Microbiome–environment interactions in antimony-contaminated rice paddies and the correlation of core microbiome with arsenic and antimony contamination

Li, Baoqin; Xu, Rui; Sun, Xiaoxu; Han, Fengpeng; Xiao, Enzong; Chen, Lei; Qiu, Lang; Sun, Weimin

doi:10.1016/j.chemosphere.2020.128227

Cited by 54 publications

(19 citation statements)

References 57 publications

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“…It is worth noting that Gemmatimonas of the phylum Gemmatimonadetes, and Flavisolibacter and Chitinophaga of the phylum Bacteroides also exhibit heavy metal/metalloid resistance in this work. For example, Gemmatimonas is tolerant to As ( Li et al, 2021a ), Flavisolibacter is tolerant to Pb and Zn ( Kasemodel et al, 2019 ), and Chitinophaga is tolerant to Ni, Cu, Zn, and Cd ( Chanda et al, 2017 ). The interaction between bacteria and heavy metals is complex, making it a challenge to understand the basic mechanisms.…”

Section: Discussionmentioning

confidence: 99%

Effects of Heavy Metals/Metalloids and Soil Properties on Microbial Communities in Farmland in the Vicinity of a Metals Smelter

Wang²,

Liu³

et al. 2021

Front. Microbiol.

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Microorganisms play a fundamental role in biogeochemical cycling and are highly sensitive to environmental factors, including the physiochemical properties of the soils and the concentrations of heavy metals/metalloids. In this study, high-throughput sequencing of the 16S rRNA gene was used to study the microbial communities of farmland soils in farmland in the vicinity of a lead–zinc smelter. Proteobacteria, Acidobacteria, Actinobacteria, Bacteroidetes, and Gemmatimonadetes were the predominant phyla in the sites of interest. Sphingomonas, Gemmatimonas, Lysobacter, Flavisolibacter, and Chitinophaga were heavy metal-/metalloid-tolerant microbial groups with potential for bioremediation of the heavy metal/metalloid contaminated soils. However, the bacterial diversity was different for the different sites. The contents of heavy metal/metalloid species and the soil properties were studied to evaluate the effect on the soil bacterial communities. The Mantel test revealed that soil pH, total cadmium (T-Cd), and available arsenic played a vital role in determining the structure of the microbial communities. Further, we analyzed statistically the heavy metals/metalloids and the soil properties, and the results revealed that the microbial richness and diversity were regulated mainly by the soil properties, which correlated positively with organic matter and available nitrogen, while available phosphorus and available potassium were negatively correlated. The functional annotation of the prokaryotic taxa (FAPROTAX) method was used to predict the function of the microbial communities. Chemoheterotrophy and airborne chemoheterotrophy of the main microbial community functions were inhibited by soil pH and the heavy metals/metalloids, except in the case of available lead. Mantel tests revealed that T-Cd and available zinc were the dominant factors affecting the functions of the microbial communities. Overall, the research indicated that in contaminated soils, the presence of multiple heavy metals/metalloids, and the soil properties synergistically shaped the structure and function of the microbial communities.

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Section: Discussionmentioning

confidence: 99%

Effects of Heavy Metals/Metalloids and Soil Properties on Microbial Communities in Farmland in the Vicinity of a Metals Smelter

Wang²,

Liu³

et al. 2021

Front. Microbiol.

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“…The microbial oxidation rate of Sb(III) is closely associated with their living environment (abiotic factor) and genetic characteristic ( Li et al, 2021 ). Abiotic factors, such as Sb form/solid phase, temperature, pH, type of carbon source, electron acceptor [dissolved oxygen (DO), nitrate], redox potential (Eh), and presence of iron/manganese (hydr)oxides, play a part in microbial oxidation of Sb(III).…”

Section: The Performance and Molecular Mechanism Of Sb-oxidizing Bacteriamentioning

confidence: 99%

A Critical Review of Resistance and Oxidation Mechanisms of Sb-Oxidizing Bacteria for the Bioremediation of Sb(III) Pollution

et al. 2021

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Antimony (Sb) is a priority pollutant in many countries and regions due to its chronic toxicity and potential carcinogenicity. Elevated concentrations of Sb in the environmental originating from mining and other anthropogenic sources are of particular global concern, so the prevention and control of the source of pollution and environment remediation are urgent. It is widely accepted that indigenous microbes play an important role in Sb speciation, mobility, bioavailability, and fate in the natural environment. Especially, antimony-oxidizing bacteria can promote the release of antimony from ore deposits to the wider environment. However, it can also oxidize the more toxic antimonite [Sb(III)] to the less-toxic antimonate [Sb(V)], which is considered as a potentially environmentally friendly and efficient remediation technology for Sb pollution. Therefore, understanding its biological oxidation mechanism has great practical significance to protect environment and human health. This paper reviews studies of the isolation, identification, diversity, Sb(III) resistance mechanisms, Sb(III) oxidation characteristics and mechanism and potential application of Sb-oxidizing bacteria. The aim is to provide a theoretical basis and reference for the diversity and metabolic mechanism of Sb-oxidizing bacteria, the prevention and control of Sb pollution sources, and the application of environment treatment for Sb pollution.

