1
|
Zhang Y, O'Loughlin EJ, Park SY, Kwon MJ. Effects of Fe(III) (hydr)oxide mineralogy on the development of microbial communities originating from soil, surface water, groundwater, and aerosols. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 905:166993. [PMID: 37717756 DOI: 10.1016/j.scitotenv.2023.166993] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/03/2023] [Revised: 09/09/2023] [Accepted: 09/09/2023] [Indexed: 09/19/2023]
Abstract
Microbial Fe(III) reduction is a key component of the iron cycle in natural environments. However, the susceptibility of Fe(III) (hydr)oxides to microbial reduction varies depending on the mineral's crystallinity, and the type of Fe(III) (hydr)oxide in turn will affect the composition of the microbial community. We created microcosm reactors with microbial communities from four different sources (soil, surface water, groundwater, and aerosols), three Fe(III) (hydr)oxides (lepidocrocite, goethite, and hematite) as electron acceptors, and acetate as an electron donor to investigate the shaping effect of Fe(III) mineral type on the development of microbial communities. During a 10-month incubation, changes in microbial community composition, Fe(III) reduction, and acetate utilization were monitored. Overall, there was greater reduction of lepidocrocite than of goethite and hematite, and the development of microbial communities originating from the same source diverged when supplied with different Fe(III) (hydr)oxides. Furthermore, each Fe(III) mineral was associated with unique taxa that emerged from different sources. This study illustrates the taxonomic diversity of Fe(III)-reducing microbes from a broad range of natural environments.
Collapse
Affiliation(s)
- Yidan Zhang
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
| | - Edward J O'Loughlin
- Biosciences Division, Argonne National Laboratory, Lemont, IL 60439, United States
| | - Su-Young Park
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea
| | - Man Jae Kwon
- Department of Earth and Environmental Sciences, Korea University, Seoul 02841, South Korea.
| |
Collapse
|
2
|
Rumora A, Hopkins L, Yim K, Baykus MF, Martinez L, Jimenez L. Detection and Characterization of Electrogenic Bacteria from Soils. BIOTECH 2023; 12:65. [PMID: 38131677 PMCID: PMC10871078 DOI: 10.3390/biotech12040065] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Revised: 11/21/2023] [Accepted: 11/28/2023] [Indexed: 12/23/2023] Open
Abstract
Soil microbial fuel cells (SMFCs) are bioelectrical devices powered by the oxidation of organic and inorganic compounds due to microbial activity. Seven soils were randomly selected from Bergen Community College or areas nearby, located in the state of New Jersey, USA, were used to screen for the presence of electrogenic bacteria. SMFCs were incubated at 35-37 °C. Electricity generation and electrogenic bacteria were determined using an application developed for cellular phones. Of the seven samples, five generated electricity and enriched electrogenic bacteria. Average electrical output for the seven SMFCs was 155 microwatts with the start-up time ranging from 1 to 11 days. The highest output and electrogenic bacterial numbers were found with SMFC-B1 with 143 microwatts and 2.99 × 109 electrogenic bacteria after 15 days. Optimal electrical output and electrogenic bacterial numbers ranged from 1 to 21 days. Microbial DNA was extracted from the top and bottom of the anode of SMFC-B1 using the ZR Soil Microbe DNA MiniPrep Protocol followed by PCR amplification of 16S rRNA V3-V4 region. Next-generation sequencing of 16S rRNA genes generated an average of 58 k sequences. BLAST analysis of the anode bacterial community in SMFC-B1 demonstrated that the predominant bacterial phylum was Bacillota of the class Clostridia (50%). However, bacteria belonging to the phylum Pseudomonadota (15%) such as Magnetospirillum sp. and Methylocaldum gracile were also part of the predominant electrogenic bacterial community in the anode. Unidentified uncultured bacteria accounted for 35% of the predominant bacterial community. Bioelectrical devices such as MFCs provide sustainable and clean alternatives to future applications for electricity generation, waste treatment, and biosensors.
Collapse
Affiliation(s)
| | | | | | | | | | - Luis Jimenez
- Biology and Horticulture Department, Bergen Community College, 400 Paramus Road, Paramus, NJ 07652, USA; (A.R.); (K.Y.); (L.M.)
| |
Collapse
|
3
|
Meng Y, Ma X, Luan F, Zhao Z, Li Y, Xiao X, Wang Q, Zhang J, Thandar SM. Sustainable enhancement of Cr(VI) bioreduction by the isolated Cr(VI)-resistant bacteria. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 812:152433. [PMID: 34942251 DOI: 10.1016/j.scitotenv.2021.152433] [Citation(s) in RCA: 8] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2021] [Revised: 12/10/2021] [Accepted: 12/11/2021] [Indexed: 06/14/2023]
Abstract
Bioreduction of mobile Cr(VI) to sparingly soluble Cr(III) is an effective strategy for in situ remediations of Cr contaminated sites. The key of this technology is to screen Cr(VI)-resistant bacteria and further explore the sustainable enhancement approaches towards their Cr(VI) reduction performance. In this study, a total of ten Cr(VI)-resistant bacteria were isolated from a Cr(VI) contaminated site. All of them could reduce Cr(VI), and the greatest extent of Cr(VI) reduction (98%) was obtained by the isolated CRB6 strain. The isolated CRB6 was able to reduce structural Fe(III) in Nontronite NAu-2 to structural Fe(II). Compared with the slow bioreduction process, the produced structural Fe(II) can rapidly enhance Cr(VI) reduction. The resist dissolution characteristics of NAu-2 in the redox cycling may provide sustainable enhancement of Cr(VI) reduction. However, no enhancement on Cr(VI) bioreduction by the isolated CRB6 was observed in the presence of NAu-2, which was attributed to the inhibition of Cr(VI) on the electron transfer between the isolated CRB6 and NAu-2. AQDS can accelerate the electron transfer between the isolated CRB6 and NAu-2 as an electron shuttle in the presence of Cr(VI). Therefore, the combination of NAu-2 and AQDS generated a synergistic enhancement on Cr(VI) bioreduction compared with the enhancement obtained by NAu-2 and AQDS individually. Our results highlight that structural Fe(III) and electron shuttle can provide a sustainable enhancement of Cr(VI) reduction by Cr(VI)-reducing bacteria, which has great potential for the effective Cr(VI) in-situ remediation.
