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Ye J, Liu X, Khalid M, Li X, Romantschuk M, Bian Y, Li C, Zhang J, Zhao C, Wu J, Hua Y, Chen W, Hui N. The simultaneous addition of chitosan and peat enhanced the removals of antibiotics resistance genes during biogas residues composting. ENVIRONMENTAL RESEARCH 2024; 263:120109. [PMID: 39369780 DOI: 10.1016/j.envres.2024.120109] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/18/2024] [Revised: 10/01/2024] [Accepted: 10/04/2024] [Indexed: 10/08/2024]
Abstract
Direct reuse of biogas residue (BR) has the potential to contribute to the dissemination of antibiotic resistance genes (ARGs). Although high-temperature composting has been demonstrated as an effective method for the harmless treatment of organic waste, there is few researches on the fate of ARGs in high-temperature composting of BR. This research examined the impact of adding 5% chitosan and 15% peat on physicochemical characteristics, microbial communities, and removal of ARGs during BR-straw composting in 12 Biolan 220L composters for 48 days. Our results showed that the simultaneous addition of chitosan and peat extended the high-temperature period, and increased the highest temperature to 74 °C and germination index. These effects could be attributed to the presence of thermophilic cellulose-decomposing genera (Thermomyces and Thermobifida). Although the microbial communities differed compositionally among temperature stages, their dissimilarity drastically reduced at final stage, indicating that the impact of different treatments on microbial community composition decreases at the end of composting. Peat had a greater impact on aerobic genera capable of cellulose degradation at thermophilic stage than chitosan. Surprisingly, despite the total copy number of ARGs significantly decreased during composting, especially in the treatment with both chitosan and peat, intI1 gene abundance significantly increased 2 logs at thermophilic stage and maintained high level in the final compost, suggesting there is still a potential risk of transmission and proliferation of ARGs. Our work shed some lights on the development of waste resource utilization and emerging contaminants removal technology.
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Affiliation(s)
- Jieqi Ye
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China; Shanghai Pudong Development (Group) CO., Ltd., Shanghai, China.
| | - Xinxin Liu
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Muhammad Khalid
- Department of Biology, College of Science and Technology, Wenzhou-Kean University, Wenzhou, China.
| | - Xiaoxiao Li
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Martin Romantschuk
- Faculty of Biological and Environmental Science, University of Helsinki, Lahti, Finland.
| | - Yucheng Bian
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Chi Li
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Junren Zhang
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Chang Zhao
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China.
| | - Jian Wu
- Shanghai Pudong Development (Group) CO., Ltd., Shanghai, China.
| | - Yinfeng Hua
- Shanghai Pudong Development (Group) CO., Ltd., Shanghai, China.
| | - Weihua Chen
- Shanghai Pudong Development (Group) CO., Ltd., Shanghai, China.
| | - Nan Hui
- School of Agriculture and Biology, Shanghai Jiao Tong University, 800 Dongchuan Rd., 200240, Shanghai, China; Faculty of Biological and Environmental Science, University of Helsinki, Lahti, Finland.
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Yan S, Cheng KY, Bohu T, Ginige MP, Morris C, Lomheim L, Yang I, Edwards E, Zheng G, Zhou L, Kaksonen AH. Changes in microbial communities during high-rate microbial selenate reduction in an up-flow anaerobic fluidized bed reactor. CHEMOSPHERE 2024; 364:143224. [PMID: 39218266 DOI: 10.1016/j.chemosphere.2024.143224] [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: 05/09/2024] [Revised: 08/14/2024] [Accepted: 08/29/2024] [Indexed: 09/04/2024]
Abstract
Biological fluidized bed reactor (FBR) is a promising treatment option for removing selenium oxyanions from wastewater by converting them into elemental selenium. The process can achieve high rates and be efficiently operated at low hydraulic retention times (HRT). However, the effects of HRT on the changes in microbial community in the FBR process have not been previously explored. In this study, dynamic changes of microbial communities both on biofilm carrier and in suspension of a selenate-reducing FBR were explored at various HRTs (0.3-120 h). Based on partial 16S rRNA gene sequencing of the microbial communities, alpha diversity of microbial communities in suspension rather than in the biofilm were impacted by low HRTs (0.3 h-3 h). Members from genera Geobacter, Geoalkalibacter, and Geovibrio were the main selenate-reducing bacteria on carrier throughout the FBR process. Genus Geobacter was dominant in FBR carrier at HRT of 24 h-120 h, whereas Geoalkalibacter and Geovibrio dominated at low HRT of 0.3 h-6 h. Suspended microbial communities detected in the FBR effluent were more sensitive to HRT changes than that in biofilm. "Shock loading" at HRT of 0.3 h had a great impact on microbial community compositions both in the biofilm and effluent. Reactor operation in batch mode and long HRT of 24 h helped recover the community from "shock loading" and improved selenite reduction and ethanol oxidation. Redundancy analysis revealed that HRT, influent pH and selenate loading were key operational parameters impacting both the FBR performance and the composition of microbial communities associated with both the FBR carrier and effluent. Overall, the microbial communities in FBR biofilm flexibly responded to the changes of HRT and showed resilience to the temporary shock loading, enabling efficient selenate removal.
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Affiliation(s)
- Su Yan
- CSIRO Environment, 147 Underwood Avenue, Floreat, WA, 6014, Australia; College of Environmental Science and Engineering, Nanjing Tech University, Nanjing, 211816, China; Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Ka Yu Cheng
- CSIRO Environment, 147 Underwood Avenue, Floreat, WA, 6014, Australia; School of Engineering & Energy, Murdoch University, WA 6150, Australia
| | - Tsing Bohu
- CSIRO Mineral Resources, Australian Resources and Research Centre, Kensington, WA, 6151, Australia
| | - Maneesha P Ginige
- CSIRO Environment, 147 Underwood Avenue, Floreat, WA, 6014, Australia
| | - Christina Morris
- CSIRO Environment, 147 Underwood Avenue, Floreat, WA, 6014, Australia
| | - Line Lomheim
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, Canada
| | - Ivy Yang
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, Canada
| | - Elizabeth Edwards
- Department of Chemical Engineering and Applied Chemistry, University of Toronto, Toronto, Canada
| | - Guanyu Zheng
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Lixiang Zhou
- Department of Environmental Engineering, College of Resources and Environmental Sciences, Nanjing Agricultural University, Nanjing, 210095, China
| | - Anna H Kaksonen
- CSIRO Environment, 147 Underwood Avenue, Floreat, WA, 6014, Australia; Western Australian School of Mines: Minerals, Energy and Chemical Engineering, Faculty of Science and Engineering, Curtin University, Bentley, Australia; School of Engineering, The University of Western Australia, Crawley, Western Australia, 6009, Australia.
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3
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Lu Y, Lu F, Zhang J, Tang Q, Yang D, Liu Y. Understanding the sources, function, and irreplaceable role of cobamides in organohalide-respiring bacteria. Front Microbiol 2024; 15:1435674. [PMID: 39139376 PMCID: PMC11321594 DOI: 10.3389/fmicb.2024.1435674] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2024] [Accepted: 06/25/2024] [Indexed: 08/15/2024] Open
Abstract
Halogenated organic compounds are persistent pollutants that pose a serious threat to human health and the safety of ecosystems. Cobamides are essential cofactors for reductive dehalogenases (RDase) in organohalide-respiring bacteria (OHRB), which catalyze the dehalogenation process. This review systematically summarizes the impact of cobamides on organohalide respiration. The catalytic processes of cobamide in dehalogenation processes are also discussed. Additionally, we examine OHRB, which cannot synthesize cobamide and must obtain it from the environment through a salvage pathway; the co-culture with cobamide producer is more beneficial and possible. This review aims to help readers better understand the importance and function of cobamides in reductive dehalogenation. The presented information can aid in the development of bioremediation strategies.
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Affiliation(s)
- Yongfeng Lu
- College of Light Industry and Food Engineering, Guangxi University, Nanning, China
| | - Fancheng Lu
- College of Light Industry and Food Engineering, Guangxi University, Nanning, China
| | - Jian Zhang
- College of Light Industry and Food Engineering, Guangxi University, Nanning, China
| | - Qianwei Tang
- College & Hospital of Stomatology, Guangxi Medical University, Nanning, China
| | - Dan Yang
- College of Light Industry and Food Engineering, Guangxi University, Nanning, China
- Guangxi Yuhuacheng Environmental Protection Technology Co., Nanning, China
| | - Yaqing Liu
- College of Light Industry and Food Engineering, Guangxi University, Nanning, China
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Alsharif SM, Ismaeil M, Saeed AM, El-Sayed WS. Metagenomic 16S rRNA analysis and predictive functional profiling revealed intrinsic organohalides respiration and bioremediation potential in mangrove sediment. BMC Microbiol 2024; 24:176. [PMID: 38778276 PMCID: PMC11110206 DOI: 10.1186/s12866-024-03291-8] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2023] [Accepted: 04/03/2024] [Indexed: 05/25/2024] Open
Abstract
BACKGROUND Mangrove sediment microbes are increasingly attracting scientific attention due to their demonstrated capacity for diverse bioremediation activities, encompassing a wide range of environmental contaminants. MATERIALS AND METHODS The microbial communities of five Avicennia marina mangrove sediment samples collected from Al Rayyis White Head, Red Sea (KSA), were characterized using Illumina amplicon sequencing of the 16S rRNA genes. RESULTS Our study investigated the microbial composition and potential for organohalide bioremediation in five mangrove sediments from the Red Sea. While Proteobacteria dominated four microbiomes, Bacteroidetes dominated the fifth. Given the environmental concerns surrounding organohalides, their bioremediation is crucial. Encouragingly, we identified phylogenetically diverse organohalide-respiring bacteria (OHRB) across all samples, including Dehalogenimonas, Dehalococcoides, Anaeromyxobacter, Desulfuromonas, Geobacter, Desulfomonile, Desulfovibrio, Shewanella and Desulfitobacterium. These bacteria are known for their ability to dechlorinate organohalides through reductive dehalogenation. PICRUSt analysis further supported this potential, predicting the presence of functional biomarkers for organohalide respiration (OHR), including reductive dehalogenases targeting tetrachloroethene (PCE) and 3-chloro-4-hydroxyphenylacetate in most sediments. Enrichment cultures studies confirmed this prediction, demonstrating PCE dechlorination by the resident microbial community. PICRUSt also revealed a dominance of anaerobic metabolic processes, suggesting the microbiome's adaptation to the oxygen-limited environment of the sediments. CONCLUSION This study provided insights into the bacterial community composition of five mangrove sediments from the Red Sea. Notably, diverse OHRB were detected across all samples, which possess the metabolic potential for organohalide bioremediation through reductive dehalogenation pathways. Furthermore, PICRUSt analysis predicted the presence of functional biomarkers for OHR in most sediments, suggesting potential intrinsic OHR activity by the enclosed microbial community.
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Affiliation(s)
- Sultan M Alsharif
- Department of Biology, College of Science, Taibah University, Al-Madinah, Kingdom of Saudi Arabia
| | - Mohamed Ismaeil
- Microbiology Department, Faculty of Science, Ain Shams University, Cairo, Egypt.
| | - Ali M Saeed
- Microbiology Department, Faculty of Science, Ain Shams University, Cairo, Egypt
| | - Wael S El-Sayed
- Microbiology Department, Faculty of Science, Ain Shams University, Cairo, Egypt
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Leigh RJ, Corrigan A, Murphy RA, Taylor-Pickard J, Moran CA, Walsh F. Yeast mannan rich fraction positively influences microbiome uniformity, productivity associated taxa, and lay performance. Anim Microbiome 2024; 6:9. [PMID: 38438939 PMCID: PMC10913240 DOI: 10.1186/s42523-024-00295-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Accepted: 02/11/2024] [Indexed: 03/06/2024] Open
Abstract
BACKGROUND Alternatives to antibiotic as growth promoters in agriculture, such as supplemental prebiotics, are required to maintain healthy and high performing animals without directly contributing to antimicrobial resistance bioburden. While the gut microbiota of broiler hens has been well established and successfully correlated to performance, to our knowledge, a study has yet to be completed on the effect of prebiotic supplementation on correlating the mature laying hen productivity and microbiota. This study focused on establishing the impact of a yeast derived prebiotic, mannan rich fraction (MRF), on the cecal microbiota of late laying hens. This study benefitted from large sample sizes so intra- and intergroup variation effects could be statistically accounted for. RESULTS Taxonomic richness was significantly greater at all taxonomic ranks and taxonomic evenness was significantly lower for all taxonomic ranks in MRF-supplemented birds (P < 0.005). Use of principal coordinate analyses and principal component analyses found significant variation between treatment groups. When assessed for compositional uniformity (an indicator of flock health), microbiota in MRF-supplemented birds was more uniform than control birds at the species level. From a food safety and animal welfare perspective, Campylobacter jejuni was significantly lower in abundance in MRF-supplemented birds. In this study, species associated with high weight gain (an anticorrelator of performance in laying hens) were significantly lower in abundance in laying hens while health-correlated butyrate and propionate producing species were significantly greater in abundance in MRF-supplemented birds. CONCLUSIONS The use of prebiotics may be a key factor in controlling the microbiota balance limiting agri-food chain pathogen persistence and in promoting uniformity. In previous studies, increased α- and β-diversity indices were determinants of pathogen mitigation and performance. MRF-supplemented birds in this study established greater α- and β-diversity indices in post-peak laying hens, greater compositional uniformity across samples, a lower pathogenic bioburden and a greater abundance of correlators of performance.
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Affiliation(s)
- Robert J Leigh
- Department of Biology, Maynooth University, Maynooth, Co. Kildare, Ireland.
| | | | | | | | - Colm A Moran
- Alltech SARL, Rue Charles Amand, 14500, Vire, France
| | - Fiona Walsh
- Department of Biology, Maynooth University, Maynooth, Co. Kildare, Ireland.
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Qiao J, Chen M, Zhong S, Tong H, Li F. Soil Humic Acid Stimulates Potentially Active Dissimilatory Arsenate-Reducing Bacteria in Flooded Paddy Soil as Revealed by Metagenomic Stable Isotope Probing. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2024; 58:2303-2312. [PMID: 38263620 DOI: 10.1021/acs.est.3c07753] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/25/2024]
Abstract
Dissimilatory arsenate reduction contributes a large proportion of arsenic flux from flooded paddy soil, which is closely linked to soil organic carbon input and efflux. Humic acid (HA) represents a natural ingredient in soil and is shown to enhance microbial arsenate respiration to promote arsenic mobility. However, the community and function profiles of metabolically active arsenate-respiring bacteria and their interactions with HA in paddy soil remain unclear. To probe this linkage, we performed a genome-centric comparison of potentially active arsenate-respiring bacteria in anaerobic microcosms amended with 13C-lactate and HA by combining stable-isotope probing with genome-resolved metagenomics. Indeed, HA greatly accelerated the microbial reduction of arsenate to arsenite. Enrichment of bacteria that harbor arsenate-respiring reductase genes (arrA) in HA-enriched 13C-DNA was confirmed by metagenomic binning, which are affiliated with Firmicutes (mainly Desulfitobacterium, Bacillus, Brevibacillus, and Clostridia) and Acidobacteria. Characterization of reference extracellular electron transfer (EET)-related genes in these arrA-harboring bacteria supports the presence of EET-like genes, with partial electron-transport chain genes identified. This suggests that Gram-positive Firmicutes- and Acidobacteria-related members may harbor unspecified EET-associated genes involved in metal reduction. Our findings highlight the link between soil HA and potentially active arsenate-respiring bacteria, which can be considered when using HA for arsenic removal.