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“…Figure S10: Relative abundance of the top 12 genera in the different urine-derived fertilizer’s nutrient solutions before application, Figure S11: Differentially abundant OTUs between the NPK control-treated lettuce root-associated bacterial community samples and the NPK control nutrient solution, Figure S12: Differentially abundant OTUs between the ED concentrate-treated lettuce root-associated bacterial community samples and the ED concentrate nutrient solution, Figure S13: Differentially abundant OTUs between the hydrolyzed urine-treated lettuce root-associated bacterial community samples and the hydrolyzed urine nutrient solution, Figure S14: Differentially abundant OTUs between the K-struvite-treated lettuce root-associated bacterial community samples and the K-struvite nutrient solution, Table S1: Lettuce leaf number, leaf area, fresh weight (FW), dry weight (DW), and dry matter content regarding the urine-derived fertilizer treatments, Table S2: Lettuce leaf photosynthetic pigments and stress metabolites in respect to the urine-derived fertilizer treatments, Table S3: Lettuce organic acid content in respect to the urine-derived fertilizer treatments, Table S4: Lettuce leaf mineral analysis in respect to the urine-derived fertilizer treatments, Table S5: PerMANOVA with Holm adjustment for multiple comparison on Bray-Curtis distances and homogeneity of variances explained by the urine-derived fertilizers, Table S6: PerMANOVA with Holm adjustment for multiple comparison on Bray-Curtis distances and homogeneity of variances explained by root zone, Table S7: Indicator OTUs for the lettuce root-associated bacterial community NPK control samples ordered by the indicator value, Table S8: Top 20 indicator OTUs for the lettuce root-associated bacterial community ED concentrate samples ordered by the indicator value, Table S9: Top 20 indicator OTUs for the lettuce root-associated bacterial community hydrolyzed urine samples ordered by the indicator value, Table S10: Indicator OTUs for the lettuce root-associated bacterial community K-Struvite samples ordered by the indicator value, Table S11: The top 10 genera ordered by node degree in the lettuce root-associated bacterial community networks grouped per urine-derived fertilizer treatment, Table S12: The top 10 hubs ordered by Kleinberg’s hub centrality score in the lettuce root-associated bacterial community networks grouped per urine-derived fertilizer treatment, Table S13: The top 10 genera ordered by node degree in the lettuce root-associated bacterial community networks grouped per root zone, Table S14: The top 10 hubs ordered by Kleinberg’s hub centrality score in the lettuce root-associated bacterial community networks grouped per root zone, Table S15: Differentially abundant OTUs linked to the lettuce performance and nutritional composition metrics grouped per fertilizer treatment, Table S16: Overview of the habitats and characteristics of the key genera and families in the lettuce root-associated bacterial communities fertilized with urine-derived fertilizer. References [ 116 , 117 , 118 , 119 , 120 , 121 , 122 , 123 , 124 , 125 , 126 , 127 ,…”

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confidence: 99%

Root-Associated Bacterial Community Shifts in Hydroponic Lettuce Cultured with Urine-Derived Fertilizer

et al. 2021

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Recovery of nutrients from source-separated urine can truncate our dependency on synthetic fertilizers, contributing to more sustainable food production. Urine-derived fertilizers have been successfully applied in soilless cultures. However, little is known about the adaptation of the plant to the nutrient environment. This study investigated the impact of urine-derived fertilizers on plant performance and the root-associated bacterial community of hydroponically grown lettuce (Lactuca sativa L.). Shoot biomass, chlorophyll, phenolic, antioxidant, and mineral content were associated with shifts in the root-associated bacterial community structures. K-struvite, a high-performing urine-derived fertilizer, supported root-associated bacterial communities that overlapped most strongly with control NPK fertilizer. Contrarily, lettuce performed poorly with electrodialysis (ED) concentrate and hydrolyzed urine and hosted distinct root-associated bacterial communities. Comparing the identified operational taxonomic units (OTU) across the fertilizer conditions revealed strong correlations between specific bacterial genera and the plant physiological characteristics, salinity, and NO3-/NH4+ ratio. The root-associated bacterial community networks of K-struvite and NPK control fertilized plants displayed fewer nodes and node edges, suggesting that good plant growth performance does not require highly complex ecological interactions in hydroponic growth conditions.

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Microbiome–environment interactions in antimony-contaminated rice paddies and the correlation of core microbiome with arsenic and antimony contamination

Cited by 54 publications

References 57 publications

Effects of Heavy Metals/Metalloids and Soil Properties on Microbial Communities in Farmland in the Vicinity of a Metals Smelter

Effects of Heavy Metals/Metalloids and Soil Properties on Microbial Communities in Farmland in the Vicinity of a Metals Smelter

A Critical Review of Resistance and Oxidation Mechanisms of Sb-Oxidizing Bacteria for the Bioremediation of Sb(III) Pollution

Root-Associated Bacterial Community Shifts in Hydroponic Lettuce Cultured with Urine-Derived Fertilizer

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