Collapse
Affiliation(s)
- Ying Meng
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China
| | - Xiaoxu Ma
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; School of Geographical Sciences,Hebei Normal University; Hebei Key Laboratory of Environmental Change and Ecological Construction; Hebei Technology Innovation Center for Remote Sensing Identification of Environmental Change,Shijiazhuang 050024, PR China
| | - Fubo Luan
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Ziwang Zhao
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; University of Chinese Academy of Sciences, Beijing 100049, PR China
| | - Yuan Li
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; Geological Exploration and Research Institute, CNACG, Beijing 100039, PR China
| | - Xiao Xiao
- New World Environmental Protection Group, ZhuZhou 412007, PR China
| | - Qianqian Wang
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; School of Geographical Sciences,Hebei Normal University; Hebei Key Laboratory of Environmental Change and Ecological Construction; Hebei Technology Innovation Center for Remote Sensing Identification of Environmental Change,Shijiazhuang 050024, PR China
| | - Jianda Zhang
- School of Geographical Sciences,Hebei Normal University; Hebei Key Laboratory of Environmental Change and Ecological Construction; Hebei Technology Innovation Center for Remote Sensing Identification of Environmental Change,Shijiazhuang 050024, PR China.
| | - Soe Myat Thandar
- Key Laboratory of Drinking Water Science and Technology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, PR China; Department of Biotechnology, Mandalay Technological University, Ministry of Education, Mandalay, Myanmar.
| |
Collapse
|
4
|
Guo G, Liu C, Hao J, Tian F, Ding K, Zhang C, Yang F, Liu T, Xu J, Guan Z. Development and characterization of a halo-thermophilic bacterial consortium for decolorization of azo dye. CHEMOSPHERE 2021; 272:129916. [PMID: 33601203 DOI: 10.1016/j.chemosphere.2021.129916] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/25/2020] [Revised: 01/14/2021] [Accepted: 02/06/2021] [Indexed: 06/12/2023]
Abstract
Textile wastewater is characterized by high salinity and high temperature, and azo dye decolorization by mixed cultures under extreme salinity and thermophilic environments has received little attention. High salinity and temperature inhibit the biodecolorization efficiency in textile wastewater. In the present study, a halo-thermophilic bacterial consortium (HT1) that can decolorize azo dye at 10% salinity and 50 °C was enriched. Bacillus was the dominant genus, and this genus may play a key role in the decolorization process. HT1 can decolorize metanil yellow G (MYG) at a wide range of pH values (6-8), temperatures (40-60 °C), dye concentrations (100-200 mg/L) and salinities (1-15%). Laccase, manganese peroxidase, lignin peroxidase and azoreductase are involved in the decolorization process of MYG. In addition, the decolorization pathway of MYG was proposed based on GC-MS and FTIR results. The toxicity of MYG decreased after decolorization by HT1. A metagenomic sequencing approach was applied to identify the functional genes involved in degradation. Overall, this halo-thermophilic bacterial consortium could be a promising candidate for the treatment of textile wastewater under elevated temperature and salinity conditions.
Collapse
Affiliation(s)
- Guang Guo
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China
| | - Chong Liu
- Chinese Academy of Agricultural Sciences, Institute of Environment and Sustainable Development in Agriculture, Beijing, 100081, China
| | - Jiuxiao Hao
- China National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, College of Environmental and Energy Engineering, Beijing University of Technology, Beijing, 100124, China
| | - Fang Tian
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China.
| | - Keqiang Ding
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China
| | - Can Zhang
- Center for Disease Prevention and Control of Chinese PLA, Beijing, 100071, China.
| | - Feng Yang
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China
| | - Tingfeng Liu
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China
| | - Jin Xu
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing, 211167, China
| | - Zhengbing Guan
- The Key Laboratory of Industrial Biotechnology, Ministry of Education, School of Biotechnology, Jiangnan University, Wuxi, 214122, China
| |
Collapse
|
5
|
Pham DM, Kasai T, Yamaura M, Katayama A. Humin: No longer inactive natural organic matter. CHEMOSPHERE 2021; 269:128697. [PMID: 33139048 DOI: 10.1016/j.chemosphere.2020.128697] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/03/2020] [Revised: 10/18/2020] [Accepted: 10/19/2020] [Indexed: 06/11/2023]
Abstract
The discovery of the function of humin (HM), an insoluble fraction of humic substances (HSs), as an extracellular electron mediator (EEM) in 2012 has provided insight into the role of HM in nature and its potential for in situ bioremediation of pollutants. The EEM function is thought to enable the energy network of various microorganisms using HM. Recently, a number of studies on the application of HM as EEM in anaerobic microbial cultures have been conducted. Even so, there is a need for developing a holistic view of HM EEM function. In this paper, we summarize all the available information on the properties of HM EEM function, its applications, possible redox-active structures, and the interaction between HM and microbial cells. We also suggest scopes for future HM research.
Collapse
Affiliation(s)
- Duyen Minh Pham
- Institute of Materials and Systems for Sustainability, Nagoya University, Nagoya, 464-8603, Japan
| | - Takuya Kasai
- Institute of Materials and Systems for Sustainability, Nagoya University, Nagoya, 464-8603, Japan; Department of Civil Engineering, Graduate School of Engineering, Nagoya University, Nagoya, 464-8603, Japan
| | - Mirai Yamaura
- Department of Civil Engineering, Graduate School of Engineering, Nagoya University, Nagoya, 464-8603, Japan
| | - Arata Katayama
- Institute of Materials and Systems for Sustainability, Nagoya University, Nagoya, 464-8603, Japan; Department of Civil Engineering, Graduate School of Engineering, Nagoya University, Nagoya, 464-8603, Japan.
| |
Collapse
|
6
|
Guo G, Hao J, Tian F, Liu C, Ding K, Zhang C, Yang F, Xu J. Decolorization of Metanil Yellow G by a halophilic alkalithermophilic bacterial consortium. BIORESOURCE TECHNOLOGY 2020; 316:123923. [PMID: 32763804 DOI: 10.1016/j.biortech.2020.123923] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2020] [Revised: 07/22/2020] [Accepted: 07/24/2020] [Indexed: 06/11/2023]
Abstract
Increased temperature, salinity and alkalinity restrict the biodecolorization rate of textile wastewater. In the present study, the halophilic alkalithermophilic bacterial consortium ZSY, which can decolorize azo dyes under 10% salinity, pH 10 and 50 °C, was enriched. It can decolorize Metanil Yellow G (MYG) under a wide range of pH values (8-10), temperatures (40-50 °C), dye concentrations (100-400 mg/L) and salinity levels (1%-10%). Laccase (Lac), lignin peroxidase (Lip), nicotinamide adenine dinucleotide-dichlorophenol indophenol reductase (NADH-DCIP) and azoreductase are involved in the decolorization process. A decolorization pathway of MYG was proposed via gas chromatography-mass spectrometry (GC-MS) and Fourier transform infrared spectroscopy (FTIR). The toxicity of MYG decreased after decolorization by ZSY consortium. A metagenomic sequencing approach was subsequently applied to identify the functional genes involved in decolorization. Overall, this halophilic alkalithermophilic bacterial consortium could be a promising candidate for the treatment of textile wastewater in environments with increased temperature, salinity and alkalinity.