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Affiliation(s)
- Jiangtao Qiao
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou 510650, China
| | - Manjia Chen
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou 510650, China
| | - Songxiong Zhong
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou 510650, China
| | - Hui Tong
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou 510650, China
| | - Fangbai Li
- Guangdong Key Laboratory of Integrated Agro-environmental Pollution Control and Management, Institute of Eco-environmental and Soil Sciences, Guangdong Academy of Sciences, Guangzhou 510650, China
- National-Regional Joint Engineering Research Center for Soil Pollution Control and Remediation in South China, Guangzhou 510650, China
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Sun Y, Yin Y, He G, Cha G, Ayala-del-Río HL, González G, Konstantinidis KT, Löffler FE. pH selects for distinct N 2O-reducing microbiomes in tropical soil microcosms. ISME COMMUNICATIONS 2024; 4:ycae070. [PMID: 38808123 PMCID: PMC11131594 DOI: 10.1093/ismeco/ycae070] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/29/2023] [Revised: 04/27/2024] [Accepted: 05/07/2024] [Indexed: 05/30/2024]
Abstract
Nitrous oxide (N2O), a greenhouse gas with ozone destruction potential, is mitigated by the microbial reduction to dinitrogen catalyzed by N2O reductase (NosZ). Bacteria with NosZ activity have been studied at circumneutral pH but the microbiology of low pH N2O reduction has remained elusive. Acidic (pH < 5) tropical forest soils were collected in the Luquillo Experimental Forest in Puerto Rico, and microcosms maintained with low (0.02 mM) and high (2 mM) N2O assessed N2O reduction at pH 4.5 and 7.3. All microcosms consumed N2O, with lag times of up to 7 months observed in microcosms with 2 mM N2O. Comparative metagenome analysis revealed that Rhodocyclaceae dominated in circumneutral microcosms under both N2O feeding regimes. At pH 4.5, Peptococcaceae dominated in high-N2O, and Hyphomicrobiaceae in low-N2O microcosms. Seventeen high-quality metagenome-assembled genomes (MAGs) recovered from the N2O-reducing microcosms harbored nos operons, with all eight MAGs derived from acidic microcosms carrying the Clade II type nosZ and lacking nitrite reductase genes (nirS/K). Five of the eight MAGs recovered from pH 4.5 microcosms represent novel taxa indicating an unexplored N2O-reducing diversity exists in acidic tropical soils. A survey of pH 3.5-5.7 soil metagenome datasets revealed that nosZ genes commonly occur, suggesting broad distribution of N2O reduction potential in acidic soils.
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Affiliation(s)
- Yanchen Sun
- Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Present address: Department of Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, MA 02543, United States
| | - Yongchao Yin
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Present address: Department of Biology, Antimicrobial Discovery Center, Northeastern University, Boston, MA 02148, United States
| | - Guang He
- Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
| | - Gyuhyon Cha
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, GA 30332, United States
| | | | - Grizelle González
- USDA Forest Service, International Institute of Tropical Forestry, San Juan 00926, Puerto Rico
| | | | - Frank E Löffler
- Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Center for Environmental Biotechnology, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Department of Microbiology, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
- Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, Knoxville, TN 37996, United States
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Lu Y, Liang F, Qin F, Zhong L, Jiang J, Liu Q, Zhang S, Yan M, Fan C, Dong H. Tourmaline guiding the electric field and dechlorination pathway of 2,3-dichlorophenol by Desulfitobacterium hafniense. J Environ Sci (China) 2024; 135:262-273. [PMID: 37778802 DOI: 10.1016/j.jes.2022.12.033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2022] [Revised: 12/30/2022] [Accepted: 12/30/2022] [Indexed: 10/03/2023]
Abstract
The dehalogenation of organohalides has been a research hotspot in bioremediation field; however, the influence of tourmaline, a natural ore that can generate spontaneous electric field, on organohalide-respiring bacteria (OHRB) and their dechlorination process is not well known. In this study, the effect and mechanism of tourmaline on the reductive dechlorination of 2,3-dichlorophenol (2,3-DCP) by Desulfitobacterium hafniense DCB-2T were explored. The characterization results confirmed that tourmaline had good stability and the optimal dosage of tourmaline was 2.5 g/L, which shortened the total time required for dechlorination reaction to 72 hr. Besides, tourmaline amendment also increased the proportion of 2-chlorophenol (2-CP) from 18% to 30% of end products, while that of 3-CP decreased correspondingly. The theoretical calculations showed that the bond charge of the ortho-substituted chlorine declined from -0.179 to -0.067, and that of meta-substituted chlorine increased from -0.111 to -0.129, which indicated that the spontaneous electric field of tourmaline affected the charge distribution of 2,3-DCP and was more conducive to the generation of 2-CP. Overall, tourmaline with the spontaneous electric field affected the reductive dechlorination pathway of Desulfitobacterium,and the tourmaline-OHRB combining system might serve as a novel strategy for the bioremediation of environments polluted with chlorinated phenols.
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Affiliation(s)
- Yue Lu
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China; Key Laboratory of Environment Biology and Pollution Control, Hunan University, Ministry of Education, Changsha 410082, China.
| | - Fangyi Liang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China; Key Laboratory of Environment Biology and Pollution Control, Hunan University, Ministry of Education, Changsha 410082, China
| | - Fanzhi Qin
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China
| | - Linrui Zhong
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China; Key Laboratory of Environment Biology and Pollution Control, Hunan University, Ministry of Education, Changsha 410082, China
| | - Jianhong Jiang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; China Machinery International Engineering Design & Research Institute Co., Ltd., Changsha 410007, China; Hunan Engineering Research Center for Water Treatment Process & Equipment, Changsha 410007, China
| | - Qi Liu
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China
| | - Shoujuan Zhang
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China; Key Laboratory of Environment Biology and Pollution Control, Hunan University, Ministry of Education, Changsha 410082, China
| | - Ming Yan
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China
| | - Changzheng Fan
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China
| | - Haoran Dong
- College of Environmental Science and Engineering, Hunan University, Changsha 410082, China; Shenzhen Research Institute, Hunan Univerisy, Shenzhen 510082, China
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9
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Jiang Z, Qian L, Cui M, Jiang Y, Shi L, Dong Y, Li J, Wang Y. Bacterial Sulfate Reduction Facilitates Iodine Mobilization in the Deep Confined Aquifer of the North China Plain. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:15277-15287. [PMID: 37751521 DOI: 10.1021/acs.est.3c05513] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/28/2023]
Abstract
Bacterial sulfate reduction plays a crucial role in the mobilization of toxic substances in aquifers. However, the role of bacterial sulfate reduction on iodine mobilization in geogenic high-iodine groundwater systems has been unexplored. In this study, the enrichment of groundwater δ34SSO4 (15.56 to 69.31‰) and its significantly positive correlation with iodide and total iodine concentrations in deep groundwater samples of the North China Plain suggested that bacterial sulfate reduction participates in the mobilization of groundwater iodine. Similar significantly positive correlations were further observed between the concentrations of iodide and total iodine and the relative abundance of the dsrB gene by qPCR, as well as the composition and abundance of sulfate-reducing bacteria (SRB) predicted from 16S rRNA gene high-throughput sequencing data. Subsequent batch culture experiments by the SRB Desulfovibrio sp. B304 demonstrated that SRB could facilitate iodine mobilization through the enzyme-driven biotic and sulfide-driven abiotic reduction of iodate to iodide. In addition, the dehalogenation of organoiodine compounds by SRB and the reductive dissolution of iodine-bearing iron minerals by biogenic sulfide could liberate bound or adsorbed iodine into groundwater. The role of bacterial sulfate reduction in iodine mobilization revealed in this study provides new insights into our understanding of iodide enrichment in iodine-rich aquifers worldwide.
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Affiliation(s)
- Zhou Jiang
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Li Qian
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Mengjie Cui
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Yongguang Jiang
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Liang Shi
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan ,Hubei 430074, China
- Hubei Key Laboratory of Yangtze Catchment Environmental Aquatic Science, China University of Geosciences, Wuhan, Hubei 430074, China
- State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, Ministry of Ecology and Environment, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Yiran Dong
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Junxia Li
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
- Hubei Key Laboratory of Yangtze Catchment Environmental Aquatic Science, China University of Geosciences, Wuhan, Hubei 430074, China
- State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, Ministry of Ecology and Environment, China University of Geosciences, Wuhan ,Hubei 430074, China
| | - Yanxin Wang
- School of Environmental Studies, China University of Geosciences, Wuhan ,Hubei 430074, China
- State Key Laboratory of Biogeology and Environmental Geology, China University of Geosciences, Wuhan ,Hubei 430074, China
- Hubei Key Laboratory of Yangtze Catchment Environmental Aquatic Science, China University of Geosciences, Wuhan, Hubei 430074, China
- State Environmental Protection Key Laboratory of Source Apportionment and Control of Aquatic Pollution, Ministry of Ecology and Environment, China University of Geosciences, Wuhan ,Hubei 430074, China
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10
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Xu G, Zhao S, Chen C, Zhang N, He J. Alleviating Chlorinated Alkane Inhibition on Dehalococcoides to Achieve Detoxification of Chlorinated Aliphatic Cocontaminants. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2023; 57:15112-15122. [PMID: 37772791 DOI: 10.1021/acs.est.3c04535] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 09/30/2023]
Abstract
Cocontamination by multiple chlorinated solvents is a prevalent issue in groundwater, presenting a formidable challenge for effective remediation. Despite the recognition of this issue, a comprehensive assessment of microbial detoxification processes involving chloroethenes and associated cocontaminants, along with the underpinning microbiome, remains absent. Moreover, strategies to mitigate the inhibitory effects of cocontaminants have not been reported. Here, we revealed that chloroform exhibited the most potent inhibitory effects, followed by 1,1,1-trichloroethane and 1,1,2-trichloroethane, on dechlorination of dichloroethenes (DCEs) in Dehalococcoides-containing consortia. The observed inhibition could be attributed to suppression of biosynthesis and enzymatic activity of reductive dehalogenases and growth of Dehalococcoides. Notably, cocontaminants more profoundly inhibited Dehalococcoides populations harboring the vcrA gene than those possessing the tceA gene, thereby explaining the accumulation of vinyl chloride under cocontaminant stress. Nonetheless, we successfully ameliorated cocontaminant inhibition by augmentation with Desulfitobacterium sp. strain PR owing to its ability to attenuate cocontaminants, resulting in concurrent detoxification of DCEs, trichloroethanes, and chloroform. Microbial community analyses demonstrated obvious alterations in taxonomic composition, structure, and assembly of the dechlorinating microbiome in the presence of cocontaminants, and introduction of strain PR reshaped the dechlorinating microbiome to be similar to its original state in the absence of cocontaminants. Altogether, these findings contribute to developing bioremediation technologies to clean up challenging sites polluted with multiple chlorinated solvents.
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Affiliation(s)
- Guofang Xu
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Siyan Zhao
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Chen Chen
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
| | - Ning Zhang
- College of Chemical Engineering and Pharmacy, Henan University of Science and Technology, Luoyang, Henan 471003, China
| | - Jianzhong He
- Department of Civil and Environmental Engineering, National University of Singapore, Singapore 117576, Singapore
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11
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Meng L, Tomita R, Yoshida T, Yoshida N. Soil organic matter and nutrient availability affect the applicability of low-carbon energy source in Dehalococcoides-augmented soil. JOURNAL OF HAZARDOUS MATERIALS 2023; 459:132251. [PMID: 37591166 DOI: 10.1016/j.jhazmat.2023.132251] [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: 05/19/2023] [Revised: 08/02/2023] [Accepted: 08/06/2023] [Indexed: 08/19/2023]
Abstract
Dehalococcoides is a functional microorganism that completely dechlorinates trichloroethene (TCE). Augmentation with pure Dehalococcoides is important for reducing environmental disturbances that accompany bioaugmentation. However, the applicability of Dehalococcoides-bioaugmentation to contaminated soils is unclear. In this study, seven low-carbon energy sources (methanol, formate, acetate, ethanol, lactate, citrate, and benzoate) were used as electron donors for Dehalococcides to evaluate its applicability in remediating TCE-contaminated soils. Soil microcosms supplemented with ethanol, formate, or lactate showed relatively high dechlorination activity within 111-180 days. The functional gene profiles predicted by PICRUSt2 from 16 S rRNA gene sequences were similar in the proportions of dehydrogenases, which initiate electron donor oxidation, in all soils and did not seem to reflect Dehalococcoides-bioaugmentation applicability. Soils with higher organic matter content (>3.2%; dry weight base) and protein concentration (>1.6 µg/mL) supported complete dechlorination. These results suggest that organic matter and nutrient availability mainly affect successful TCE dechlorination in Dehalococcoides-augmented soils. The study offers significant experimental support for comprehending the suitability of low-carbon energy sources in successful bioaugmentation, aiming to mitigate environmental disturbances associated with the process.
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Affiliation(s)
- Lingyu Meng
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Ryuya Tomita
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Tomoki Yoshida
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
| | - Naoko Yoshida
- Department of Civil Engineering, Nagoya Institute of Technology (Nitech), Nagoya 466-8555, Japan.
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12
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Fiskal A, Shuster J, Fischer S, Joshi P, Raghunatha Reddy L, Wulf SE, Kappler A, Fischer H, Herrig I, Meier J. Microbially influenced corrosion and rust tubercle formation on sheet piles in freshwater systems. Environ Microbiol 2023; 25:1796-1815. [PMID: 37145936 DOI: 10.1111/1462-2920.16393] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/08/2023] [Accepted: 04/19/2023] [Indexed: 05/07/2023]
Abstract
The extent of how complex natural microbial communities contribute to metal corrosion is still not fully resolved, especially not for freshwater environments. In order to elucidate the key processes, we investigated rust tubercles forming massively on sheet piles along the river Havel (Germany) applying a complementary set of techniques. In-situ microsensor profiling revealed steep gradients of O2 , redox potential and pH within the tubercle. Micro-computed tomography and scanning electron microscopy showed a multi-layered inner structure with chambers and channels and various organisms embedded in the mineral matrix. Using Mössbauer spectroscopy we identified typical corrosion products including electrically conductive iron (Fe) minerals. Determination of bacterial gene copy numbers and sequencing of 16S rRNA and 18S rRNA amplicons supported a densely populated tubercle matrix with a phylogenetically and metabolically diverse microbial community. Based on our results and previous models of physic(electro)chemical reactions, we propose here a comprehensive concept of tubercle formation highlighting the crucial reactions and microorganisms involved (such as phototrophs, fermenting bacteria, dissimilatory sulphate and Fe(III) reducers) in metal corrosion in freshwaters.
