confidence: 65%

Co-occurrence Interaction Networks of Extremophile Species Living in a Copper Mining Tailing

et al. 2022

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Copper mining tailings are characterized by high concentrations of heavy metals and an acidic pH, conditions that require an extreme adaptation for any organism. Currently, several bacterial species have been isolated and characterized from mining environments; however, very little is known about the structure of microbial communities and how their members interact with each other under the extreme conditions where they live. This work generates a co-occurrence network, representing the bacterial soil community from the Cauquenes copper tailing, which is the largest copper waste deposit worldwide. A representative sampling of six zones from the Cauquenes tailing was carried out to determine pH, heavy metal concentration, total DNA extraction, and subsequent assignment of Operational Taxonomic Units (OTUs). According to the elemental concentrations and pH, the six zones could be grouped into two sectors: (1) the “new tailing,” characterized by neutral pH and low concentration of elements, and (2) the “old tailing,” having extremely low pH (~3.5) and a high concentration of heavy metals (mainly copper). Even though the abundance and diversity of species were low in both sectors, the Pseudomonadaceae and Flavobacteriaceae families were over-represented. Additionally, the OTU identifications allowed us to identify a series of bacterial species with diverse biotechnological potentials, such as copper bioleaching and drought stress alleviation in plants. Using the OTU information as a template, we generated co-occurrence networks for the old and new tailings. The resulting models revealed a rearrangement between the interactions of members living in the old and new tailings, and highlighted conserved bacterial drivers as key nodes, with positive interactions in the network of the old tailings, compared to the new tailings. These results provide insights into the structure of the soil bacterial communities growing under extreme environmental conditions in mines.

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Section: Resultssupporting

confidence: 65%

Co-occurrence Interaction Networks of Extremophile Species Living in a Copper Mining Tailing

et al. 2022

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“…In situ bioremediation uses naturally occurring bacteria to degrade contaminants in soil or water. In ex situ bioremediation, polluted soil is located in a lined above-ground treatment area of an indigenous microbial community [ 143 , 144 ].…”

Section: Methods Of Bioremediationmentioning

confidence: 99%

Heavy Metals and Human Health: Possible Exposure Pathways and the Competition for Protein Binding Sites

2021

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Heavy metals enter the human body through the gastrointestinal tract, skin, or via inhalation. Toxic metals have proven to be a major threat to human health, mostly because of their ability to cause membrane and DNA damage, and to perturb protein function and enzyme activity. These metals disturb native proteins’ functions by binding to free thiols or other functional groups, catalyzing the oxidation of amino acid side chains, perturbing protein folding, and/or displacing essential metal ions in enzymes. The review shows the physiological and biochemical effects of selected toxic metals interactions with proteins and enzymes. As environmental contamination by heavy metals is one of the most significant global problems, some detoxification strategies are also mentioned.

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“…The feature analysis of the NGS library showed Proteobacteria with a high frequency in all the samples irrespective of the arsenic components, which can be explained by the resistance or the tolerance mechanisms of Proteobacteria [12]. Numerous studies found Proteobacteria to be the main phylum [31-33]. The present study found Bacteroidetes to be the main phylum in the TDE.…”

Section: Discussionmentioning

confidence: 50%

A metagenomic approach to the molecular analysis of bacterial communities in tailings of a gold mine

Parsania

Mohammadi

Soudi

et al. 2022

Preprint

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Gold mine operations release arsenic pollutants in environment. The present study investigated the diversity of bacterial communities in the arsenic-contaminated tailings dam effluent (TDE) of Zarshuran gold mine, Takab, northwest of Iran. The bacterial communities were examined using the next-generation sequencing method (Illumina) targeting the V3-V4 region of 16S rRNA genes. Bacteroidetes (50.3%), Proteobacteria (45.49%), Actinobacteria (1.14%) and Firmicutes (1.08%) constituted dominant phyla in the TDE. Its diversity was analyzed, and compared with that of three previously-studied arsenic-contaminated groundwater (GW) microbiomes. The raw sequencing data were analyzed in QIIME2. The prevalent taxonomic groups observed in all of the samples belonged to Proteobacteria (8.06-45.49%), Bacteroidetes (1.85-50.32%), Firmicutes (1.00-6.2%), Actinobacteria (0.86-5.09%), Planctomycetes (0.05-9.37%) and Cyanobacteria (0.6-2.71%). According to Principal Coordinates Analysis (PCoA), the TDE and GW samples were divided into high and low groups, based on their arsenic content, respectively. The average numbers of observed alpha diversity indices, i.e. Pielou’s evenness and Faith’s phylogenetic diversity, were not significantly different (P=0.18, Kruskal-Wallis test). According to the beta diversity analysis (unweighted), the observed operational taxonomic units (OTUs) and the diversity of the bacterial populations were not significantly different in the TDE, compared to the GW samples (PERMANOVA, P=0.276, 999 Permutations).

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Shift of bacterial communities in heavy metal-contaminated agricultural land during a remediation process

Cited by 31 publications

References 60 publications

Co-occurrence Interaction Networks of Extremophile Species Living in a Copper Mining Tailing

Co-occurrence Interaction Networks of Extremophile Species Living in a Copper Mining Tailing

Heavy Metals and Human Health: Possible Exposure Pathways and the Competition for Protein Binding Sites

A metagenomic approach to the molecular analysis of bacterial communities in tailings of a gold mine

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