Collapse
Affiliation(s)
- Guang Guo
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing 211167, China
| | - Jiuxiao Hao
- National Engineering Laboratory for Advanced Municipal Wastewater Treatment and Reuse Technology, College of Environmental and Energy Engineering, Beijing University of Technology, Beijing 100124, China
| | - Fang Tian
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing 211167, China.
| | - Chong Liu
- Chinese Academy of Agricultural Sciences, Institute of Environment and Sustainable Development in Agriculture, Beijing 100081, China
| | - Keqiang Ding
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing 211167, China
| | - Can Zhang
- Center for Disease Prevention and Control of Chinese PLA, Beijing 100071, China
| | - Feng Yang
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing 211167, China
| | - Jin Xu
- College of Environmental Engineering, Nanjing Institute of Technology, Nanjing 211167, China
| |
Collapse
|
7
|
Yee MO, Deutzmann J, Spormann A, Rotaru AE. Cultivating electroactive microbes-from field to bench. NANOTECHNOLOGY 2020; 31:174003. [PMID: 31931483 DOI: 10.1088/1361-6528/ab6ab5] [Citation(s) in RCA: 35] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Electromicrobiology is an emerging field investigating and exploiting the interaction of microorganisms with insoluble electron donors or acceptors. Some of the most recently categorized electroactive microorganisms became of interest to sustainable bioengineering practices. However, laboratories worldwide typically maintain electroactive microorganisms on soluble substrates, which often leads to a decrease or loss of the ability to effectively exchange electrons with solid electrode surfaces. In order to develop future sustainable technologies, we cannot rely solely on existing lab-isolates. Therefore, we must develop isolation strategies for environmental strains with electroactive properties superior to strains in culture collections. In this article, we provide an overview of the studies that isolated or enriched electroactive microorganisms from the environment using an anode as the sole electron acceptor (electricity-generating microorganisms) or a cathode as the sole electron donor (electricity-consuming microorganisms). Next, we recommend a selective strategy for the isolation of electroactive microorganisms. Furthermore, we provide a practical guide for setting up electrochemical reactors and highlight crucial electrochemical techniques to determine electroactivity and the mode of electron transfer in novel organisms.
Collapse
Affiliation(s)
- Mon Oo Yee
- Nordcee, Department of Biology, University of Southern Denmark, Odense, DK-5230, Denmark
| | | | | | | |
Collapse
|
8
|
Mössbauer and EPR study of ferrihydrite and siderite biotransformations by a syntrophic culture of alkaliphilic bacteria. J Mol Struct 2020. [DOI: 10.1016/j.molstruc.2019.127606] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022]
|
9
|
Li M, Wang D, Liu X, Sun J. Evaluation and correction on quinones' quantification errors: Derived from the coexistence of different quinone species and pH-sensitive feature. CHEMOSPHERE 2019; 230:67-75. [PMID: 31102873 DOI: 10.1016/j.chemosphere.2019.04.146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/14/2018] [Revised: 04/14/2019] [Accepted: 04/19/2019] [Indexed: 06/09/2023]
Abstract
Quinones are becoming an essential tool for refractory organics treatment, while their quantification may be not well-considered. In this paper, two kinds of potential errors in quantification were evaluated in multiple pH conditions. They were derived from the coexistence of oxidized/reduced quinone species (Type I) and pH-sensitive feature (Type II), respectively. These errors would remarkably influence the accuracy of quantification while they haven't been emphasized. Thus, to elaborate the relationship between the two types of errors and the absorbance or pH conditions, three typical quinones [Anthraquinone-1-sulfonate (α-AQS), anthraquinone-2,6-disulfonate (AQDS) and lawsone] were selected and their acid dissociation coefficients (pKa) as well as UV-Vis spectra were determined. Results revealed that, for Type I, the relative error (RE) of α-AQS concentration would exceed the limit (5%) when reduced α-AQS was below 48% of total α-AQS. Similar results were found for lawsone. However, the RE can be eliminated by the equation established in this paper. For Type II, the pH-sensitive feature was related to the pKa values of quinones. Absorbances of α-AQS and lawsone would change remarkably with pH variation. Therefore, a model for correction was established. Analog data showed high consistency with experimental data [r = 0.995 (n = 25, p < 0.01) and r = 0.997 (n = 36, p < 0.01), for lawsone and α-AQS respectively]. Especially, the determination of AQDS concentrations was noticed to be pH-independent at 437 nm under pH 4.00 to 9.18 conditions. Based on these features, a comprehensive data solution was proposed for handling these errors.
Collapse
Affiliation(s)
- Meng Li
- School of Environmental Science and Engineering, Tianjin University, Tianjin, 300350, PR China; State Key Laboratory of Hydraulic Engineering Simulation and Safety, Tianjin University, Tianjin, 300350, PR China.
| | - Dong Wang
- School of Environmental Science and Engineering, Tianjin University, Tianjin, 300350, PR China; State Key Laboratory of Hydraulic Engineering Simulation and Safety, Tianjin University, Tianjin, 300350, PR China.
| | - Xiaoduo Liu
- School of Environmental Science and Engineering, Tianjin University, Tianjin, 300350, PR China; State Key Laboratory of Hydraulic Engineering Simulation and Safety, Tianjin University, Tianjin, 300350, PR China.
| | - Jingmei Sun
- School of Environmental Science and Engineering, Tianjin University, Tianjin, 300350, PR China; State Key Laboratory of Hydraulic Engineering Simulation and Safety, Tianjin University, Tianjin, 300350, PR China.
| |
Collapse
|
10
|
Analysis of the microbiota involved in the early changes associated with indigo reduction in the natural fermentation of indigo. World J Microbiol Biotechnol 2019; 35:123. [DOI: 10.1007/s11274-019-2699-5] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/15/2019] [Accepted: 07/17/2019] [Indexed: 01/01/2023]
|
11
|
Piché-Choquette S, Constant P. Molecular Hydrogen, a Neglected Key Driver of Soil Biogeochemical Processes. Appl Environ Microbiol 2019; 85:e02418-18. [PMID: 30658976 PMCID: PMC6414374 DOI: 10.1128/aem.02418-18] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
The atmosphere of the early Earth is hypothesized to have been rich in reducing gases such as hydrogen (H2). H2 has been proposed as the first electron donor leading to ATP synthesis due to its ubiquity throughout the biosphere as well as its ability to easily diffuse through microbial cells and its low activation energy requirement. Even today, hydrogenase enzymes enabling the production and oxidation of H2 are found in thousands of genomes spanning the three domains of life across aquatic, terrestrial, and even host-associated ecosystems. Even though H2 has already been proposed as a universal growth and maintenance energy source, its potential contribution as a driver of biogeochemical cycles has received little attention. Here, we bridge this knowledge gap by providing an overview of the classification, distribution, and physiological role of hydrogenases. Distribution of these enzymes in various microbial functional groups and recent experimental evidence are finally integrated to support the hypothesis that H2-oxidizing microbes are keystone species driving C cycling along O2 concentration gradients found in H2-rich soil ecosystems. In conclusion, we suggest focusing on the metabolic flexibility of H2-oxidizing microbes by combining community-level and individual-level approaches aiming to decipher the impact of H2 on C cycling and the C-cycling potential of H2-oxidizing microbes, via both culture-dependent and culture-independent methods, to give us more insight into the role of H2 as a driver of biogeochemical processes.