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Affiliation(s)
- Annika Fiskal
- Department U2-Microbial Ecology, Federal Institute of Hydrology, Koblenz, Germany
| | - Jeremiah Shuster
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | - Stefan Fischer
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | - Prachi Joshi
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
| | | | - Sven-Erik Wulf
- Section B2-Steel Structures and Corrosion Protection, Federal Waterways Engineering and Research Institute, Karlsruhe, Germany
| | - Andreas Kappler
- Tübingen Structural Microscopy, University of Tübingen, Tübingen, Germany
- Geomicrobiology, Department of Geosciences, University of Tübingen, Tübingen, Germany
- Cluster of Excellence: EXC 2124: Controlling Microbes to Fight Infection, Tübingen, Germany
| | - Helmut Fischer
- Department U2-Microbial Ecology, Federal Institute of Hydrology, Koblenz, Germany
| | - Ilona Herrig
- Department G3-Ecotoxicology, Federal Institute of Hydrology, Koblenz, Germany
| | - Jutta Meier
- Institute for Integrated Natural Sciences, University Koblenz, Koblenz, Germany
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13
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Ding J, Qin F, Li C, Tang M. Long-term effect of acetate and biochar addition on enrichment and activity of denitrifying anaerobic methane oxidation microbes. CHEMOSPHERE 2023; 338:139642. [PMID: 37495044 DOI: 10.1016/j.chemosphere.2023.139642] [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: 04/28/2023] [Revised: 07/20/2023] [Accepted: 07/23/2023] [Indexed: 07/28/2023]
Abstract
The denitrifying anaerobic methane oxidation (DAMO) process plays a crucial role in the global carbon/nitrogen cycles and methane emission control, and also has application potential in biological wastewater treatment. However, given that DAMO microbes are susceptible to external conditions such as additional carbon source in the system, it is essential to evaluate the effect of alternative carbon substance on the enrichment efficiency and metabolic activity of DAMO microbes. To this end, this study investigated the effect of acetate (0.1 mmol/L-R2, 0.5 mmol/L-R3) and biochar addition (R4) on the enrichment and activity of DAMO microbes. The long-term operation showed that the NO2--N and CH4 consumption rates in the reactors almost presented the sequence of R4>R2>R3>R1. However, the short-term activity test with isotope labelling showed the sequence of R2>R4>R1>R3. Furthermore, the addition of acetate and biochar improved the electrochemical activity and extracellular polymeric substance (EPS) secretion in the systems. In R4 reactor, the proportion of DAMO bacteria was the highest (7.20%), indicating that the addition of biochar could promote the enrichment of DAMO bacteria, and Thauera was co-enriched with the proportion increasing from 0.26% to 6.73%. While in R1, R2 and R3 reactors, DAMO bacteria were enriched with relatively low abundances (0.10%, 0.23%, 0.15%, respectively), together with methanogens and denitrifiers. This study showed that biochar and acetate with appropriate concentration could enhance the enrichment and activity of DAMO bacteria, the results can provide reference for the enrichment of DAMO microbes and its application in the biological nitrogen removal of wastewater.
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Affiliation(s)
- Jing Ding
- National and Local Joint Engineering Laboratory for Municipal Sewage Resource Utilization Technology, Suzhou University of Science and Technology, Suzhou, 215009, Jiangsu, China; School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou, 215009, China.
| | - Fan Qin
- School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou, 215009, China
| | - Changxin Li
- School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou, 215009, China
| | - Mingfang Tang
- School of Environmental Science and Engineering, Suzhou University of Science and Technology, Suzhou, 215009, China
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14
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Song YC, Holland SI, Lee M, Chen G, Löffler FE, Manefield MJ, Hugenholtz P, Kappler U. A comparative genome analysis of the Bacillota ( Firmicutes) class Dehalobacteriia. Microb Genom 2023; 9:mgen001039. [PMID: 37294008 PMCID: PMC10327494 DOI: 10.1099/mgen.0.001039] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2023] [Accepted: 04/25/2023] [Indexed: 06/10/2023] Open
Abstract
Dehalobacterium formicoaceticum is recognized for its ability to anaerobically ferment dichloromethane (DCM), and a catabolic model has recently been proposed. D. formicoaceticum is currently the only axenic representative of its class, the Dehalobacteriia, according to the Genome Taxonomy Database. However, substantial additional diversity has been revealed in this lineage through culture-independent exploration of anoxic habitats. Here we performed a comparative analysis of 10 members of the Dehalobacteriia, representing three orders, and infer that anaerobic DCM degradation appears to be a recently acquired trait only present in some members of the order Dehalobacteriales. Inferred traits common to the class include the use of amino acids as carbon and energy sources for growth, energy generation via a remarkable range of putative electron-bifurcating protein complexes and the presence of S-layers. The ability of D. formicoaceticum to grow on serine without DCM was experimentally confirmed and a high abundance of the electron-bifurcating protein complexes and S-layer proteins was noted when this organism was grown on DCM. We suggest that members of the Dehalobacteriia are low-abundance fermentative scavengers in anoxic habitats.
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Affiliation(s)
- Young C. Song
- The University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, St Lucia, Queensland, 4072, Australia
| | - Sophie I. Holland
- School of Civil and Environmental Engineering, UNSW Sydney, Sydney, NSW, 2052, Australia
- Present address: School of Engineering & Physical Sciences, Heriot-Watt University, Edinburgh, UK
| | - Matthew Lee
- School of Civil and Environmental Engineering, UNSW Sydney, Sydney, NSW, 2052, Australia
| | - Gao Chen
- Center for Environmental Biotechnology, Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Tennessee, USA
| | - Frank E. Löffler
- Center for Environmental Biotechnology, Department of Civil and Environmental Engineering, University of Tennessee, Knoxville, Tennessee, USA
- Department of Microbiology, Department of Bioengineering and Soil Science, University of Tennessee, Knoxville, Tennessee, USA
- Oak Ridge National Laboratory, Biosciences Division, Oak Ridge, Tennessee, USA
| | - Michael J. Manefield
- School of Civil and Environmental Engineering, UNSW Sydney, Sydney, NSW, 2052, Australia
| | - Philip Hugenholtz
- The University of Queensland, School of Chemistry and Molecular Biosciences, Australian Centre for Ecogenomics, St Lucia, Queensland, 4072, Australia
| | - Ulrike Kappler
- The University of Queensland, School of Chemistry and Molecular Biosciences, St Lucia, Queensland, 4072, Australia
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15
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Roberts M, Srivastava P, Webster G, Weightman AJ, Sapsford DJ. Biostimulation of jarosite and iron oxide-bearing mine waste enhances subsequent metal recovery. JOURNAL OF HAZARDOUS MATERIALS 2023; 445:130498. [PMID: 36459883 DOI: 10.1016/j.jhazmat.2022.130498] [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: 09/24/2022] [Revised: 11/23/2022] [Accepted: 11/24/2022] [Indexed: 06/17/2023]
Abstract
Novel resource recovery technologies are required for metals-bearing hazardous wastes in order to achieve circular economy outcomes and industrial symbiosis. Iron oxide and co-occurring hydroxysulphate-bearing wastes are globally abundant and often contain other elements of value. This work addresses the biostimulation of indigenous microbial communities within an iron oxide/ hydroxysulphate-bearing waste and its effect on the subsequent recoverability of metals by hydrochloric, sulphuric, citric acids, and EDTA. Laboratory-scale flow-through column reactors were used to examine the effect of using glycerol (10% w/w) to stimulate the in situ microbial community in an iron oxide/ hydroxysulphate-bearing mine waste. The effects on the evolution of leachate chemistry, changes in microbiological community, and subsequent hydrometallurgical extractability of metals were studied. Results demonstrated increased leachability and selectivity of Pb, Cu, and Zn relative to iron after biostimulation with a total of 0.027 kg of glycerol per kg of waste. Biostimulation, which can be readily applied in situ, potentially opens new routes to metal recovery from globally abundant waste streams that contain jarosite and iron oxides.
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Affiliation(s)
- Mark Roberts
- School of Engineering, Cardiff University, Queen's Building, The Parade, Cardiff CF24 3AA, United Kingdom
| | - Pallavee Srivastava
- School of Engineering, Cardiff University, Queen's Building, The Parade, Cardiff CF24 3AA, United Kingdom.
| | - Gordon Webster
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Museum Avenue, Cardiff CF10 3AX, United Kingdom
| | - Andrew J Weightman
- School of Biosciences, Cardiff University, Sir Martin Evans Building, Museum Avenue, Cardiff CF10 3AX, United Kingdom
| | - Devin J Sapsford
- School of Engineering, Cardiff University, Queen's Building, The Parade, Cardiff CF24 3AA, United Kingdom
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16
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Willemin MS, Hamelin R, Armand F, Holliger C, Maillard J. Proteome adaptations of the organohalide-respiring Desulfitobacterium hafniense strain DCB-2 to various energy metabolisms. Front Microbiol 2023; 14:1058127. [PMID: 36733918 PMCID: PMC9888536 DOI: 10.3389/fmicb.2023.1058127] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2022] [Accepted: 01/02/2023] [Indexed: 01/18/2023] Open
Abstract
Introduction Desulfitobacterium hafniense was isolated for its ability to use organohalogens as terminal electron acceptors via organohalide respiration (OHR). In contrast to obligate OHR bacteria, Desulfitobacterium spp. show a highly versatile energy metabolism with the capacity to use different electron donors and acceptors and to grow fermentatively. Desulfitobacterium genomes display numerous and apparently redundant members of redox enzyme families which confirm their metabolic potential. Nonetheless, the enzymes responsible for many metabolic traits are not yet identified. Methods In the present work, we conducted an extended proteomic study by comparing the proteomes of Desulfitobacterium hafniense strain DCB-2 cultivated in combinations of electron donors and acceptors, triggering five alternative respiratory metabolisms that include OHR, as well as fermentation. Tandem Mass Tag labelling proteomics allowed us to identify and quantify almost 60% of the predicted proteome of strain DCB-2 (2,796 proteins) in all six growth conditions. Raw data are available via ProteomeXchange with identifier PXD030393. Results and discussion This dataset was analyzed in order to highlight the proteins that were significantly up-regulated in one or a subset of growth conditions and to identify possible key players in the different energy metabolisms. The addition of sodium sulfide as reducing agent in the medium - a very widespread practice in the cultivation of strictly anaerobic bacteria - triggered the expression of the dissimilatory sulfite reduction pathway in relatively less favorable conditions such as fermentative growth on pyruvate, respiration with H2 as electron donor and OHR conditions. The presence of H2, CO2 and acetate in the medium induced several metabolic pathways involved in carbon metabolism including the Wood-Ljungdahl pathway and two pathways related to the fermentation of butyrate that rely on electron-bifurcating enzymes. While the predicted fumarate reductase appears to be constitutively expressed, a new lactate dehydrogenase and lactate transporters were identified. Finally, the OHR metabolism with 3-chloro-4-hydroxyphenylacetate as electron acceptor strongly induced proteins encoded in several reductive dehalogenase gene clusters, as well as four new proteins related to corrinoid metabolism. We believe that this extended proteomic database represents a new landmark in understanding the metabolic versatility of Desulfitobacterium spp. and provides a solid basis for addressing future research questions.
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Affiliation(s)
- Mathilde Stéphanie Willemin
- Laboratory for Environmental Biotechnology (LBE), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Romain Hamelin
- Proteomic Core Facility (PCF), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Florence Armand
- Proteomic Core Facility (PCF), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Christof Holliger
- Laboratory for Environmental Biotechnology (LBE), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Julien Maillard
- Laboratory for Environmental Biotechnology (LBE), Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland,*Correspondence: Julien Maillard, ✉
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17
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Ilin AM, van der Graaf CM, Yusta I, Sorrentino A, Sánchez-Andrea I, Sánchez-España J. Glycerol amendment enhances biosulfidogenesis in acid mine drainage-affected areas: An incubation column experiment. Front Bioeng Biotechnol 2022; 10:978728. [PMID: 36105607 PMCID: PMC9464833 DOI: 10.3389/fbioe.2022.978728] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2022] [Accepted: 08/02/2022] [Indexed: 11/30/2022] Open
Abstract
Microbial sulfate (SO42−) reduction in Acid Mine Drainage (AMD) environments can ameliorate the acidity and extreme metal concentrations by consumption of protons via the reduction of SO42− to hydrogen sulfide (H2S) and the concomitant precipitation of metals as metal sulfides. The activity of sulfate-reducing bacteria can be stimulated by the amendment of suitable organic carbon sources in these generally oligotrophic environments. Here, we used incubation columns (IC) as model systems to investigate the effect of glycerol amendment on the microbial community composition and its effect on the geochemistry of sediment and waters in AMD environments. The ICs were built with natural water and sediments from four distinct AMD-affected sites with different nutrient regimes: the oligotrophic Filón Centro and Guadiana acidic pit lakes, the Tintillo river (Huelva, Spain) and the eutrophic Brunita pit lake (Murcia, Spain). Physicochemical parameters were monitored during 18 months, and the microbial community composition was determined at the end of incubation through 16S rRNA gene amplicon sequencing. SEM-EDX analysis of sediments and suspended particulate matter was performed to investigate the microbially-induced mineral (neo)formation. Glycerol amendment strongly triggered biosulfidogenesis in all ICs, with pH increase and metal sulfide formation, but the effect was much more pronounced in the ICs from oligotrophic systems. Analysis of the microbial community composition at the end of the incubations showed that the SRB Desulfosporosinus was among the dominant taxa observed in all sulfidogenic columns, whereas the SRB Desulfurispora, Desulfovibrio and Acididesulfobacillus appeared to be more site-specific. Formation of Fe3+ and Al3+ (oxy)hydroxysulfates was observed during the initial phase of incubation together with increasing pH while formation of metal sulfides (predominantly, Zn, Fe and Cu sulfides) was observed after 1–5 months of incubation. Chemical analysis of the aqueous phase at the end of incubation showed almost complete removal of dissolved metals (Cu, Zn, Cd) in the amended ICs, while Fe and SO42− increased towards the water-sediment interface, likely as a result of the reductive dissolution of Fe(III) minerals enhanced by Fe-reducing bacteria. The combined geochemical and microbiological analyses further establish the link between biosulfidogenesis and natural attenuation through metal sulfide formation and proton consumption.
