A metagenomics study of hexabromocyclododecane degradation with a soil microbial community

Li, Yijie; Chuang, Chia-Hsien; Cheng, Wen-Chih; Chen, Shu-Hwa; Chen, Wenling; Lin, Yu‐Jie; Lin, Chung‐Yen; Shih, Yang-hsin

doi:10.1016/j.jhazmat.2022.128465

Cited by 26 publications

(3 citation statements)

References 61 publications

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“…In the TU groups, the TU200 treatment enriched the relative abundances of Proteobacteria and Verrucomicrobia by 24.44% and 39.33%, respectively, compared to the TU50 treatment. The Verrucomicrobia phylum was reported to be capable of degrading refractory contaminants ( Li et al, 2022 ). Proteobacteria are common taxa in the environment and are the leading bacterial group at polluted sites ( Huang et al, 2021b ; Kabutey et al, 2019 ).…”

Section: Resultsmentioning

confidence: 99%

“…Despite Sphingomonas being the prevailing strain in the NP-M2 microbial agent, its enrichment at 24 d was not statistically significant. Likewise, Pseudomonas and Acidovorax were also not the dominant species in the J groups at 24 d, suggesting the presence of regulatory regularity within the soil system ( Li et al, 2022 ). In their study, Zheng et al (2018) documented the prevalence of Bacillus as the primary microorganism responsible for the degradation of NP during sludge composting, a finding that contrasts with the outcomes of our investigation.…”

Section: Resultsmentioning

confidence: 99%

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The unexpected effect of the compound microbial agent NP-M2 on microbial community dynamics in a nonylphenol-contaminated soil: the self-stability of soil ecosystem

Chen,

Zhang,

et al. 2024

PeerJ

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Background Nonylphenol (NP) is widely recognized as a crucial environmental endocrine-disrupting chemical and persistent toxic substance. The remediation of NP-contaminated sites primarily relies on biological degradation. Compound microbial products, as opposed to pure strains, possess a greater variety of metabolic pathways and can thrive in a wider range of environmental conditions. This characteristic is believed to facilitate the synergistic degradation of pollutants. Limited research has been conducted to thoroughly examine the potential compatibility of compound microbial agents with indigenous microflora, their ability to function effectively in practical environments, their capacity to enhance the dissipation of NP, and their potential to improve soil physicochemical and biological characteristics. Methods In order to efficiently eliminate NP in contaminated soil in an eco-friendly manner, a simulation study was conducted to investigate the impact of bioaugmentation using the functional compound microbial agent NP-M2 at varying concentrations (50 and 200 mg/L) on the dynamics of the soil microbial community. The treatments were set as follows: sterilized soil with 50 mg/kg NP (CK50) or 200 mg/kg NP (CK200); non-sterilized soil with 50 mg/kg NP (TU50) or 200 mg/kg NP (TU200); non-sterilized soil with the compound microbial agent NP-M2 at 50 mg/kg NP (J50) or 200 mg/kg NP (J200). Full-length 16S rRNA analysis was performed using the PacBio Sequel II platform. Results Both the indigenous microbes (TU50 and TU200 treatments) and the application of NP-M2 (J50 and J200 treatments) exhibited rapid NP removal, with removal rates ranging from 93% to 99%. The application of NP-M2 further accelerated the degradation rate of NP for a subtle lag period. Although the different treatments had minimal impacts on the soil bacterial α-diversity, they significantly altered the β-diversity and composition of the bacterial community. The dominant phyla were Proteobacteria (35.54%–44.14%), Acidobacteria (13.55%–17.07%), Planctomycetes (10.78%–11.42%), Bacteroidetes (5.60%–10.74%), and Actinobacteria (6.44%–8.68%). The core species were Luteitalea_pratensis, Pyrinomonas_methylaliphatogenes, Fimbriiglobus_ruber, Longimicrobium_terrae, and Massilia_sp003590855. The bacterial community structure and taxon distribution in polluted soils were significantly influenced by the activities of soil catalase, sucrase, and polyphenol oxidase, which were identified as the major environmental factors. Notably, the concentration of NP and, to a lesser extent, the compound microbial agent NP-M2 were found to cause major shifts in the bacterial community. This study highlights the importance of conducting bioremediation experiments in conjunction with microbiome assessment to better understand the impact of bioaugmentation/biostimulation on the potential functions of complex microbial communities present in contaminated soils, which is essential for bioremediation success.