Collapse
|
12
|
Xu X, Zarecki R, Medina S, Ofaim S, Liu X, Chen C, Hu S, Brom D, Gat D, Porob S, Eizenberg H, Ronen Z, Jiang J, Freilich S. Modeling microbial communities from atrazine contaminated soils promotes the development of biostimulation solutions. ISME JOURNAL 2018; 13:494-508. [PMID: 30291327 DOI: 10.1038/s41396-018-0288-5] [Citation(s) in RCA: 72] [Impact Index Per Article: 12.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Revised: 09/10/2018] [Accepted: 09/14/2018] [Indexed: 12/26/2022]
Abstract
Microbial communities play a vital role in biogeochemical cycles, allowing the biodegradation of a wide range of pollutants. The composition of the community and the interactions between its members affect degradation rate and determine the identity of the final products. Here, we demonstrate the application of sequencing technologies and metabolic modeling approaches towards enhancing biodegradation of atrazine-a herbicide causing environmental pollution. Treatment of agriculture soil with atrazine is shown to induce significant changes in community structure and functional performances. Genome-scale metabolic models were constructed for Arthrobacter, the atrazine degrader, and four other non-atrazine degrading species whose relative abundance in soil was changed following exposure to the herbicide. By modeling community function we show that consortia including the direct degrader and non-degrader differentially abundant species perform better than Arthrobacter alone. Simulations predict that growth/degradation enhancement is derived by metabolic exchanges between community members. Based on simulations we designed endogenous consortia optimized for enhanced degradation whose performances were validated in vitro and biostimulation strategies that were tested in pot experiments. Overall, our analysis demonstrates that understanding community function in its wider context, beyond the single direct degrader perspective, promotes the design of biostimulation strategies.
Collapse
Affiliation(s)
- Xihui Xu
- Department of Microbiology, Key Lab of Microbiology for Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China.,Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel
| | - Raphy Zarecki
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel
| | - Shlomit Medina
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel
| | - Shany Ofaim
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel.,Faculty of Biotechnology and Food Engineering, Technion-Israel Institute of Technology, Haifa, Israel
| | - Xiaowei Liu
- Department of Microbiology, Key Lab of Microbiology for Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Chen Chen
- Department of Microbiology, Key Lab of Microbiology for Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Shunli Hu
- Department of Microbiology, Key Lab of Microbiology for Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Dan Brom
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel
| | - Daniella Gat
- Department of Environmental Hydrology and Microbiology, The Zuckerberg Institute for Water Research, Ben-Gurion University of the Negev, Sede-Boqer Campus, Sede-Boqer, 8499000, Israel
| | - Seema Porob
- Department of Environmental Hydrology and Microbiology, The Zuckerberg Institute for Water Research, Ben-Gurion University of the Negev, Sede-Boqer Campus, Sede-Boqer, 8499000, Israel
| | - Hanan Eizenberg
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel
| | - Zeev Ronen
- Department of Environmental Hydrology and Microbiology, The Zuckerberg Institute for Water Research, Ben-Gurion University of the Negev, Sede-Boqer Campus, Sede-Boqer, 8499000, Israel
| | - Jiandong Jiang
- Department of Microbiology, Key Lab of Microbiology for Agricultural Environment, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, 210095, China.
| | - Shiri Freilich
- Newe Ya'ar Research Center, Agricultural Research Organization, P.O. Box 1021, Ramat Yishay, 30095, Israel.
| |
Collapse
|
13
|
Aino K, Hirota K, Okamoto T, Tu Z, Matsuyama H, Yumoto I. Microbial Communities Associated With Indigo Fermentation That Thrive in Anaerobic Alkaline Environments. Front Microbiol 2018; 9:2196. [PMID: 30279681 PMCID: PMC6153312 DOI: 10.3389/fmicb.2018.02196] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 08/28/2018] [Indexed: 12/31/2022] Open
Abstract
Indigo fermentation, which depends on the indigo-reducing action of microorganisms, has traditionally been performed to dye textiles blue in Asia as well as in Europe. This fermentation process is carried out by naturally occurring microbial communities and occurs under alkaline, anaerobic conditions. Therefore, there is uncertainty regarding the fermentation process, and many unknown microorganisms thrive in this unique fermentation environment. Until recently, there was limited information available on bacteria associated with this fermentation process. Indigo reduction normally occurs from 4 days to 2 weeks after initiation of fermentation. However, the changes in the microbiota that occur during the transition to an indigo-reducing state have not been elucidated. Here, the structural changes in the bacterial community were estimated by PCR-based methods. On the second day of fermentation, a large change in the redox potential occurred. On the fourth day, distinct substitution of the genus Halomonas with the aerotolerant genus Amphibacillus was observed, corresponding to marked changes in indigo reduction. Under open-air conditions, indigo reduction during the fermentation process continued for 6 months on average. The microbiota, including indigo-reducing bacteria, was continuously replaced with other microbial communities that consisted of other types of indigo-reducing bacteria. A stable state consisting mainly of the genus Anaerobacillus was also observed in a long-term fermentation sample. The stability of the microbiota, proportion of indigo-reducing microorganisms, and appropriate diversity and microbiota within the fluid may play key factors in the maintenance of a reducing state during long-term indigo fermentation. Although more than 10 species of indigo-reducing bacteria were identified, the reduction mechanism of indigo particle is riddle. It can be predicted that the mechanism involves electrons, as byproducts of metabolism, being discarded by analogs mechanisms reported in bacterial extracellular solid Fe3+ reduction under alkaline anaerobic condition.