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Affiliation(s)
- A. M. Ilin
- Department of Geology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, Leioa, Spain
- *Correspondence: A. M. Ilin, ; J. Sánchez-España,
| | - C. M. van der Graaf
- Laboratory of Microbiology, Wageningen University (WUR), Wageningen, Netherlands
| | - I. Yusta
- Department of Geology, Faculty of Science and Technology, University of the Basque Country (UPV/EHU), Barrio Sarriena s/n, Leioa, Spain
| | - A. Sorrentino
- ALBA Synchrotron Light Source, Cerdanyola del Vallés, Barcelona, Spain
| | - I. Sánchez-Andrea
- Laboratory of Microbiology, Wageningen University (WUR), Wageningen, Netherlands
| | - J. Sánchez-España
- Mine Wastes and Environmental Geochemistry Research Group, Department of Geological Resources for the Ecological Transition, (CN IGME-CSIC), Madrid, Spain
- *Correspondence: A. M. Ilin, ; J. Sánchez-España,
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18
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Hudari MSB, Richnow H, Vogt C, Nijenhuis I. Mini-review: effect of temperature on microbial reductive dehalogenation of chlorinated ethenes: a review. FEMS Microbiol Ecol 2022; 98:6638985. [PMID: 35810002 DOI: 10.1093/femsec/fiac081] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2022] [Revised: 06/30/2022] [Accepted: 07/07/2022] [Indexed: 11/13/2022] Open
Abstract
Temperature is a key factor affecting microbial activity and ecology. An increase in temperature generally increases rates of microbial processes up to a certain threshold, above which rates decline rapidly. In the subsurface, temperature of groundwater is usually stable and related to the annual average temperature at the surface. However, anthropogenic activities related to the use of the subsurface, e.g. for thermal heat management, foremost heat storage, will affect the temperature of groundwater locally. This mini-review intends to summarize the current knowledge on reductive dehalogenation activities of the chlorinated ethenes, common urban groundwater contaminants, at different temperatures. This includes an overview of activity and dehalogenation extent at different temperatures in laboratory isolates and enrichment cultures, the effect of shifts in temperature in micro- and mesocosm studies as well as observed biotransformation at different natural and induced temperatures at contaminated field sites. Furthermore, we address indirect effects on biotransformation, e.g. changes in fermentation, methanogenesis and sulfate reduction as competing or synergetic microbial processes. Finally, we address the current gaps in knowledge regarding bioremediation of chlorinated ethenes, microbial community shifts and bottlenecks for active combination with thermal energy storage, and necessities for bioaugmentation and/or natural re-populations after exposure to high temperature.
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Affiliation(s)
- Mohammad Sufian Bin Hudari
- Department of Isotope Biogeochemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
| | - Hans Richnow
- Department of Isotope Biogeochemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
| | - Carsten Vogt
- Department of Isotope Biogeochemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
| | - Ivonne Nijenhuis
- Department of Isotope Biogeochemistry, Helmholtz Centre for Environmental Research - UFZ, Permoserstrasse 15, 04318 Leipzig, Germany
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19
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Ou-Yang T, Yang SQ, Zhao L, Ji LL, Shi JQ, Wu ZX. Temporal heterogeneity of bacterial communities and their responses to Raphidiopsis raciborskii blooms. Microbiol Res 2022; 262:127098. [PMID: 35753182 DOI: 10.1016/j.micres.2022.127098] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/05/2021] [Revised: 05/30/2022] [Accepted: 06/15/2022] [Indexed: 11/18/2022]
Abstract
To elucidate the interspecies connectivity between cyanobacteria and other bacteria (noncyanobacteria), microbial diversity and composition were investigated through high-throughput sequencing (HTS) in a drinking water reservoir in Chongqing city, Southwest China, during Raphidiopsis raciborskii blooms. Significant temporal changes were observed in microbial community composition during the sampling period, primarily reflected by variations in relative bacterial abundance. The modularity analysis of the network demonstrated that the bacterial community forms co-occurrence/exclusion patterns in response to variations in environmental factors. Moreover, five modules involved in the dynamic phases of the R. raciborskii bloom were categorized into the Pre-Bloom, Bloom, Post-Bloom, and Non-Bloom Groups. The reservoir was eutrophic (i.e., the average concentrations of total nitrogen (TN) and total phosphorus (TP) were 2.32 and 0.07 mg L-1, respectively) during the investigation; however, Pearson's correlation coefficient showed that R. raciborskii was not significantly correlated with nitrogen and phosphorus. However, other environmental factors, such as water temperature, pH, and the permanganate index, were positively correlated with R. raciborskii. Importantly, Proteobacteria (α-, γ-Proteobacteria), Acidobacteria, Chloroflexi, and Firmicutes were preferentially associated with increased R. raciborskii blooms. These results suggested that the transition of R. raciborskii bloom-related microbial modules and their keystone species could be crucial in the development and collapse of R. raciborskii blooms and could provide a fundamental basis for understanding the linkage between the structure and function of the microbial community during bloom dynamics.
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Affiliation(s)
- Tian Ou-Yang
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China
| | - Song-Qi Yang
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China
| | - Lu Zhao
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China
| | - Lu-Lu Ji
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China
| | - Jun-Qiong Shi
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China
| | - Zhong-Xing Wu
- Key Laboratory of Eco-environments in Three Gorges Reservoir Region (Ministry of Education), Chongqing Key Laboratory of Plant Ecology and Resources Research in Three Gorges Reservoir Region, School of Life Science, Southwest University, Chongqing 400715, PR China.
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20
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Wang W, Gong T, Li H, Liu Y, Dong Q, Zan R, Wu Y. The multi-process reaction model and underlying mechanisms of 2,4,6-trichlorophenol removal in lab-scale biochar-microorganism augmented ZVI PRBs and field-scale PRBs performance. WATER RESEARCH 2022; 217:118422. [PMID: 35413559 DOI: 10.1016/j.watres.2022.118422] [Citation(s) in RCA: 18] [Impact Index Per Article: 9.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/12/2022] [Revised: 03/31/2022] [Accepted: 04/04/2022] [Indexed: 06/14/2023]
Abstract
This work developed calcium alginate (CA) embedded zero-valent iron (ZVI@CA) and CA embedded biochar (BC) immobilized microorganism (BC&Cell@CA) gel beads as alternative to conventional Fe0 permeable reactive barriers for treating groundwater contaminated with 2,4,6-trichlorophenol (2,4,6-TCP). Lab-scale and field-scale biochar-microorganism augmented PRBs (Bio-PRBs) were constructed and tested. The underlying mechanisms were revealed by a multi-source data calibrated multi-process reaction model, X-ray photoelectron spectroscopy (XPS), X-ray diffraction (XRD), and high-throughput sequencing. Moreover, calibrated advection-dispersion (a) coupled with the two-site sorption (Kd) and chemical-biological multi-process reaction (λ) model were used for revealing 2,4,6-TCP transport behavior and optimizing Bio-PRBs. Compared to that in the ZVI@CA (0.004 h-1) system, the reaction rate (0.011 h-1) of 2,4,6-TCP increased by 175% in the combined chemical-biological batch system. Moreover, chemical-biological augmentation significantly improved the retardation effect of Bio-PRBs for 2,4,6-TCP. It came from that chemical-biological augmentation significantly decreased the dispersivity a (0.53 to 0.20 cm), and increased the distribution coefficient Kd (2.20 to 19.00 cm3 mg-1), the reaction rate λ (2.40 to 3.60 day-1), and the fraction (30% to 80%) of first-order kinetic sorption of 2,4,6-TCP in the lab-scale one-dimensional Bio-PRBs. Moreover, versatile functional bacteria Desulfitobacterium was crucial in the transformation of Fe (III) iron oxides. The diversity and richness of archaea in the reaction solution were improved by ZVI@CA gel beads addition. Furthermore, the field-scale reaction system was designed to remediate the chlorinated organic compounds and Benzene Toluene Ethylbenzene & Xylene contaminated groundwater in a pesticide factory site. The field test results demonstrated it is a promising technology to construct vertical reaction columns or horizontal Bio-PRBs for the efficient remediation of actually contaminated groundwater.
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Affiliation(s)
- Wenbing Wang
- School of Environmental and Chemical Engineering, Shanghai University, Shanghai, 200444, China
| | - Tiantian Gong
- School of Environmental and Chemical Engineering, Shanghai University, Shanghai, 200444, China
| | - Hui Li
- School of Environmental and Chemical Engineering, Shanghai University, Shanghai, 200444, China.
| | - Yiming Liu
- Department of Geography, McGill University, Montreal, QC H3A 0G4, Canada
| | - Qianling Dong
- School of Environmental and Chemical Engineering, Shanghai University, Shanghai, 200444, China
| | - Rixia Zan
- School of Engineering, Newcastle University, Newcastle upon Tyne, NE1 7RU, UK
| | - Yulin Wu
- Shanghai Geotechnical Investigations and Design Institute (SGIDI) Engineering Consulting (Group) Co. Ltd., China
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21
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Tian L, Guo H, Wang Y, Su Z, Zhu T, Liu Y. Insights into Fe(Ⅱ)-sulfite-based pretreatment strategy for enhancing short-chain fatty acids (SCFAs) production from waste activated sludge: Performance and mechanism. BIORESOURCE TECHNOLOGY 2022; 353:127143. [PMID: 35427734 DOI: 10.1016/j.biortech.2022.127143] [Citation(s) in RCA: 23] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/13/2022] [Revised: 04/06/2022] [Accepted: 04/07/2022] [Indexed: 05/21/2023]
Abstract
This paper proposed a concept of "co-treating" waste activated sludge (WAS) with waste-derived sulfite and environmentally-friendly ferrous iron. The maximal short-chain fatty acids (SCFAs) production from WAS anaerobic fermentation ascended by 27.1 times after pretreated by Fe(Ⅱ) activated sulfite with a sulfite dosage of 500 mg S/L and a Fe(Ⅱ)/sulfite ratio of 1.25. Mechanism explorations elucidated that the production of SO4·- and ·OH induced by Fe(Ⅱ)-activated sulfite-auto-oxidation remarkably promoted the disintegration of WAS and the biodegradability of dissolved organic matter, leading to enrichment of substances available for SCFAs-producing microbes. Besides, activities of hydrolytic and acidogenic enzymes were stimulated, while enzymes related to SCFAs consumption were inhibited severely. Further microbial community investigation confirmed that the abundances of hydrolytic microorganisms and acidogens were enriched. In addition, sludge dewaterability and vivianite production was enhanced after Fe(Ⅱ)-sulfite pretreated WAS fermentation, thereby benefiting the subsequent sludge disposal and resource recovery.
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Affiliation(s)
- Lixin Tian
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China
| | - Haixiao Guo
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China
| | - Yufen Wang
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China
| | - Zhongxian Su
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China
| | - Tingting Zhu
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China
| | - Yiwen Liu
- School of Environmental Science and Engineering, Tianjin University, Tianjin 300072, PR China.
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22
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Liu J, Bao Y, Zhang X, Zhao S, Qiu J, Li N, He J. Anaerobic biodegradation and detoxification of chloroacetamide herbicides by a novel Proteiniclasticum sediminis BAD-10 T. ENVIRONMENTAL RESEARCH 2022; 209:112859. [PMID: 35114144 DOI: 10.1016/j.envres.2022.112859] [Citation(s) in RCA: 17] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/05/2021] [Revised: 01/26/2022] [Accepted: 01/26/2022] [Indexed: 06/14/2023]
Abstract
Chloroacetamide herbicides (CAAHs) are important herbicides that were widely used to control agricultural weeds. However, their mass applications have seriously contaminated environment, and they are toxic to living beings. CAAHs are easy to enter anoxic environments such as subsoil, wetland sediment, and groundwater, where CAAHs are mainly degraded by anaerobic organisms. To date, there are no research on the anaerobic degradation of CAAHs by pure isolate and toxicity of anaerobic metabolites of CAAHs. In this study, the anaerobic degradation kinetics and metabolites of CAAHs by an anaerobic isolate BAD-10T and the toxicity of anaerobic metabolites were studied. Isolate BAD-10T could degrade alachlor, acetochlor, propisochlor, butachlor, pretilachlor and metolachlor with the degradation kinetics fitting the pseudo-first-order kinetics equation. The degradation rates of CAAHs were significantly affected by the length of N-alkoxyalkyl groups, the shorter the N-alkoxyalkyl groups, the higher the degradation rates. Four metabolites 2-ethyl-6-methyl-N-(ethoxymethyl)-acetanilide (EMEMA), N-(2-methyl-6-ethylphenyl)-acetamide (MEPA), N-2-ethylphenyl acetamide and 2-ethyl-N-carboxyl aniline were identified during acetochlor degradation, and an anaerobic catabolic pathway of acetochlor was proposed. The toxicity of EMEMA and EMPA for zebrafish, Arabidopsis and Chlorella ellipsoidea were obviously lower than that of acetochlor, indicating that the anaerobic degradation of acetochlor by isolate BAD-10T is a detoxification process. The work reveals the anaerobic degradation kinetics and catabolic pathway of CAAHs and highlights a potential application of Proteiniclasticum sediminis BAD-10T for bioremediation of CAAHs residue-contaminated environment.
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Affiliation(s)
- Junwei Liu
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China
| | - Yixuan Bao
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China
| | - Xuan Zhang
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China
| | - Shiyu Zhao
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China
| | - Jiguo Qiu
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China
| | - Na Li
- College of Life Science and Agricultural Engineering, Nanyang Normal University, Nanyang, Henan, 473061, PR China.
| | - Jian He
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture, College of Life Sciences, Nanjing Agricultural University, Nanjing, Jiangsu, 210095, PR China.
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Hahn CR, Farag IF, Murphy CL, Podar M, Elshahed MS, Youssef NH. Microbial Diversity and Sulfur Cycling in an Early Earth Analogue: From Ancient Novelty to Modern Commonality. mBio 2022; 13:e0001622. [PMID: 35258328 PMCID: PMC9040765 DOI: 10.1128/mbio.00016-22] [Citation(s) in RCA: 16] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/07/2022] [Accepted: 02/14/2022] [Indexed: 01/19/2023] Open
Abstract
Life emerged and diversified in the absence of molecular oxygen. The prevailing anoxia and unique sulfur chemistry in the Paleo-, Meso-, and Neoarchean and early Proterozoic eras may have supported microbial communities that differ from those currently thriving on the earth's surface. Zodletone spring in southwestern Oklahoma represents a unique habitat where spatial sampling could substitute for geological eras namely, from the anoxic, surficial light-exposed sediments simulating a preoxygenated earth to overlaid water column where air exposure simulates oxygen intrusion during the Neoproterozoic era. We document a remarkably diverse microbial community in the anoxic spring sediments, with 340/516 (65.89%) of genomes recovered in a metagenomic survey belonging to 200 bacterial and archaeal families that were either previously undescribed or that exhibit an extremely rare distribution on the current earth. Such diversity is underpinned by the widespread occurrence of sulfite, thiosulfate, tetrathionate, and sulfur reduction and the paucity of sulfate reduction machineries in these taxa. Hence, these processes greatly expand lineages mediating reductive sulfur-cycling processes in the tree of life. An analysis of the overlaying oxygenated water community demonstrated the development of a significantly less diverse community dominated by well-characterized lineages and a prevalence of oxidative sulfur-cycling processes. Such a transition from ancient novelty to modern commonality underscores the profound impact of the great oxygenation event on the earth's surficial anoxic community. It also suggests that novel and rare lineages encountered in current anaerobic habitats could represent taxa that once thrived in an anoxic earth but have failed to adapt to earth's progressive oxygenation. IMPORTANCE Life on earth evolved in an anoxic setting; however, the identity and fate of microorganisms that thrived in a preoxygenated earth are poorly understood. In Zodletone spring, the prevailing geochemical conditions are remarkably similar to conditions prevailing in surficial earth prior to oxygen buildup in the atmosphere. We identify hundreds of previously unknown microbial lineages in the spring and demonstrate that these lineages possess the metabolic machinery to mediate a wide range of reductive sulfur processes, with the capacity to respire sulfite, thiosulfate, sulfur, and tetrathionate, rather than sulfate, which is a reflection of the differences in sulfur-cycling chemistry in ancient versus modern times. Collectively, such patterns strongly suggest that microbial diversity and sulfur-cycling processes in a preoxygenated earth were drastically different from the currently observed patterns and that the Great Oxygenation Event has precipitated the near extinction of a wide range of oxygen-sensitive lineages and significantly altered the microbial reductive sulfur-cycling community on earth.