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Section: Resultsmentioning

confidence: 99%

Section: Resultsmentioning

confidence: 99%

The unexpected effect of the compound microbial agent NP-M2 on microbial community dynamics in a nonylphenol-contaminated soil: the self-stability of soil ecosystem

Chen,

Zhang,

et al. 2024

PeerJ

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“…Throughout the treatment process, no dominant species of typical pathogenic bacteria, accounting for more than 1% of the population, were found. This suggests that the bacterial species composition within the entire three-compartment septic tank system effectively inhibited the proliferation of the four typical pathogenic bacteria [63]. Overall, analyzing the genus-level composition provides a more detailed understanding of specific bacterial groups and their contributions to the functioning of the three-compartment septic tank system.…”

Section: Microbial Diversity Changementioning

confidence: 98%

Investigation of the Mechanism for Removal of Typical Pathogenic Bacteria from Three-Compartment Septic Tanks under Low Temperature Conditions

Cheng,

Yang,

Huang

et al. 2023

Processes

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Three-compartment septic tanks are a prominently advocated environmentally sustainable sanitation facility in rural China. However, the comprehensive elimination efficacy and underlying mechanisms of pathogenic bacteria within septic tanks remain incompletely understood. In particular, the operational performance in low-temperature conditions has received limited attention in the existing literature. In this work, a simulation of the three-compartment septic tank treatment system was conducted under low-temperature conditions (15 °C). The operational results exemplify the synergistic interplay of volatile fatty acids (VFAs), NH3-N, and bacterial communities, culminating in a partial reduction in Enterococcus faecalis, Escherichia coli, Staphylococcus aureus, and Salmonella enteritidis, within the three-compartment septic tank. Their respective population abundances were decreased by magnitudes of 2.2, 1.3, 0.03, and 1.46 logarithmic units (copies/mL), respectively. Through the utilization of qPCR and physicochemical indicators, it was observed that the bactericidal effect of VFA primarily occurred during the initial 0–21-day period, while NH3-N consistently proved to be the most vital sterilizing agent throughout the operation of the three-compartment septic tank. Predominant bacterial communities within the septic tank, such as Christensenellaceae_R-7_group, Brevundimonas, Acinetobacter, and Saccharimonadales, exerted substantial inhibitory impacts on Enterococcus faecalis, Escherichia coli, and Salmonella enteritidis through niche competition and suppression. In essence, this study elucidated the actual efficiency of elimination and the underlying mechanisms of typical pathogenic bacteria within three-compartment septic tanks in low-temperature conditions, thereby providing compelling evidence supporting the viability of environmentally sound treatment using such septic tanks. Concurrently, it also shed light on several limitations associated with this treatment approach, aiming to contribute valuable insights for the assessment of ecological risks and health hazards associated with the environmentally benign treatment of rural toilet waste.

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Humibacter

Carro¹

2023

Bergey's Manual of Systematics of Archaea and Bacteria

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Hu.mi.bac'ter. L. masc. n. humus , earth, soil and, in earth sciences or agriculture, humus; N.L. masc. n. bacter , rod; N.L. masc. n. Humibacter , rod living in the humus. Actinobacteriota / Actinomycetia / Actinomycetales / Microbacteriaceae / Humibacter Cells are Gram‐stain‐positive rods (0.3–0.7 × 0.8–1.8 μm), non‐spore‐forming, motile, or nonmotile. Mesophilic and strictly aerobic chemo‐organotroph. Strains have been isolated from different types of soils, wood chips, and sewage sludge compost samples. In addition, one strain was obtained from a small intestine of castrated beef cattle. Produce acid phosphatase, leucine arylamidase, α‐glucosidase, and β‐glucosidase enzymes but not α‐chymotrypsin. The peptidoglycan contains 2,4‐diaminobutyric acid as diagnostic diamino acid and several strains also include ornithine. The major quinones are the menaquinones MK‐11 and MK‐12; in addition, MK‐10 can be present. The characteristic polar lipid is phosphatidylglycerol, while diphosphatidylglycerol and several unidentified phospholipids, glycolipids, aminolipids, and lipids could be present. Phylogenetically, a member of the family Microbacteriaceae . DNA G + C content (mol%) : 62–68 (HPLC, WGS). Type species : Humibacter albus Vaz‐Moreira et al. 2008a VP .

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A metagenomics study of hexabromocyclododecane degradation with a soil microbial community

Cited by 26 publications

References 61 publications

The unexpected effect of the compound microbial agent NP-M2 on microbial community dynamics in a nonylphenol-contaminated soil: the self-stability of soil ecosystem

The unexpected effect of the compound microbial agent NP-M2 on microbial community dynamics in a nonylphenol-contaminated soil: the self-stability of soil ecosystem

Investigation of the Mechanism for Removal of Typical Pathogenic Bacteria from Three-Compartment Septic Tanks under Low Temperature Conditions

Humibacter

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