Collapse
Affiliation(s)
- Keiichi Aino
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Sapporo, Japan
- Department of Bioscience and Technology, School of Biological Science and Engineering, Tokai University, Hiratsuka-shi, Japan
| | - Kikue Hirota
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Sapporo, Japan
| | - Takahiro Okamoto
- Graduate School of Agriculture, Hokkaido University, Sapporo, Japan
| | - Zhihao Tu
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Sapporo, Japan
- Department of Bioscience and Technology, School of Biological Science and Engineering, Tokai University, Hiratsuka-shi, Japan
| | | | - Isao Yumoto
- Bioproduction Research Institute, National Institute of Advanced Industrial Science and Technology, Sapporo, Japan
- Department of Bioscience and Technology, School of Biological Science and Engineering, Tokai University, Hiratsuka-shi, Japan
| |
Collapse
|
14
|
Lipczynska-Kochany E. Humic substances, their microbial interactions and effects on biological transformations of organic pollutants in water and soil: A review. CHEMOSPHERE 2018; 202:420-437. [PMID: 29579677 DOI: 10.1016/j.chemosphere.2018.03.104] [Citation(s) in RCA: 138] [Impact Index Per Article: 23.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/10/2017] [Revised: 02/19/2018] [Accepted: 03/15/2018] [Indexed: 05/27/2023]
Abstract
Depicted as large polymers by the traditional model, humic substances (HS) tend to be considered resistant to biodegradation. However, HS should be regarded as supramolecular associations of rather small molecules. There is evidence that they can be degraded not only by aerobic but also by anaerobic bacteria. HS presence alters biological transformations of organic pollutants in water and soil. HS, including humin, have a great potential for an application in aerobic and anaerobic wastewater treatment as well as in bioremediation. Black carbon materials, including char (biochar) and activated carbon (AC), long recognized effective sorbents, have been recently discovered to act as effective redox mediators (RM), which may significantly accelerate degradation of organic pollutants in a way similar to HS. Humic-like coating on the biochar surface has been identified. Explanation of mechanisms and possibility of applications of black carbon materials have only started to be explored. Results of many original and review papers, presented and discussed in this article, show an enormous potential for an interesting, multidisciplinary research as well as for a development of new, green technologies for biological wastewater treatment and bioremediation. Future research areas have been suggested.
Collapse
|
15
|
Yamamura S, Sudo T, Watanabe M, Tsuboi S, Soda S, Ike M, Amachi S. Effect of extracellular electron shuttles on arsenic-mobilizing activities in soil microbial communities. JOURNAL OF HAZARDOUS MATERIALS 2018; 342:571-578. [PMID: 28888188 DOI: 10.1016/j.jhazmat.2017.08.071] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2017] [Revised: 08/25/2017] [Accepted: 08/29/2017] [Indexed: 06/07/2023]
Abstract
Microbially mediated arsenate (As(V)) and Fe(III) reduction play important roles in arsenic (As) cycling in nature. Extracellular electron shuttles can impact microbial Fe(III) reduction, yet little is known about their effects on microbial As mobilization in soils. In this study, microcosm experiments consisting of an As-contaminated soil and microbial communities obtained from several pristine soils were conducted, and the effects of electron shuttles on As mobilization were determined. Anthraquinone-2,6-disulfonate (AQDS) and riboflavin (RF) were chosen as common exogenous and biogenic electron shuttles, respectively, and both compounds significantly enhanced reductive dissolution of As and Fe. Accumulation of Fe(II)-bearing minerals was also observed, which may lead to re-immobilization of As after prolonged incubation. Interestingly, Firmicutes-related bacteria became predominant in all microcosms, but their compositions at the lower taxonomic level were different in each microcosm. Putative respiratory As(V) reductase gene (arrA) analysis revealed that bacteria closely related to a Clostridia group, especially those including the genera Desulfitobacterium and Desulfosporosinus, might play significant roles in As mobilization. These results indicate that the natural soil microbial community can use electron shuttles for enhanced mobilization of As; the use of this type of system is potentially advantageous for bioremediation of As-contaminated soils.
Collapse
Affiliation(s)
- Shigeki Yamamura
- Center for Regional Environmental Research, National Institute for Environmental Studies, 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan.
| | - Takayuki Sudo
- Graduate School of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba 271-8510, Japan
| | - Mirai Watanabe
- Center for Regional Environmental Research, National Institute for Environmental Studies, 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan
| | - Shun Tsuboi
- Center for Regional Environmental Research, National Institute for Environmental Studies, 16-2 Onogawa, Tsukuba, Ibaraki 305-8506, Japan
| | - Satoshi Soda
- Division of Sustainable Energy and Environmental Engineering, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Michihiko Ike
- Division of Sustainable Energy and Environmental Engineering, Graduate School of Engineering, Osaka University, 2-1 Yamadaoka, Suita, Osaka 565-0871, Japan
| | - Seigo Amachi
- Graduate School of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba 271-8510, Japan
| |
Collapse
|
16
|
Grattieri M, Minteer SD. Microbial fuel cells in saline and hypersaline environments: Advancements, challenges and future perspectives. Bioelectrochemistry 2017; 120:127-137. [PMID: 29248860 DOI: 10.1016/j.bioelechem.2017.12.004] [Citation(s) in RCA: 54] [Impact Index Per Article: 7.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/28/2017] [Revised: 12/05/2017] [Accepted: 12/08/2017] [Indexed: 11/25/2022]
Abstract
This review is aimed to report the possibility to utilize microbial fuel cells for the treatment of saline and hypersaline solutions. An introduction to the issues related with the biological treatment of saline and hypersaline wastewater is reported, discussing the limitation that characterizes classical aerobic and anaerobic digestions. The microbial fuel cell (MFC) technology, and the possibility to be applied in the presence of high salinity, is discussed before reviewing the most recent advancements in the development of MFCs operating in saline and hypersaline conditions, with their different and interesting applications. Specifically, the research performed in the last 5years will be the main focus of this review. Finally, the future perspectives for this technology, together with the most urgent research needs, are presented.
Collapse
Affiliation(s)
- Matteo Grattieri
- Departments of Chemistry and Materials Science and Engineering, University of Utah, 315 S 1400 E Rm 2020, Salt Lake City, UT 84112, USA.
| | - Shelley D Minteer
- Departments of Chemistry and Materials Science and Engineering, University of Utah, 315 S 1400 E Rm 2020, Salt Lake City, UT 84112, USA
| |
Collapse
|
17
|
Yuan Y, Xi B, He X, Tan W, Gao R, Zhang H, Yang C, Zhao X, Huang C, Li D. Compost-derived humic acids as regulators for reductive degradation of nitrobenzene. JOURNAL OF HAZARDOUS MATERIALS 2017; 339:378-384. [PMID: 28668755 DOI: 10.1016/j.jhazmat.2017.06.047] [Citation(s) in RCA: 53] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/16/2016] [Revised: 06/18/2017] [Accepted: 06/20/2017] [Indexed: 06/07/2023]
Abstract
Nitrobenzene (NB) is a major class of contaminants in soil and groundwater. The current methods involved in the reductive degradation of NB suffer either cost-ineffective or slow conversion rate. Here, we investigated the mechanisms regarding compost-derived humic acids (HAs) as cost-effective regulators to enhance the reduction of NB to aniline (AN). Our results show that the compost-derived HAs, which have been reduced by a Pd-H2 catalytic system, were able to reduce NB to AN, and their redox properties were the main factors governing the reduction of NB to AN. The decreasing reduction of NB was mainly caused by the decreasing phenol content of compost-derived HAs during composting. In addition, the results reveal that the increase in the generation content of AN was mainly attributed to the increase in the quinones, aromaticity and humic-like components of compost-derived HAs. The findings demonstrate that the HAs derived from compost are effective regulators to enhance the reduction of NB to AN, and that they exert a bright application prospect for the remediation of the NB-contaminated soil.