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Affiliation(s)
- C. Ryan Hahn
- Department of Microbiology and Molecular Genetics, Oklahoma State University, Stillwater, Oklahoma, USA
| | - Ibrahim F. Farag
- Department of Microbiology and Molecular Genetics, Oklahoma State University, Stillwater, Oklahoma, USA
| | - Chelsea L. Murphy
- Department of Microbiology and Molecular Genetics, Oklahoma State University, Stillwater, Oklahoma, USA
| | - Mircea Podar
- Department of Microbiology, University of Tennessee Knoxville, Knoxville, Tennessee, USA
- Oak Ridge National Laboratory, Oak Ridge, Tennessee, USA
| | - Mostafa S. Elshahed
- Department of Microbiology and Molecular Genetics, Oklahoma State University, Stillwater, Oklahoma, USA
| | - Noha H. Youssef
- Department of Microbiology and Molecular Genetics, Oklahoma State University, Stillwater, Oklahoma, USA
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Guo G, Li Z, Chen L, Ling Q, Zan F, Isawi H, Hao T, Ma J, Wang Z, Chen G, Lu H. Advances in elemental sulfur-driven bioprocesses for wastewater treatment: From metabolic study to application. WATER RESEARCH 2022; 213:118143. [PMID: 35149365 DOI: 10.1016/j.watres.2022.118143] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/18/2021] [Revised: 01/17/2022] [Accepted: 01/30/2022] [Indexed: 06/14/2023]
Abstract
Elemental sulfur (S0) is known to be an abundant, non-toxic material with a wide range of redox states (-2 to +6) and may serve as an excellent electron carrier in wastewater treatment. In turn, S0-driven bioprocesses, which employ S0 as electron donor or acceptor, have recently established themselves as cost-effective therefore attractive solutions for wastewater treatment. Numerous related processes have, to date, been developed from laboratory experiments into full-scale applications, including S0-driven autotrophic denitrification for nitrate removal and S0-reducing organic removal. Compared to the conventional activated sludge process, these bioprocesses require only a small amount of organic matter and produce very little sludge. There have been great efforts to characterize chemical and biogenic S0 and related functional microorganisms in order to identify the biochemical pathways, upgrade the bioprocesses, and assess the impact of the operating factors on process performance, ultimately aiming to better understand and to optimize the processes. This paper is therefore a comprehensive overview of emerging S0-driven biotechnologies, including the development of S0-driven autotrophic denitrification and S0-based sulfidogenesis, as well as the associated microbiology and biochemistry. Also reviewed here are the physicochemical characteristics of S0 and the effects that environmental factors such as pH, influent sulfur/nitrate ratio, temperature, S0 particle size and reactor configurations have on the process. Research gaps, challenges of process applications and potential areas for future research are further proposed and discussed.
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Affiliation(s)
- Gang Guo
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Zhaoling Li
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Lei Chen
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Qingshan Ling
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Feixiang Zan
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Heba Isawi
- Desert Research Center, Water Resources and Desert Soils Division, Egyptian Desalination Research Center of Excellence (EDRC), Cairo, Egypt
| | - Tianwei Hao
- Department of Civil and Environmental Engineering, Faculty of Science and Technology, University of Macau, Macau, China.
| | - Jie Ma
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Zongping Wang
- School of Environmental Science and Engineering, Key Laboratory of Water and Wastewater Treatment (HUST), MOHURD, Huazhong University of Science and Technology (HUST), Wuhan 430074, China
| | - Guanghao Chen
- Department of Civil & Environmental Engineering, The Hong Kong University of Science and Technology, Hong Kong, China
| | - Hui Lu
- School of Environmental Science and Engineering, Sun Yat-sen University, Guangzhou, China.
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25
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Zhang C, Liu S, Hussain S, Li L, Baiome BA, Xiao S, Cao H. Fe(II) Addition Drives Soil Bacterial Co-Ocurrence Patterns and Functions Mediated by Anaerobic and Chemoautotrophic Taxa. Microorganisms 2022; 10:microorganisms10030547. [PMID: 35336122 PMCID: PMC8950066 DOI: 10.3390/microorganisms10030547] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2022] [Revised: 02/04/2022] [Accepted: 02/05/2022] [Indexed: 12/10/2022] Open
Abstract
Iron is among the most abundant elements in the soil of paddy fields, and its valence state and partitioning can be transformed by flooding and drainage alternations. However, little is known about the function of soil microbes that interact with Fe(II). In this study, sandy and loamy soils originating from rice fields were treated with Fe(II) at low and high concentrations. The findings demonstrate that additional Fe(II) has various effects on the soil’s microbial community structure and metabolic pathways. We conclude that Fe(II) at high concentrations reduced bacterial abundance and diversity in two textured paddy soils, yet the abundance in loamy soils was higher than it was in sandy soil. Additionally, in environments with high Fe(II) levels, the relative abundance of both anaerobic and chemoautotrophic bacteria increased. The Fe(II) concentration was positively correlated with total reduced substances but negatively correlated with redox potential and pH. Co-occurrence networks revealed that Fe(II) significantly promoted interactions with the most anaerobic and chemoautotrophic bacteria. In addition, adding Fe(II) greatly increased the number of more complex bacterial networks, and an increase in the number of mutually beneficial taxa occurred. We found that Fe(II) promoted the methane pathway, the Calvin cycle, and nitrate reduction to small but significant extents. These pathways involve the growth and interrelation of autotrophic and anaerobic bacteria. These results suggest that changes in the bacterial community structure occur in many dry–wet alternating environments.
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Affiliation(s)
- Chenyang Zhang
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Senlin Liu
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Wellington Research Group, School of Life Sciences, University of Warwick, Gibbet Hill Road, Coventry CV4 7AL, UK
| | - Sarfraz Hussain
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Lifeng Li
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Baiome Abdelmaguid Baiome
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
| | - Shuiqing Xiao
- School of Intercultural Studies, Jiangxi Normal University, Nanchang 330022, China;
| | - Hui Cao
- Key Laboratory of Agricultural Environmental Microbiology, Ministry of Agriculture and Rural Affair, College of Life Sciences, Nanjing Agricultural University, 6 Tongwei Road, Nanjing 210095, China; (C.Z.); (S.L.); (S.H.); (L.L.); (B.A.B.)
- Correspondence: ; Tel./Fax: +86-025-8439-6753
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26
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Velázquez-Ríos IO, Rincón-Rosales R, Gutiérrez-Miceli FA, Alcántara-Hernández RJ, Ruíz-Valdiviezo VM. Prokaryotic diversity across a pH gradient in the “El Chichón” crater-lake: a naturally thermo-acidic environment. Extremophiles 2022; 26:8. [DOI: 10.1007/s00792-022-01257-0] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/17/2020] [Accepted: 01/04/2022] [Indexed: 12/17/2022]
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27
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Darma A, Yang J, Bloem E, Możdżen K, Zandi P. Arsenic biotransformation and mobilization: the role of bacterial strains and other environmental variables. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:1763-1787. [PMID: 34713399 DOI: 10.1007/s11356-021-17117-x] [Citation(s) in RCA: 11] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Accepted: 10/15/2021] [Indexed: 06/13/2023]
Abstract
Over several decades, arsenic (As) toxicity in the biosphere has affected different flora, fauna, and other environmental components. The majority of these problems are linked with As mobilization due to bacterial dissolution of As-bearing minerals and its transformation in other reservoirs such as soil, sediments, and ground water. Understanding the process, mechanism, and various bacterial species involved in these processes under the influence of some ecological variables greatly contributes to a better understanding of the fate and implications of As mobilization into the environments. This article summarizes the process, role, and various types of bacterial species involved in the transformation and mobilization of As. Furthermore, insight into how Fe(II) oxidation and resistance mechanisms such as methylation and detoxification against the toxic effect of As(III) was highlighted as a potential immobilization and remediation strategy in As-contaminated sites. Furthermore, the significance and comparative advantages of some useful analytical tools used in the evaluation, speciation, and analysis of As are discussed and how their in situ and ex situ applications support assessing As contamination in both laboratory and field settings. Nevertheless, additional research involving advanced molecular techniques is required to elaborate on the contribution of these bacterial consortia as a potential agronomic tool for reducing As availability, particularly in natural circumstances. Graphical abstract. Courtesy of conceptual model: Aminu Darma.
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Affiliation(s)
- Aminu Darma
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
| | - Jianjun Yang
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China.
| | - Elke Bloem
- Institute for Crop and Soil Science Julius Kühn-Institut (JKI), Federal Research Centre for Cultivated Plants, Bundesallee 69, 38116, Braunschweig, Germany
| | - Katarzyna Możdżen
- Institute of Biology, Pedagogical University of Krakow, Podchorążych 2 St, 30-084, Kraków, Poland
| | - Peiman Zandi
- Institute of Environment and Sustainable Development in Agriculture, Chinese Academy of Agricultural Sciences, Beijing, 100081, People's Republic of China
- International Faculty of Applied Technology, Yibin University, Yibin, 644000, People's Republic of China
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28
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Dev S, Galey M, Chun CL, Novotny C, Ghosh T, Aggarwal S. Enrichment of psychrophilic and acidophilic sulfate-reducing bacterial consortia - a solution toward acid mine drainage treatment in cold regions. ENVIRONMENTAL SCIENCE. PROCESSES & IMPACTS 2021; 23:2007-2020. [PMID: 34821889 DOI: 10.1039/d1em00256b] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
Failure of sulfate-reducing bacteria (SRB)-mediated treatment of acid mine drainage (AMD) in cold regions due to inhibition of bacteria by acidic pH and low temperature can be overcome by enriching psychrophilic and acidophilic microbial consortia from local metal-rich sediments. In this study, we enriched microbial consortia from Arctic mine sediments at varying pH (3-7) and temperatures (15-37 °C) under anaerobic conditions with repeated sub-culturing in three successive stages, and analyzed the microbial community using 16S rRNA gene sequencing. The enriched SRB genera resulted in high sulfate reduction (85-88%), and significant metal removal (49-99.9%) during the initial stages (stage 1 and 2). Subsequently, sub-culturing the inoculum at pH 3-4.5 resulted in lower sulfate reduction (9-34%) due to the inhibition of SRB by accumulated acetic acid (0.3-9 mM). The microbial metabolic interactions for successful sulfate and metal removal involved initial glycerol co-fermentation to acetic acid at acidic pH (by Desulfosporosinus, Desulfotomaculum, Desulfurospora, and fermentative bacteria including Cellulomonas and Anaerovorax), followed by acetic acid oxidation to CO2 and H2 (by Desulfitobacterium) at neutral pH, and subsequent H2 utilization (by Desulfosporosinus). The results, including the structural and functional properties of enriched microbial consortia, can inform the development of effective biological treatment strategies for AMD in cold regions.
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Affiliation(s)
- Subhabrata Dev
- Water and Environmental Research Center, University of Alaska Fairbanks, 1760 Tanana Loop, Fairbanks, AK 99775, USA.
- Mineral Industry Research Laboratory, University of Alaska Fairbanks, Fairbanks, AK 99775, USA
| | - Miranda Galey
- Natural Resources Research Institute, University of Minnesota Duluth, Duluth, MN 55812, USA
| | - Chan Lan Chun
- Natural Resources Research Institute, University of Minnesota Duluth, Duluth, MN 55812, USA
- Department of Civil Engineering, University of Minnesota Duluth, Duluth, MN 55812, USA
| | - Chad Novotny
- Teck Resources Limited, Vancouver, BC V6C 0B3, Canada
| | - Tathagata Ghosh
- Mineral Industry Research Laboratory, University of Alaska Fairbanks, Fairbanks, AK 99775, USA
| | - Srijan Aggarwal
- Water and Environmental Research Center, University of Alaska Fairbanks, 1760 Tanana Loop, Fairbanks, AK 99775, USA.
- Department of Civil, Geological and Environmental Engineering, University of Alaska Fairbanks, Fairbanks, Alaska, 99775, USA
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29
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Huang Y, Dai Z, Lin J, Qi Q, Luo Y, Dahlgren RA, Xu J. Contrasting effects of carbon source recalcitrance on soil phosphorus availability and communities of phosphorus solubilizing microorganisms. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 298:113426. [PMID: 34343746 DOI: 10.1016/j.jenvman.2021.113426] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/09/2021] [Revised: 07/22/2021] [Accepted: 07/27/2021] [Indexed: 06/13/2023]
Abstract
Carbon (C) additions to soil interact through chemical and microbiological processes to cause changes in soil phosphorus (P) availability. However, the response of soil P transformations and relevant microbial communities to C additions having different degrees of recalcitrance remains uncertain. We studied the effects of glucose, hemicellulose and lignin addition on soil P availability, P transformation processes and relevant microbial activity and communities in a P-deficient flooded soil. Lignin significantly increased soil available P concentrations, which was attributed to chemical release of inorganic P and increased alkaline phosphatase activity. Glucose and hemicellulose additions stimulated microbial metabolism of C thereby enhancing microbial demand for P, with increased soil P availability especially in the early incubation period. Glucose or hemicellulose addition changed soil microbial diversity and community composition, leading to enhanced growth and interactions of P solubilizing microorganisms such as Desulfitobacterium, Bacillus and Desulfosporosinus. Our results infer the importance of pH alteration and competitive sorption between PO4 and functional groups of recalcitrant C (e.g., lignin) with Fe/Al (hydr) oxides in regulating soil P availability. Further, the microbial response to labile C additions led to increased P availability in the P-deficient soil. This study provides important mechanistic information to guide microbially-regulated soil P management in agricultural ecosystems.
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Affiliation(s)
- Yanlan Huang
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Zhongmin Dai
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China; The Rural Development Academy, Zhejiang University, Hangzhou, 310058, China
| | - Jiahui Lin
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Qian Qi
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Yu Luo
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China
| | - Randy A Dahlgren
- Department of Land, Air and Water Resources, University of California, Davis, CA, 95616, USA
| | - Jianming Xu
- Institute of Soil and Water Resources and Environmental Science, College of Environmental and Resource Sciences, Zhejiang University, Hangzhou, 310058, China; Zhejiang Provincial Key Laboratory of Agricultural Resources and Environment, Zhejiang University, Hangzhou, 310058, China; The Rural Development Academy, Zhejiang University, Hangzhou, 310058, China.