Collapse
Affiliation(s)
- Ying Yuan
- College of Water Sciences, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Beidou Xi
- College of Water Sciences, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Xiaosong He
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China.
| | - Wenbing Tan
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Rutai Gao
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Hui Zhang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Chao Yang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Xinyu Zhao
- College of Water Sciences, Beijing Normal University, Beijing 100875, China; State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Caihong Huang
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| | - Dan Li
- State Key Laboratory of Environmental Criteria and Risk Assessment, Chinese Research Academy of Environmental Sciences, Beijing 100012, China; State Environmental Protection Key laboratory of Simulation and Control of Groundwater Pollution, Chinese Research Academy of Environmental Sciences, Beijing 100012, China
| |
Collapse
|
18
|
Orenia metallireducens sp. nov. Strain Z6, a Novel Metal-Reducing Member of the Phylum Firmicutes from the Deep Subsurface. Appl Environ Microbiol 2016; 82:6440-6453. [PMID: 27565620 DOI: 10.1128/aem.02382-16] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2016] [Accepted: 08/19/2016] [Indexed: 12/11/2022] Open
Abstract
A novel halophilic and metal-reducing bacterium, Orenia metallireducens strain Z6, was isolated from briny groundwater extracted from a 2.02 km-deep borehole in the Illinois Basin, IL. This organism shared 96% 16S rRNA gene similarity with Orenia marismortui but demonstrated physiological properties previously unknown for this genus. In addition to exhibiting a fermentative metabolism typical of the genus Orenia, strain Z6 reduces various metal oxides [Fe(III), Mn(IV), Co(III), and Cr(VI)], using H2 as the electron donor. Strain Z6 actively reduced ferrihydrite over broad ranges of pH (6 to 9.6), salinity (0.4 to 3.5 M NaCl), and temperature (20 to 60°C). At pH 6.5, strain Z6 also reduced more crystalline iron oxides, such as lepidocrocite (γ-FeOOH), goethite (α-FeOOH), and hematite (α-Fe2O3). Analysis of X-ray absorption fine structure (XAFS) following Fe(III) reduction by strain Z6 revealed spectra from ferrous secondary mineral phases consistent with the precipitation of vivianite [Fe3(PO4)2] and siderite (FeCO3). The draft genome assembled for strain Z6 is 3.47 Mb in size and contains 3,269 protein-coding genes. Unlike the well-understood iron-reducing Shewanella and Geobacter species, this organism lacks the c-type cytochromes for typical Fe(III) reduction. Strain Z6 represents the first bacterial species in the genus Orenia (order Halanaerobiales) reported to reduce ferric iron minerals and other metal oxides. This microbe expands both the phylogenetic and physiological scopes of iron-reducing microorganisms known to inhabit the deep subsurface and suggests new mechanisms for microbial iron reduction. These distinctions from other Orenia spp. support the designation of strain Z6 as a new species, Orenia metallireducens sp. nov. IMPORTANCE A novel iron-reducing species, Orenia metallireducens sp. nov., strain Z6, was isolated from groundwater collected from a geological formation located 2.02 km below land surface in the Illinois Basin, USA. Phylogenetic, physiologic, and genomic analyses of strain Z6 found it to have unique properties for iron reducers, including (i) active microbial iron-reducing capacity under broad ranges of temperatures (20 to 60°C), pHs (6 to 9.6), and salinities (0.4 to 3.5 M NaCl), (ii) lack of c-type cytochromes typically affiliated with iron reduction in Geobacter and Shewanella species, and (iii) being the only member of the Halanaerobiales capable of reducing crystalline goethite and hematite. This study expands the scope of phylogenetic affiliations, metabolic capacities, and catalytic mechanisms for iron-reducing microbes.
Collapse
|
19
|
Heterogeneity of the electron exchange capacity of kitchen waste compost-derived humic acids based on fluorescence components. Anal Bioanal Chem 2016; 408:7825-7833. [DOI: 10.1007/s00216-016-9885-1] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2016] [Revised: 08/01/2016] [Accepted: 08/16/2016] [Indexed: 10/21/2022]
|
20
|
Bacillus nitroreducens sp. nov., a humus-reducing bacterium isolated from a compost. Arch Microbiol 2016; 198:347-52. [DOI: 10.1007/s00203-016-1193-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2015] [Revised: 12/28/2015] [Accepted: 01/14/2016] [Indexed: 10/22/2022]
|
21
|
Dopson M, Ni G, Sleutels THJA. Possibilities for extremophilic microorganisms in microbial electrochemical systems. FEMS Microbiol Rev 2015; 40:164-81. [PMID: 26474966 PMCID: PMC4802824 DOI: 10.1093/femsre/fuv044] [Citation(s) in RCA: 79] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 09/16/2015] [Indexed: 11/12/2022] Open
Abstract
Microbial electrochemical systems exploit the metabolism of microorganisms to generate electrical energy or a useful product. In the past couple of decades, the application of microbial electrochemical systems has increased from the use of wastewaters to produce electricity to a versatile technology that can use numerous sources for the extraction of electrons on the one hand, while on the other hand these electrons can be used to serve an ever increasing number of functions. Extremophilic microorganisms grow in environments that are hostile to most forms of life and their utilization in microbial electrochemical systems has opened new possibilities to oxidize substrates in the anode and produce novel products in the cathode. For example, extremophiles can be used to oxidize sulfur compounds in acidic pH to remediate wastewaters, generate electrical energy from marine sediment microbial fuel cells at low temperatures, desalinate wastewaters and act as biosensors of low amounts of organic carbon. In this review, we will discuss the recent advances that have been made in using microbial catalysts under extreme conditions and show possible new routes that extremophilic microorganisms open for microbial electrochemical systems.
Collapse
Affiliation(s)
- Mark Dopson
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, SE-391 82 Kalmar, Sweden
| | - Gaofeng Ni
- Centre for Ecology and Evolution in Microbial Model Systems (EEMiS), Linnaeus University, SE-391 82 Kalmar, Sweden
| | - Tom H J A Sleutels
- Wetsus, European Centre of Excellence for Sustainable Water Technology, 8911 MA Leeuwarden, The Netherlands
| |
Collapse
|
22
|
|
23
|
Williamson AJ, Morris K, Law GTW, Rizoulis A, Charnock JM, Lloyd JR. Microbial reduction of U(VI) under alkaline conditions: implications for radioactive waste geodisposal. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2014; 48:13549-13556. [PMID: 25231875 DOI: 10.1021/es5017125] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/03/2023]
Abstract
Although there is consensus that microorganisms significantly influence uranium speciation and mobility in the subsurface under circumneutral conditions, microbiologically mediated U(VI) redox cycling under alkaline conditions relevant to the geological disposal of cementitious intermediate level radioactive waste, remains unexplored. Here, we describe microcosm experiments that investigate the biogeochemical fate of U(VI) at pH 10-10.5, using sediments from a legacy lime working site, stimulated with an added electron donor, and incubated in the presence and absence of added Fe(III) as ferrihydrite. In systems without added Fe(III), partial U(VI) reduction occurred, forming a U(IV)-bearing non-uraninite phase which underwent reoxidation in the presence of air (O2) and to some extent nitrate. By contrast, in the presence of added Fe(III), U(VI) was first removed from solution by sorption to the Fe(III) mineral, followed by bioreduction and (bio)magnetite formation coupled to formation of a complex U(IV)-bearing phase with uraninite present, which also underwent air (O2) and partial nitrate reoxidation. 16S rRNA gene pyrosequencing showed that Gram-positive bacteria affiliated with the Firmicutes and Bacteroidetes dominated in the post-reduction sediments. These data provide the first insights into uranium biogeochemistry at high pH and have significant implications for the long-term fate of uranium in geological disposal in both engineered barrier systems and the alkaline, chemically disturbed geosphere.
Collapse
Affiliation(s)
- Adam J Williamson
- Research Centre for Radwaste Disposal and Williamson Research Centre for Molecular Environmental Science, School of Earth, Atmospheric and Environmental Sciences, The University of Manchester , Manchester, M13 9PL, United Kingdom
| | | | | | | | | | | |
Collapse
|
24
|
Martinez CM, Alvarez LH, Celis LB, Cervantes FJ. Humus-reducing microorganisms and their valuable contribution in environmental processes. Appl Microbiol Biotechnol 2013; 97:10293-308. [PMID: 24220793 DOI: 10.1007/s00253-013-5350-7] [Citation(s) in RCA: 64] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/10/2013] [Revised: 10/17/2013] [Accepted: 10/19/2013] [Indexed: 02/08/2023]
Abstract
Humus constitutes a very abundant class of organic compounds that are chemically heterogeneous and widely distributed in terrestrial and aquatic environments. Evidence accumulated during the last decades indicating that humic substances play relevant roles on the transport, fate, and redox conversion of organic and inorganic compounds both in chemically and microbially driven reactions. The present review underlines the contribution of humus-reducing microorganisms in relevant environmental processes such as biodegradation of recalcitrant pollutants and mitigation of greenhouse gases emission in anoxic ecosystems, redox conversion of industrial contaminants in anaerobic wastewater treatment systems, and on the microbial production of nanocatalysts and alternative energy sources.
Collapse
Affiliation(s)
- Claudia M Martinez
- División de Ciencias Ambientales, Instituto Potosino de Investigación Científica y Tecnológica (IPICYT), Camino a la Presa San José 2055, Col. Lomas 4a Sección, San Luis Potosí, SLP, 78216, Mexico
| | | | | | | |
Collapse
|
25
|
Yang G, Zhou X, Zhou S, Yang D, Wang Y, Wang D. Bacillus thermotolerans sp. nov., a thermophilic bacterium capable of reducing humus. Int J Syst Evol Microbiol 2013; 63:3672-3678. [PMID: 23625259 DOI: 10.1099/ijs.0.048942-0] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A novel thermotolerant bacterium, designated SgZ-8(T), was isolated from a compost sample. Cells were non-motile, endospore-forming, Gram-staining positive, oxidase-negative and catalase-positive. The isolate was able to grow at 20-65 °C (optimum 50 °C) and pH 6.0-9.0 (optimum 6.5-7.0), and tolerate up to 9.0 % NaCl (w/v) under aerobic conditions. Anaerobic growth occurred with anthraquinone-2,6-disulphonate (AQDS), fumarate and NO3(-) as electron acceptors. Phylogenetic analysis based on the16S rRNA and gyrB genes grouped strain SgZ-8(T) into the genus Bacillus, with the highest similarity to Bacillus badius JCM 12228(T) (96.2 % for 16S rRNA gene sequence and 83.5 % for gyrB gene sequence) among all recognized species in the genus Bacillus. The G+C content of the genomic DNA was 49.3 mol%. The major isoprenoid quinone was menaquinone 7 (MK-7) and the polar lipids consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylethanolamine and an unidentified phospholipid. The major cellular fatty acid was iso-C16 : 0. On the basis of its phenotypic and phylogenetic properties, chemotaxonomic analysis and the results of physiological and biochemical tests, strain SgZ-8(T) ( = CCTCC AB 2012108(T) = KACC 16706(T)) was designated the type strain of a novel species of the genus Bacillus, for which the name Bacillus thermotolerans sp. nov. is proposed.
Collapse
Affiliation(s)
- Guiqin Yang
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Xuemei Zhou
- 101 Research Institute of the Ministry of Civil Affairs, Beijing 100070, PR China
| | - Shungui Zhou
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Dehui Yang
- 101 Research Institute of the Ministry of Civil Affairs, Beijing 100070, PR China
| | - Yueqiang Wang
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Dingmei Wang
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| |
Collapse
|
26
|
Wu CY, Zhuang L, Zhou SG, Yuan Y, Yuan T, Li FB. Humic substance-mediated reduction of iron(III) oxides and degradation of 2,4-D by an alkaliphilic bacterium, Corynebacterium humireducens MFC-5. Microb Biotechnol 2013; 6:141-9. [PMID: 23217085 PMCID: PMC3917456 DOI: 10.1111/1751-7915.12003] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/06/2012] [Revised: 10/12/2012] [Accepted: 10/13/2012] [Indexed: 11/29/2022] Open
Abstract
With the use of an alkaliphilic bacterium, Corynebacterium humireducens MFC-5, this study investigated the reduction of goethite (α-FeOOH) and degradation of 2,4-dichlorophenoxyacetic acid (2,4-D) mediated by different humic substances (humics) and quinones in alkaline conditions (pH of 9.0). The results indicated that (i) using sucrose as the electron donor, the strain MFC-5 was capable of reducing anthraquinone-2,6-disulfonic acid (AQDS), anthraquinone-2-disulfonic acid (AQS), anthraquinone-2-carboxylic acid (AQC), humic acid (HA) and fulvic acid (FA), and its reducing capability ranked as AQC > AQS > AQDS > FA > HA; (ii) the anaerobic reduction of α-FeOOH and 2,4-D by the strain was insignificant, while the reductions were greatly enhanced by the addition of quinones/humics serving as redox mediators; (iii) the Fe(III) reduction rate was positively related to the content of quinone functional groups and the electron-accepting capacities (EAC) of quinones/humics based on fourier-transform infrared spectroscopy (FT-IR) and electrochemical analyses; however, such a relationship was not found in 2,4-D degradation probably because quinone reduction was not the rate-limiting step of quinone-mediated reduction of 2,4-D. Using the example of α-FeOOH and 2,4-D, this study well demonstrated the important role of humics reduction on the Fe(III)/Fe(II) biogeochemical cycle and chlorinated organic compounds degradation in alkaline reducing environments.