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Robles A, Yellowman TL, Joshi S, Mohana Rangan S, Delgado AG. Microbial Chain Elongation and Subsequent Fermentation of Elongated Carboxylates as H 2-Producing Processes for Sustained Reductive Dechlorination of Chlorinated Ethenes. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:10398-10410. [PMID: 34283573 DOI: 10.1021/acs.est.1c01319] [Citation(s) in RCA: 22] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/13/2023]
Abstract
In situ anaerobic groundwater bioremediation of trichloroethene (TCE) to nontoxic ethene is contingent on organohalide-respiring Dehalococcoidia, the most common strictly hydrogenotrophic Dehalococcoides mccartyi (D. mccartyi). The H2 requirement for D. mccartyi is fulfilled by adding various organic substrates (e.g., lactate, emulsified vegetable oil, and glucose/molasses), which require fermenting microorganisms to convert them to H2. The net flux of H2 is a crucial controlling parameter in the efficacy of bioremediation. H2 consumption by competing microorganisms (e.g., methanogens and homoacetogens) can diminish the rates of reductive dechlorination or stall the process altogether. Furthermore, some fermentation pathways do not produce H2 or having H2 as a product is not always thermodynamically favorable under environmental conditions. Here, we report on a novel application of microbial chain elongation as a H2-producing process for reductive dechlorination. In soil microcosms bioaugmented with dechlorinating and chain-elongating enrichment cultures, near stoichiometric conversion of TCE (0.07 ± 0.01, 0.60 ± 0.03, and 1.50 ± 0.20 mmol L-1 added sequentially) to ethene was achieved when initially stimulated by chain elongation of acetate and ethanol. Chain elongation initiated reductive dechlorination by liberating H2 in the conversion of acetate and ethanol to butyrate and caproate. Syntrophic fermentation of butyrate, a chain-elongation product, to H2 and acetate further sustained the reductive dechlorination activity. Methanogenesis was limited during TCE dechlorination in soil microcosms and absent in transfer cultures fed with chain-elongation substrates. This study provides critical fundamental knowledge toward the feasibility of chlorinated solvent bioremediation based on microbial chain elongation.
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Affiliation(s)
- Aide Robles
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, 1001 S. McAllister Ave., Tempe, Arizona 85287, United States
- School of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering Research Center for Bio-mediated and Bio-inspired Geotechnics, Arizona State University, Tempe, Arizona 85281, United States
| | - Theodora L Yellowman
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, 1001 S. McAllister Ave., Tempe, Arizona 85287, United States
- Engineering Research Center for Bio-mediated and Bio-inspired Geotechnics, Arizona State University, Tempe, Arizona 85281, United States
| | - Sayalee Joshi
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, 1001 S. McAllister Ave., Tempe, Arizona 85287, United States
- School of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering Research Center for Bio-mediated and Bio-inspired Geotechnics, Arizona State University, Tempe, Arizona 85281, United States
| | - Srivatsan Mohana Rangan
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, 1001 S. McAllister Ave., Tempe, Arizona 85287, United States
- School of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering Research Center for Bio-mediated and Bio-inspired Geotechnics, Arizona State University, Tempe, Arizona 85281, United States
| | - Anca G Delgado
- Biodesign Swette Center for Environmental Biotechnology, Arizona State University, 1001 S. McAllister Ave., Tempe, Arizona 85287, United States
- School of Sustainable Engineering and the Built Environment, Arizona State University, Tempe, Arizona 85281, United States
- Engineering Research Center for Bio-mediated and Bio-inspired Geotechnics, Arizona State University, Tempe, Arizona 85281, United States
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Inglis AM, Head NA, Chowdhury AIA, Nunez Garcia A, Reynolds DA, Hogberg D, Edwards E, Lomheim L, Weber K, Wallace SJ, Austrins LM, Hayman J, Auger M, Sidebottom A, Eimers J, Gerhard JI, O'Carroll DM. Electrokinetically-enhanced emplacement of lactate in a chlorinated solvent contaminated clay site to promote bioremediation. WATER RESEARCH 2021; 201:117305. [PMID: 34119968 DOI: 10.1016/j.watres.2021.117305] [Citation(s) in RCA: 13] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/13/2020] [Revised: 04/27/2021] [Accepted: 05/24/2021] [Indexed: 06/12/2023]
Abstract
Bioremediation through the injection of electron donors and bacterial cultures is effective at treating chlorinated solvent contamination. However, it has had limited application in low permeability zones where amendments cannot be delivered successfully. This field-scale study investigated the application of electrokinetics to enhance the delivery of lactate at a clay site contaminated with chlorinated solvents. Groundwater and soil samples were collected before, during and for 1 year after the 71-day field test and analyzed for a wide suite of chemical and biological parameters. Lactate was successfully delivered to all monitoring locations. Lactate emplacement resulted in the stimulation of bacterial populations, specifically within the phylum Firmicutes, which contains fermenters and strict anaerobes. This likely led to biodegradation, as the field trial resulted in significant decreases in both soil and aqueous phase chlorinated solvent concentrations. Contaminant decreases were also partially attributable to dilution, given evidence of some advective lactate flux. This research provides evidence that electrokinetically-enhanced bioremediation has potential as a treatment strategy for contaminated low permeability strata.
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Affiliation(s)
- Ainsley M Inglis
- Department of Civil and Environmental Engineering, University of Western Ontario, 1151 Richmond Rd., London, Ontario, N6A 5B8, Canada
| | - Nicholas A Head
- Department of Civil and Environmental Engineering, University of Western Ontario, 1151 Richmond Rd., London, Ontario, N6A 5B8, Canada
| | - Ahmed I A Chowdhury
- Institute of Water and Flood Management, Bangladesh University of Engineering and Technology, Dhaka, Bangladesh
| | - Ariel Nunez Garcia
- Department of Civil and Environmental Engineering, University of Western Ontario, 1151 Richmond Rd., London, Ontario, N6A 5B8, Canada
| | - David A Reynolds
- Geosyntec Consultants, 130 Stone Road W, Guelph, N1G 3Z2, ON, Canada
| | - Dave Hogberg
- Geosyntec Consultants, 130 Stone Road W, Guelph, N1G 3Z2, ON, Canada
| | - Elizabeth Edwards
- University of Toronto, 27 King's College Cir, Toronto, ON M5S 3H7, Canada
| | - Line Lomheim
- University of Toronto, 27 King's College Cir, Toronto, ON M5S 3H7, Canada
| | - Kela Weber
- Royal Military College of Canada, 13 General Crerar Crescent, Kingston, ON K7K 7B4, Canada
| | - Sarah J Wallace
- Royal Military College of Canada, 13 General Crerar Crescent, Kingston, ON K7K 7B4, Canada
| | - Leanne M Austrins
- Dow Chemical, Environmental Remediation and Compliance, Midland, MI, 48674, USA
| | | | - Marlaina Auger
- Geosyntec Consultants, 130 Stone Road W, Guelph, N1G 3Z2, ON, Canada
| | | | - Jake Eimers
- Jacobs, 72 Victoria St S, Kitchener, N2G 4Y9, ON, Canada
| | - Jason I Gerhard
- Department of Civil and Environmental Engineering, University of Western Ontario, 1151 Richmond Rd., London, Ontario, N6A 5B8, Canada
| | - Denis M O'Carroll
- School of Civil and Environmental Engineering, Water Research Centre, University of New South Wales, Sydney, NSW 2052 Australia.
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Yang X, Liu P, Yao M, Sun H, Liu R, Xie J, Zhao Y. Mechanism and enhancement of Cr(VI) contaminated groundwater remediation by molasses. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 780:146580. [PMID: 34030333 DOI: 10.1016/j.scitotenv.2021.146580] [Citation(s) in RCA: 10] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Revised: 03/15/2021] [Accepted: 03/15/2021] [Indexed: 06/12/2023]
Abstract
The remediation of Cr(VI)-contaminated groundwater with molasses has many advantages compared with traditional in-situ chemical methods, including high cost-effectiveness and negligible secondary contamination. Hence, the reaction conditions and mechanisms of molasses were investigated in this study. The results showed that Cr(VI) was chemically reduced by molasses at acidic pH (3.0), wherein the dominant active components were the hydroxyl and carbonyl groups of molasses. At neutral pH (7.0), molasses mainly acted as an electron donor for direct or indirect reduction of Cr(VI) by microorganisms. The main functional microorganisms were Bacillus and Clostridium Sensu Stricto. Compared with chemical reduction, bio-reduction could completely reduce higher concentrations of Cr(VI) when molasses was added at a concentration of 3 g/L. Ascorbic acid was added to promote the removal rate of bioremediation. Owing to the antioxidant properties of ascorbic acid, the reaction rate increased by 9.3% and 37.5% when 0.05 g/L of ascorbic acid was added to the 50 and 100 mg/L Cr(VI) bioremediation systems, respectively. Due to the decrease in pH during bioremediation, NaHCO3 was added to buffer the pH changes and promote Cr(III) precipitation. Compared with the addition of NaHCO3 and molasses simultaneously, separate additions were more effective for precipitation. Furthermore, X-ray absorption near-edge structure analysis revealed that after chemical reduction and biological reduction, Cr was attached to the solid medium in the form of Cr(III).
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Affiliation(s)
- Xinru Yang
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China
| | - Peng Liu
- School of Environmental Studies, China University of Geosciences, 388 Lumo Rd., Wuhan, Hubei 430074, China
| | - Meng Yao
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China
| | - He Sun
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China
| | - Ruxue Liu
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China
| | - Jiayin Xie
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China
| | - Yongsheng Zhao
- Key Laboratory of Groundwater Resources and Environment of Ministry of Education, College of New Energy and Environment, Jilin University, Changchun 130021, China; Jilin Provincial Key Laboratory of Water Resources and Environment, College of New Energy and Environment, Jilin University, Changchun 130021, China; National and Local Joint Engineering Laboratory for Petrochemical Contaminated Site Control and Remediation Technology, Jilin University, Changchun 130021, China.
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Shan J, Sanford RA, Chee-Sanford J, Ooi SK, Löffler FE, Konstantinidis KT, Yang WH. Beyond denitrification: The role of microbial diversity in controlling nitrous oxide reduction and soil nitrous oxide emissions. GLOBAL CHANGE BIOLOGY 2021; 27:2669-2683. [PMID: 33547715 DOI: 10.1111/gcb.15545] [Citation(s) in RCA: 41] [Impact Index Per Article: 13.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/15/2020] [Accepted: 01/11/2021] [Indexed: 05/02/2023]
Abstract
Many biotic and abiotic processes contribute to nitrous oxide (N2 O) production in the biosphere, but N2 O consumption in the environment has heretofore been attributed primarily to canonical denitrifying microorganisms. The nosZ genes encoding the N2 O reductase enzyme, NosZ, responsible for N2 O reduction to dinitrogen are now known to include two distinct groups: the well-studied Clade I which denitrifiers typically possess, and the novel Clade II possessed by diverse groups of microorganisms, most of which are non-denitrifiers. Clade II N2 O reducers could play an important, previously unrecognized role in controlling N2 O emissions for several reasons, including: (1) the consumption of N2 O produced by processes other than denitrification, (2) hypothesized non-respiratory functions of NosZ as an electron sink or for N2 O detoxification, (3) possible differing enzyme kinetics of Clade II NosZ compared to Clade I NosZ, and (4) greater nosZ gene abundance for Clade II compared to Clade I in soils of many ecosystems. Despite the potential ecological significance of Clade II NosZ, a census of 800 peer-reviewed original research articles discussing nosZ and published from 2013 to 2019 showed that the percentage of articles evaluating or mentioning Clade II nosZ increased from 5% in 2013 to only 22% in 2019. The census revealed that the slowly spreading awareness of Clade II nosZ may result in part from disciplinary silos, with the percentage of nosZ articles mentioning Clade II nosZ ranging from 0% in Agriculture and Agronomy journals to 32% in Multidisciplinary Sciences journals. In addition, inconsistent nomenclature for Clade I nosZ and Clade II nosZ, with 17 different terminologies used in the literature, may have created confusion about the two distinct groups of N2 O reducers. We provide recommendations to accelerate advances in understanding the role of the diversity of N2 O reducers in regulating soil N2 O emissions.
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Affiliation(s)
- Jun Shan
- State Key Laboratory of Soil and Sustainable Agriculture, Changshu National Agro-Ecosystem Observation and Research Station, Institute of Soil Science, Chinese Academy of Sciences, Nanjing, China
| | - Robert A Sanford
- Department of Geology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Joanne Chee-Sanford
- Global Change and Photosynthesis Research Unit, United States Department of Agriculture - Agricultural Research Station,, Urbana, IL, USA
| | - Sean K Ooi
- Program in Ecology, Evolution, and Conservation Biology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
| | - Frank E Löffler
- Center for Environmental Biotechnology, Department of Microbiology, Department of Civil and Environmental Engineering, Department of Biosystems Engineering and Soil Science, University of Tennessee, Knoxville, TN, USA
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
| | - Konstantinos T Konstantinidis
- School of Civil and Environmental Engineering and School of Biological Sciences, Georgia Institute of Technology, Atlanta, GA, USA
| | - Wendy H Yang
- Departments of Plant Biology and Geology, University of Illinois at Urbana-Champaign, Urbana, IL, USA
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Ghezzi D, Filippini M, Cappelletti M, Firrincieli A, Zannoni D, Gargini A, Fedi S. Molecular characterization of microbial communities in a peat-rich aquifer system contaminated with chlorinated aliphatic compounds. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:23017-23035. [PMID: 33438126 DOI: 10.1007/s11356-020-12236-3] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2020] [Accepted: 12/25/2020] [Indexed: 06/12/2023]
Abstract
In an aquifer-aquitard system in the subsoil of the city of Ferrara (Emilia-Romagna region, northern Italy) highly contaminated with chlorinated aliphatic toxic organics such as trichloroethylene (TCE) and tetrachloroethylene (PCE), a strong microbial-dependent dechlorination activity takes place during migration of contaminants through shallow organic-rich layers with peat intercalations. The in situ microbial degradation of chlorinated ethenes, formerly inferred by the utilization of contaminant concentration profiles and Compound-Specific Isotope Analysis (CSIA), was here assessed using Illumina sequencing of V4 hypervariable region of 16S rRNA gene and by clone library analysis of dehalogenase metabolic genes. Taxon-specific investigation of the microbial communities catalyzing the chlorination process revealed the presence of not only dehalogenating genera such as Dehalococcoides and Dehalobacter but also of numerous other groups of non-dehalogenating bacteria and archaea thriving on diverse metabolisms such as hydrolysis and fermentation of complex organic matter, acidogenesis, acetogenesis, and methanogenesis, which can indirectly support the reductive dechlorination process. Besides, the diversity of genes encoding some reductive dehalogenases was also analyzed. Geochemical and 16S rRNA and RDH gene analyses, as a whole, provided insights into the microbial community complexity and the distribution of potential dechlorinators. Based on the data obtained, a possible network of metabolic interactions has been hypothesized to obtain an effective reductive dechlorination process.
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Affiliation(s)
- Daniele Ghezzi
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum University of Bologna, Via Irnerio 42, 40126, Bologna, Italy
- Laboratory of NanoBiotechnology, IRCSS Istituto Ortopedico Rizzoli, via di Barbiano 1/10, 40136, Bologna, Italy
| | - Maria Filippini
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, via Zamboni 67, 40126, Bologna, Italy
| | - Martina Cappelletti
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum University of Bologna, Via Irnerio 42, 40126, Bologna, Italy
| | - Andrea Firrincieli
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum University of Bologna, Via Irnerio 42, 40126, Bologna, Italy
| | - Davide Zannoni
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum University of Bologna, Via Irnerio 42, 40126, Bologna, Italy
| | - Alessandro Gargini
- Department of Biological, Geological and Environmental Sciences, Alma Mater Studiorum University of Bologna, via Zamboni 67, 40126, Bologna, Italy
| | - Stefano Fedi
- Department of Pharmacy and Biotechnology, Alma Mater Studiorum University of Bologna, Via Irnerio 42, 40126, Bologna, Italy.
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Cai X, ThomasArrigo LK, Fang X, Bouchet S, Cui Y, Kretzschmar R. Impact of Organic Matter on Microbially-Mediated Reduction and Mobilization of Arsenic and Iron in Arsenic(V)-Bearing Ferrihydrite. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2021; 55:1319-1328. [PMID: 33377766 DOI: 10.1021/acs.est.0c05329] [Citation(s) in RCA: 30] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/12/2023]
Abstract
Under anoxic conditions, the interactions between As-bearing ferrihydrite (Fh) and As(V)-reducing bacteria are known to cause Fh transformations and As mobilization. However, the impact of different types of organic matter (OM) on microbial As/Fe transformation in As-bearing Fh-organic associations remains unclear. In our study, we therefore exposed arsenate-adsorbed ferrihydrite, ferrihydrite-PGA (polygalacturonic acid), and ferrihydrite-HA (humic acid) complexes to two typical Fe(III)- and As(V)-reducing bacteria, and followed the fate of Fe and As in the solid and aqueous phases. Results show that PGA and HA promoted the reductive dissolution of Fh, resulting in 0.7-1.6 and 0.8-1.9 times more As release than in the OM-free Fh, respectively. This was achieved by higher cell numbers in the presence of PGA, and through Fe-reduction via electron-shuttling facilitated by HA. Arsenic-XAS results showed that the solid-phase arsenite fraction in Fh-PGA and Fh-HA was 15-19% and 27-28% higher than in pure Fh, respectively. The solid-associated arsenite fraction likely increased because PGA promoted cell growth and As(V) reduction, while HA provided electron shuttling compounds for direct microbial As(V)-reduction. Collectively, our findings demonstrate that As speciation and partitioning during microbial reduction of Fh-organic associations are strongly influenced by PGA and HA, as well as the strains' abilities to utilize electron-shuttling compounds.
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Affiliation(s)
- Xiaolin Cai
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 101408, People's Republic of China
- Soil Chemistry Group, Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Universitätstrasse 16, CHN, CH-8092 Zurich, Switzerland
| | - Laurel K ThomasArrigo
- Soil Chemistry Group, Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Universitätstrasse 16, CHN, CH-8092 Zurich, Switzerland
| | - Xu Fang
- Soil Chemistry Group, Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Universitätstrasse 16, CHN, CH-8092 Zurich, Switzerland
| | - Sylvain Bouchet
- Soil Chemistry Group, Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Universitätstrasse 16, CHN, CH-8092 Zurich, Switzerland
| | - Yanshan Cui
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 101408, People's Republic of China
| | - Ruben Kretzschmar
- Soil Chemistry Group, Institute of Biogeochemistry and Pollutant Dynamics, Department of Environmental Systems Science, ETH Zurich, Universitätstrasse 16, CHN, CH-8092 Zurich, Switzerland
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36
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Cai X, Yin N, Wang P, Du H, Liu X, Cui Y. Arsenate-reducing bacteria-mediated arsenic speciation changes and redistribution during mineral transformations in arsenate-associated goethite. JOURNAL OF HAZARDOUS MATERIALS 2020; 398:122886. [PMID: 32512445 DOI: 10.1016/j.jhazmat.2020.122886] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/19/2020] [Revised: 04/17/2020] [Accepted: 04/23/2020] [Indexed: 06/11/2023]
Abstract
The fate of Fe(III)-(oxyhydr)oxides-bound As was generally regulated by dissimilatory As(V)-reduction. However, the impact of pH and bacterial conditions on the coupled processes of microbially-mediated As speciation changes and Fe-mineral transformation remains unclear. Our study therefore incubated As(V)-associated goethite with different As(V)-reducing bacteria at a range of pH. Results show that As reduction was most prominent at pH 7 as the bacterial growth was optimal. However, aqueous As concentration was the lowest (0.8-3.7 mg/L), due to rapid microbial Fe(II) formation at pH 7 triggered secondary mineralization and significant As-readsorption. Our study provides the first spectroscopic evidence for mineral-phase temporal evolution, and indicates in the presence of phosphate, vivianite will precipitate first and adsorb large amount of As(III) (40-44% of solid As). Thereafter, continuously increased Fe(II) may catalyze lepidocrocite and eventually magnetite formation, which further sequestrate aqueous As(III). Conversely, at pH 5 and 9, bacterial growth was inhibited, the corresponding lower microbially-derived Fe(II) concentrations caused no secondary minerals formation. Released As(III) was therefore largely remained in solution (6-9.7 mg/L). Our study demonstrates that As-bound Fe(III)-(oxyhydr)oxides could pose greater risks under acidic or alkaline conditions in biotic reactions. Additionally, bacterial species could strongly impact Fe-mineral transformation pathways and As solid-solution redistribution.
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Affiliation(s)
- Xiaolin Cai
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Naiyi Yin
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Pengfei Wang
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Huili Du
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Xiaotong Liu
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China
| | - Yanshan Cui
- College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 101408, People's Republic of China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China.
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Li T, Zhou Q. The key role of Geobacter in regulating emissions and biogeochemical cycling of soil-derived greenhouse gases. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 266:115135. [PMID: 32650301 DOI: 10.1016/j.envpol.2020.115135] [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: 04/20/2020] [Revised: 06/11/2020] [Accepted: 06/26/2020] [Indexed: 06/11/2023]
Abstract
In the past two decades, more and more attentions have been paid to soil-derived greenhouse gases (GHGs) including carbon dioxide (CO2), methane (CH4) and nitrous oxide (N2O) because there are signs that they have rising negative impacts on the sustainability of the earth surface system. Farmlands, particularly paddy soils, have been regarded as the most important emitter of GHGs (nearly 17%) due to a large influx of fertilization and the abundance in animals, plants and microorganisms. Geobacter, as an electroactive microorganism widely occurred in soil, has been well studied on electron transport mechanisms and the direct interspecies electron transfer. These studies on Geobacter illustrate that it has the ability to be involved in the pathways of soil GHG emissions through redox reactions under anaerobic conditions. In this review, production mechanisms of soil-derived GHGs and the amount of these GHGs produced had been first summarized. The cycling process of CH4 and N2O was described from the view of microorganisms and discussed the co-culture relationships between Geobacter and other microorganisms. Furthermore, the role of Geobacter in the production of soil-derived GHGs is defined by biogeochemical cycling. The complete view on the effect of Geobacter on the emission of soil-derived GHGs has been shed light on, and appeals further investigation.
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Affiliation(s)
- Tian Li
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin, 300350, China
| | - Qixing Zhou
- MOE Key Laboratory of Pollution Processes and Environmental Criteria, College of Environmental Science and Engineering, Nankai University, Tianjin, 300350, China.
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Pandey CB, Kumar U, Kaviraj M, Minick KJ, Mishra AK, Singh JS. DNRA: A short-circuit in biological N-cycling to conserve nitrogen in terrestrial ecosystems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 738:139710. [PMID: 32544704 DOI: 10.1016/j.scitotenv.2020.139710] [Citation(s) in RCA: 113] [Impact Index Per Article: 28.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/28/2020] [Revised: 05/21/2020] [Accepted: 05/23/2020] [Indexed: 06/11/2023]
Abstract
This paper reviews dissimilatory nitrate reduction to ammonium (DNRA) in soils - a newly appreciated pathway of nitrogen (N) cycling in the terrestrial ecosystems. The reduction of NO3- occurs in two steps; in the first step, NO3- is reduced to NO2-; and in the second, unlike denitrification, NO2- is reduced to NH4+ without intermediates. There are two sets of NO3-/NO2- reductase enzymes, i.e., Nap/Nrf and Nar/Nir; the former occurs on the periplasmic-membrane and energy conservation is respiratory via electron-transport-chain, whereas the latter is cytoplasmic and energy conservation is both respiratory and fermentative (Nir, substrate-phosphorylation). Since, Nir catalyzes both assimilatory- and dissimilatory-nitrate reduction, the nrfA gene, which transcribes the NrfA protein, is treated as a molecular-marker of DNRA; and a high nrfA/nosZ (N2O-reductase) ratio favours DNRA. Recently, several crystal structures of NrfA have been presumed to producee N2O as a byproduct of DNRA via the NO (nitric-oxide) pathway. Meta-analyses of about 200 publications have revealed that DNRA is regulated by oxidation state of soils and sediments, carbon (C)/N and NO2-/NO3- ratio, and concentrations of ferrous iron (Fe2+) and sulfide (S2-). Under low-redox conditions, a high C/NO3- ratio selects for DNRA while a low ratio selects for denitrification. When the proportion of both C and NO3- are equal, the NO2-/NO3- ratio modulates partitioning of NO3-, and a high NO2-/NO3- ratio favours DNRA. A high S2-/NO3- ratio also promotes DNRA in coastal-ecosystems and saline sediments. Soil pH, temperature, and fine soil particles are other factors known to influence DNRA. Since, DNRA reduces NO3- to NH4+, it is essential for protecting NO3- from leaching and gaseous (N2O) losses and enriches soils with readily available NH4+-N to primary producers and heterotrophic microorganisms. Therefore, DNRA may be treated as a tool to reduce ground-water NO3- pollution, enhance soil health and improve environmental quality.
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Affiliation(s)
- C B Pandey
- ICAR-Central Arid Zone Research Institute, Jodhpur 342003, Rajasthan, India.
| | - Upendra Kumar
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India.
| | - Megha Kaviraj
- ICAR-National Rice Research Institute, Cuttack 753006, Odisha, India
| | - K J Minick
- Department of Forestry and Environmental Resources, North Carolina State University, Raleigh, NC 27695, USA
| | - A K Mishra
- International Rice Research Institute, New Delhi 110012, India
| | - J S Singh
- Ecosystem Analysis Lab, Centre of Advanced Study in Botany, Banaras Hindu University (BHU), Varanasi 221005, India
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Wei Z, Wang JJ, Gaston LA, Li J, Fultz LM, DeLaune RD, Dodla SK. Remediation of crude oil-contaminated coastal marsh soil: Integrated effect of biochar, rhamnolipid biosurfactant and nitrogen application. JOURNAL OF HAZARDOUS MATERIALS 2020; 396:122595. [PMID: 32298868 DOI: 10.1016/j.jhazmat.2020.122595] [Citation(s) in RCA: 47] [Impact Index Per Article: 11.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2020] [Revised: 03/11/2020] [Accepted: 03/25/2020] [Indexed: 06/11/2023]
Abstract
Decontamination of oil spills from coastal wetland soils requires a delicate approach. A microcosm study was carried out to investigate the impact of integrated application of biochar, rhamnolipid (RL) biosurfactant and nitrogen (N) on petroleum hydrocarbon remediation in a Louisiana coastal saline marsh and their impact on soil microbial community. The soil was artificially contaminated with crude oil and subjected to treatments of different combinations of sugarcane residue biochar, RL, and coated urea. Total petroleum hydrocarbons (TPH) in the contaminated soil were analyzed periodically using gas chromatograph and associated soil bacterial community was studied using 16 s rRNA sequencing technologies. Results showed that integrated application of biochar + RL, biochar + N, and biochar + N+RL reduced 32.3%, 73.2%, 80.9% of TPH, respectively, and exhibited synergic interaction with higher efficiency than application individually. Combined treatments showed distinct functions that biochar increased the sorption of aromatic compounds, while RL and N enhanced the degradation of heavy and light aliphatic compounds. All remediation treatments caused reduction of soil bacterial diversity while RL and N shifted the microbial community to higher abundances of Proteobacteria and Bacteroidetes, respectively. Overall, the findings of this study demonstrate the positivity of applying integrated biochar, biosurfactant, and N treatment in oil remediation in wetland soils.
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Affiliation(s)
- Zhuo Wei
- School of Plant, Environment and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA
| | - Jim J Wang
- School of Plant, Environment and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA.
| | - Lewis A Gaston
- School of Plant, Environment and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA
| | - Jifeng Li
- Department of Life Sciences, Louisiana State University. Baton Rouge, LA 70803, USA
| | - Lisa M Fultz
- School of Plant, Environment and Soil Sciences, Louisiana State University Agricultural Center, Baton Rouge, LA 70803, USA
| | - Ronald D DeLaune
- Department of Oceanography and Coastal Sciences, Louisiana State University, Baton Rouge, LA 70803, USA
| | - Syam K Dodla
- Red River Research Station, Louisiana State University Agricultural Center, Bossier City, LA 71112, USA
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He WJ, Shi MM, Yang P, Huang T, Yuan QS, Yi SY, Wu AB, Li HP, Gao CB, Zhang JB, Liao YC. Novel Soil Bacterium Strain Desulfitobacterium sp. PGC-3-9 Detoxifies Trichothecene Mycotoxins in Wheat via De-Epoxidation under Aerobic and Anaerobic Conditions. Toxins (Basel) 2020; 12:toxins12060363. [PMID: 32492959 PMCID: PMC7354494 DOI: 10.3390/toxins12060363] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2020] [Revised: 05/24/2020] [Accepted: 05/29/2020] [Indexed: 12/20/2022] Open
Abstract
Trichothecenes are the most common mycotoxins contaminating small grain cereals worldwide. The C12,13 epoxide group in the trichothecenes was identified as a toxic group posing harm to humans, farm animals, and plants. Aerobic biological de-epoxidation is considered the ideal method of controlling these types of mycotoxins. In this study, we isolated a novel trichothecene mycotoxin-de-epoxidating bacterium, Desulfitobacterium sp. PGC-3-9, from a consortium obtained from the soil of a wheat field known for the occurrence of frequent Fusarium head blight epidemics under aerobic conditions. Along with MMYPF media, a combination of two antibiotics (sulfadiazine and trimethoprim) substantially increased the relative abundance of Desulfitobacterium species from 1.55% (aerobic) to 29.11% (aerobic) and 28.63% (anaerobic). A single colony purified strain, PGC-3-9, was isolated and a 16S rRNA sequencing analysis determined that it was Desulfitobacterium. The PGC-3-9 strain completely de-epoxidated HT-2, deoxynivalenol (DON), nivalenol and 15-acetyl deoxynivalenol, and efficiently eliminated DON in wheat grains under aerobic and anaerobic conditions. The strain PGC-3-9 exhibited high DON de-epoxidation activity at a wide range of pH (6–10) and temperature (15–50 °C) values under both conditions. This strain may be used for the development of detoxification agents in the agriculture and feed industries and the isolation of de-epoxidation enzymes.
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Affiliation(s)
- Wei-Jie He
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan 430064, China; (W.-J.H.); (C.-B.G.)
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
| | - Meng-Meng Shi
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Peng Yang
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Tao Huang
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Qing-Song Yuan
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Shu-Yuan Yi
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Ai-Bo Wu
- Key Laboratory of Food Safety Research Institute for Nutritional Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Shanghai 200031, China;
| | - He-Ping Li
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Life Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
| | - Chun-Bao Gao
- Hubei Key Laboratory of Food Crop Germplasm and Genetic Improvement, Food Crops Institute, Hubei Academy of Agricultural Sciences/Hubei Engineering and Technology Research Center of Wheat/Wheat Disease Biology Research Station for Central China, Wuhan 430064, China; (W.-J.H.); (C.-B.G.)
| | - Jing-Bo Zhang
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- Correspondence: (J.-B.Z.); (Y.-C.L.); Tel.: +86-27-87283008 (Y.-C.L.)
| | - Yu-Cai Liao
- Molecular Biotechnology Laboratory of Triticeae Crops, Huazhong Agricultural University, Wuhan 430070, China; (M.-M.S.); (P.Y.); (T.H.); (Q.-S.Y.); (S.-Y.Y.); (H.-P.L.)