Collapse
Affiliation(s)
- Chun-yuan Wu
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
- Institute of Environment and Plant Protection, Chinese Academy of Tropical Agricultural SciencesHaikou, 571101, China
| | - Li Zhuang
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
| | - Shun-gui Zhou
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
| | - Yong Yuan
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
| | - Tian Yuan
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
| | - Fang-bai Li
- Guangdong Key Laboratory of Agricultural Environment Pollution Integrated Control, Guangdong Institute of Eco-Environmental and Soil SciencesGuangzhou, 510650, China
| |
Collapse
|
27
|
Yang G, Chen M, Yu Z, Lu Q, Zhou S. Bacillus composti sp. nov. and Bacillus thermophilus sp. nov., two thermophilic, Fe(III)-reducing bacteria isolated from compost. Int J Syst Evol Microbiol 2013; 63:3030-3036. [PMID: 23396719 DOI: 10.1099/ijs.0.049106-0] [Citation(s) in RCA: 24] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Two novel thermophilic bacteria, designated SgZ-9(T) and SgZ-10(T), were isolated from compost. Cells of the two strains were catalase-positive, endospore-forming and Gram-staining-positive rods. Strain SgZ-9(T) was oxidase-positive and non-motile, and strain SgZ-10(T) was oxidase-negative and motile. The highest 16S rRNA gene sequence similarity for both strains SgZ-9(T) and SgZ-10(T) was observed with Bacillus fortis (97.5 % and 96.9 %, respectively). Phylogenetic analysis based on 16S rRNA gene sequences showed that strain SgZ-9(T) formed a cluster with B. fortis R-6514(T) and Bacillus fordii R-7190(T), and SgZ-10(T) formed a cluster with Bacillus farraginis R-6540(T). The DNA-DNA pairing studies showed that SgZ-9(T) displayed 41.6 % and 30.7 % relatedness to the type strains of B. fortis and B. fordii, respectively. The 16S rRNA gene sequence similarity between strains SgZ-9(T) and SgZ-10(T) was 97.2 %, and the level of DNA-DNA relatedness between them was 39.2 %. The DNA G+C content of SgZ-9(T) and SgZ-10(T) was 45.3 and 47.9 mol%, respectively. Chemotaxonomic analysis revealed that both strains contained the menaquinone 7 (MK-7) as the predominant respiratory quinone. The major cellular fatty acids (>5 %) were iso-C15 : 0, anteiso-C15 : 0, anteiso-C17 : 0, iso-C16 : 0 and iso-C17 : 0 in SgZ-9(T) and iso-C15 : 0, anteiso-C15 : 0, iso-C17 : 0, anteiso-C17 : 0 and iso-C16 : 0 in SgZ-10(T). Based on the phenotypic characteristics, chemotaxonomic features, DNA-DNA hybridization with the nearest phylogenetic neighbours and phylogenetic analysis based on the 16S rRNA gene sequences, the two strains were determined to be two distinct novel species in the genus Bacillus, and the names proposed are Bacillus composti sp. nov. SgZ-9(T) ( = CCTCC AB2012109(T) = KACC 16872(T)) and Bacillus thermophilus sp. nov. SgZ-10(T) (CCTCC AB2012110(T) = KACC 16873(T)).
Collapse
Affiliation(s)
- Guiqin Yang
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Ming Chen
- College of Bioscience and Biotechnology, Hunan Agricultural University, Changsha 410128, PR China.,Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Zhen Yu
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Qin Lu
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| | - Shungui Zhou
- Guangdong Institute of Eco-Environmental and Soil Sciences, Guangzhou 510650, PR China
| |
Collapse
|
28
|
Han L, Yang G, Zhou X, Yang D, Hu P, Lu Q, Zhou S. Bacillus thermocopriae sp. nov., isolated from a compost. Int J Syst Evol Microbiol 2013; 63:3024-3029. [PMID: 23396718 DOI: 10.1099/ijs.0.046953-0] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
A Gram-reaction-positive, facultatively anaerobic, motile, endospore-forming, rod-shaped strain, designated SgZ-7(T), was isolated from a windrow compost pile and was characterized by means of a polyphasic approach. Growth occurred with 0-3 % (w/v) NaCl (optimum 1 %), at pH 6.0-10.0 (optimum pH 7.2) and at 40-60 °C (optimum 50 °C). The main respiratory quinone was MK-7. The predominant polar lipids were phosphatidylethanolamine, phosphatidylglycerol and diphosphatidylglycerol. The major fatty acids were iso-C15 : 0 and anteiso-C15 : 0. The DNA G+C content was 46.6 mol%. The phylogenetic analysis based on 16S rRNA gene sequence comparisons revealed that strain SgZ-7(T) should be assigned to the genus Bacillus and was related most closely to Bacillus drentensis LMG 21831(T) (sequence similarity 97.2 %). The result of the DNA-DNA hybridization experiment revealed a low relatedness (27.2 %) between the isolate and B. drentensis LMG 21831(T). The results of phenotypic, chemotaxonomic and genotypic analyses clearly indicated that strain SgZ-7(T) represents a novel species, for which the name Bacillus thermocopriae sp. nov. is proposed. The type strain is SgZ-7(T) (= CCTCC AB 2012030(T) = KACC 16700(T)).
Collapse
Affiliation(s)
- Luchao Han
- Chemistry and Materials Institute, Sichuan Normal University, Chengdu 610068, PR China.,Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou 510650, PR China
| | - Guiqin Yang
- Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou 510650, PR China
| | - Xuemei Zhou
- 101 Research Institute of the Ministry of Civil Affairs, Beijing 100070, PR China
| | - Dehui Yang
- 101 Research Institute of the Ministry of Civil Affairs, Beijing 100070, PR China
| | - Pei Hu
- Chemistry and Materials Institute, Sichuan Normal University, Chengdu 610068, PR China
| | - Qin Lu
- Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou 510650, PR China
| | - Shungui Zhou
- Guangdong Institute of Eco-Environmental and Soil Science, Guangzhou 510650, PR China
| |
Collapse
|