- College of Plant Science and Technology, Huazhong Agricultural University, Wuhan 430070, China
- Correspondence: (J.-B.Z.); (Y.-C.L.); Tel.: +86-27-87283008 (Y.-C.L.)
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Czinnerová M, Vološčuková O, Marková K, Ševců A, Černík M, Nosek J. Combining nanoscale zero-valent iron with electrokinetic treatment for remediation of chlorinated ethenes and promoting biodegradation: A long-term field study. WATER RESEARCH 2020; 175:115692. [PMID: 32199189 DOI: 10.1016/j.watres.2020.115692] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2020] [Revised: 02/29/2020] [Accepted: 03/03/2020] [Indexed: 06/10/2023]
Abstract
Nanoscale zero-valent iron (nZVI) is recognized as a powerful tool for the remediation of groundwater contaminated by chlorinated ethenes (CEs). This long-term field study explored nZVI-driven degradation of CEs supported by electrokinetic (EK) treatment, which positively affects nZVI longevity and migration, and its impact on indigenous bacteria. In particular, the impact of combined nZVI-EK treatment on organohalide-respiring bacteria, ethenotrophs and methanotrophs (all capable of CE degradation) was assessed using molecular genetic markers detecting Dehalococcoides spp., Desulfitobacterium spp., the reductive dehalogenase genes vcrA and bvcA and ethenotroph and methanotroph functional genes. The remediation treatment resulted in a rapid decrease of the major pollutant cis-1,2-dichloroethene (cDCE) by 75% in the affected area, followed by an increase in CE degradation products methane, ethane and ethene. The newly established geochemical conditions in the treated aquifer not only promoted growth of organohalide-respiring bacteria but also allowed for the concurrent presence of vinyl chloride- and cDCE-oxidizing methanotrophs and (especially) ethenotrophs, which proliferated preferentially in the vicinity of an anode where low levels of oxygen were produced. The nZVI treatment resulted in a temporary negative impact on indigenous bacteria in the application well close to the cathode; but even there, the microbiome was restored within 15 days. The nZVI-EK treatment proved highly effective in reducing CE contamination and creating a suitable environment for subsequent biodegradation by changing groundwater conditions, promoting transport of nutrients and improving CE availability to soil and groundwater bacteria.
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Affiliation(s)
- Marie Czinnerová
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic; Faculty of Mechatronics, Informatics and Interdisciplinary Studies, Technical University of Liberec, Studentská 2, CZ-46117, Liberec, Czech Republic
| | - Ondřejka Vološčuková
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic
| | - Kristýna Marková
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic
| | - Alena Ševců
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic
| | - Miroslav Černík
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic
| | - Jaroslav Nosek
- Institute for Nanomaterials, Advanced Technologies and Innovation, Technical University of Liberec, Bendlova 7, CZ-46117, Liberec, Czech Republic.
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Investigation of Biogenic Passivating Layers on Corroded Iron. MATERIALS 2020; 13:ma13051176. [PMID: 32155722 PMCID: PMC7085031 DOI: 10.3390/ma13051176] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 02/12/2020] [Revised: 02/28/2020] [Accepted: 03/03/2020] [Indexed: 11/16/2022]
Abstract
This study evaluates mechanisms of biogenic mineral formation induced by bacterial iron reduction for the stabilization of corroded iron. As an example, the Desulfitobacterium hafniense strain TCE1 was employed to treat corroded coupons presenting urban natural atmospheric corrosion, and spectroscopic investigations were performed on the samples’ cross-sections to evaluate the corrosion stratigraphy. The treated samples presented a protective continuous layer of iron phosphates (vivianite Fe2+3(PO4)2·8H2O and barbosalite Fe2+Fe3+2(PO4)2(OH)2), which covered 92% of the surface and was associated with a decrease in the thickness of the original corrosion layer. The results allow us to better understand the conversion of reactive corrosion products into stable biogenic minerals, as well as to identify important criteria for the design of a green alternative treatment for the stabilization of corroded iron.
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Maini Rekdal V, Nol Bernadino P, Luescher MU, Kiamehr S, Le C, Bisanz JE, Turnbaugh PJ, Bess EN, Balskus EP. A widely distributed metalloenzyme class enables gut microbial metabolism of host- and diet-derived catechols. eLife 2020; 9:e50845. [PMID: 32067637 PMCID: PMC7028382 DOI: 10.7554/elife.50845] [Citation(s) in RCA: 32] [Impact Index Per Article: 8.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2019] [Accepted: 01/03/2020] [Indexed: 12/23/2022] Open
Abstract
Catechol dehydroxylation is a central chemical transformation in the gut microbial metabolism of plant- and host-derived small molecules. However, the molecular basis for this transformation and its distribution among gut microorganisms are poorly understood. Here, we characterize a molybdenum-dependent enzyme from the human gut bacterium Eggerthella lenta that dehydroxylates catecholamine neurotransmitters. Our findings suggest that this activity enables E. lenta to use dopamine as an electron acceptor. We also identify candidate dehydroxylases that metabolize additional host- and plant-derived catechols. These dehydroxylases belong to a distinct group of largely uncharacterized molybdenum-dependent enzymes that likely mediate primary and secondary metabolism in multiple environments. Finally, we observe catechol dehydroxylation in the gut microbiotas of diverse mammals, confirming the presence of this chemistry in habitats beyond the human gut. These results suggest that the chemical strategies that mediate metabolism and interactions in the human gut are relevant to a broad range of species and habitats.
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Affiliation(s)
- Vayu Maini Rekdal
- Department of Chemistry and Chemical BiologyHarvard UniversityCambridgeUnited States
| | - Paola Nol Bernadino
- Department of Chemistry and Molecular BiologyUniversity of California, IrvineIrvineUnited States
- Department of Chemistry and Molecular BiochemistryUniversity of California, IrvineIrvineUnited States
| | - Michael U Luescher
- Department of Chemistry and Chemical BiologyHarvard UniversityCambridgeUnited States
| | - Sina Kiamehr
- Department of Chemistry and Chemical BiologyHarvard UniversityCambridgeUnited States
| | - Chip Le
- Department of Chemistry and Chemical BiologyHarvard UniversityCambridgeUnited States
| | - Jordan E Bisanz
- Department of Microbiology and ImmunologyUniversity of California, San FranciscoSan FranciscoUnited States
| | - Peter J Turnbaugh
- Department of Microbiology and ImmunologyUniversity of California, San FranciscoSan FranciscoUnited States
- Chan Zuckerberg BiohubSan FranciscoUnited States
| | - Elizabeth N Bess
- Department of Chemistry and Molecular BiologyUniversity of California, IrvineIrvineUnited States
- Department of Chemistry and Molecular BiochemistryUniversity of California, IrvineIrvineUnited States
| | - Emily P Balskus
- Department of Chemistry and Chemical BiologyHarvard UniversityCambridgeUnited States
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Yamamura S, Kurasawa H, Kashiwabara Y, Hori T, Aoyagi T, Nakajima N, Amachi S. Soil Microbial Communities Involved in Reductive Dissolution of Arsenic from Arsenate-Laden Minerals with Different Carbon Sources. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2019; 53:12398-12406. [PMID: 31580064 DOI: 10.1021/acs.est.9b03467] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The natural microbial communities involved in arsenic (As) extraction under biostimulated conditions are still unclear. In this study, soil slurry was incubated with arsenate [As(V)]-laden Fe(III) or Al (hydr)oxides with lactate or acetate. After 40 d, dissolved As released from As(V)-laden Fe(III) accounted for 54% of the initial solid-phase As in lactate-amended slurries, while much less As was released from acetate-amended slurries. As was released more rapidly from As(V)-laden Al, but the total release was relatively low (45%). High-throughput Illumina sequencing of 16S rRNA genes revealed that dissimilatory metal(loid) reducers such as Desulfitobacterium became predominant in lactate-amended slurries. Moreover, anaerobic fermenters in the Sporomusaceae family were predominant. Interestingly, a Sporomusaceae bacterial strain isolated from the slurry was capable of releasing As from both As(V)-laden (hydr)oxides in the presence of lactate. The strain first released As as As(V) and subsequently reduced it to As(III) in the aqueous phase. These results suggest that lactate is a suitable carbon source for As extraction by natural microbial communities, and that both dissimilatory metal(loid) reducers and certain anaerobic fermenters play significant roles in As extraction. Microbial reductive dissolution of As may be expected to be a cost-effective restoration technique for As-contaminated soils.
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Affiliation(s)
| | - Hibiki Kurasawa
- Graduate School of Horticulture , Chiba University , 648 Matsudo , Matsudo , Chiba 271-8510 , Japan
| | - Yuta Kashiwabara
- Graduate School of Horticulture , Chiba University , 648 Matsudo , Matsudo , Chiba 271-8510 , Japan
| | - Tomoyuki Hori
- Environmental Management Research Institute , National Institute of Advanced Industrial Science and Technology , Onogawa 16-1 , Tsukuba , Ibaraki 305-8569 , Japan
| | - Tomo Aoyagi
- Environmental Management Research Institute , National Institute of Advanced Industrial Science and Technology , Onogawa 16-1 , Tsukuba , Ibaraki 305-8569 , Japan
| | | | - Seigo Amachi
- Graduate School of Horticulture , Chiba University , 648 Matsudo , Matsudo , Chiba 271-8510 , Japan
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The Spatial Distribution of the Microbial Community in a Contaminated Aquitard below an Industrial Zone. WATER 2019. [DOI: 10.3390/w11102128] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Abstract
The industrial complex Neot Hovav, in Israel, is situated above an anaerobic fractured chalk aquitard, which is polluted by a wide variety of hazardous organic compounds. These include volatile and non-volatile, halogenated, organic compounds. In this study, we characterized the indigenous bacterial population in 17 boreholes of the groundwater environment, while observing the spatial variations in the population and structure as a function of distance from the polluting source. In addition, the de-halogenating potential of the microbial groundwater population was tested through a series of lab microcosm experiments, thus exemplifying the potential and limitations for bioremediation of the site. In all samples, the dominant phylum was Proteobacteria. In the production plant area, the non-obligatory organo-halide respiring bacteria (OHRB) Firmicutes Phylum was also detected in the polluted water, in abundancies of up to 16 %. Non-metric multidimensional scaling (NMDS) analysis of the microbial community structure in the groundwater exhibited clusters of distinct populations following the location in the industrial complex and distance from the polluting source. Dehalogenation of halogenated ethylene was demonstrated in contrast to the persistence of brominated alcohols. Persistence is likely due to the chemical characteristics of brominated alcohols, and not because of the absence of active de-halogenating bacteria.
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Lin XQ, Li ZL, Liang B, Zhai HL, Cai WW, Nan J, Wang AJ. Accelerated microbial reductive dechlorination of 2,4,6-trichlorophenol by weak electrical stimulation. WATER RESEARCH 2019; 162:236-245. [PMID: 31279315 DOI: 10.1016/j.watres.2019.06.068] [Citation(s) in RCA: 134] [Impact Index Per Article: 26.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2019] [Revised: 06/07/2019] [Accepted: 06/26/2019] [Indexed: 05/20/2023]
Abstract
Microbial reductive dechlorination of chlorinated aromatics frequently suffers from the long dechlorination period and the generation of toxic metabolites. Biocathode bioelectrochemical systems were verified to be effective in the degradation of various refractory pollutants. However, the electrochemical and microbial related working mechanisms for bio-dechlorination by electro-stimulation remain poorly understood. In this study, we reported the significantly improved 2,4,6-trichlorophenol dechlorination activity through the weak electro-stimulation (cathode potential of -0.36 V vs. SHE), as evidenced by the 3.1 times higher dechlorination rate and the complete dechlorination ability with phenol as the end dechlorination product. The high reductive dechlorination rate (20.8 μM/d) could be maintained by utilizing electrode as an effective electron donor (coulombic efficiency of 82.3 ± 4.8%). Cyclic voltammetry analysis of the cathodic biofilm gave the direct evidences of the cathodic respiration with the improved and positive-shifted reduction peaks of 2,4,6-TCP, 2,4-DCP and 4-CP. The optimal 2,4,6-TCP reductive dechlorination rate (24.2 μM/d) was obtained when a small amount of lactate (2 mM) was added, and the generation of H2 and CH4 were accompanied due to the biological fermentation and methanogenesis. The electrical stimulation significantly altered the cathodic biofilm structure and composition with some potential dechlorinators (like Acetobacterium) predominated. The microbial interactions in the ecological network of cathodic biofilm were more simplified than the planktonic community. However, some potential dechlorinators (Acetobacterium, Desulfovibrio, etc.) shared more positive interactions. The co-existence and possible cooperative relationships between potential dechlorinators and fermenters (Sedimentibacter, etc.) were revealed. Meanwhile, the competitive interrelations between potential dechlorinators and methanogens (Methanomassiliicoccus) were found. In the network of plankton, the fermenters and methanogens possessed the more positive interrelations. Electro-stimulation at the cathodic potential of -0.36 V selectively enhanced the dechlorination function, while it showed little influence on either fermentation or methanogenesis process. The study gave suggestions for the enhanced bioremediation of chlorinated aromatics, in views of the electro-stimulation capacity, efficiency and microbial interrelations related microbial mechanism.
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Affiliation(s)
- Xiao-Qiu Lin
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| | - Zhi-Ling Li
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China.
| | - Bin Liang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China
| | - Hong-Liang Zhai
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| | - Wei-Wei Cai
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| | - Jun Nan
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China
| | - Ai-Jie Wang
- State Key Laboratory of Urban Water Resources and Environment, School of Environment, Harbin Institute of Technology, Harbin, 150090, China; Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, PR China.
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47
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Xu JX, Li XM, Sun GX, Cui L, Ding LJ, He C, Li LG, Shi Q, Smets BF, Zhu YG. Fate of Labile Organic Carbon in Paddy Soil Is Regulated by Microbial Ferric Iron Reduction. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2019; 53:8533-8542. [PMID: 31269402 DOI: 10.1021/acs.est.9b01323] [Citation(s) in RCA: 24] [Impact Index Per Article: 4.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Global paddy soil is the primary source of methane, a potent greenhouse gas. It is therefore highly important to understand the carbon cycling in paddy soil. Microbial reduction of iron, which is widely found in paddy soil, is likely coupled with the oxidation of dissolved organic matter (DOM) and suppresses methanogenesis. However, little is known about the biotransformation of small molecular DOM accumulated under flooded conditions and the effect of iron reduction on the biotransformation pathway. Here, we carried out anaerobic incubation experiments using field-collected samples amended with ferrihydrite and different short-chain fatty acids. Our results showed that less than 20% of short-chain fatty acids were mineralized and released to the atmosphere. Using Fourier transform ion cyclotron resonance mass spectrometry, we further found that a large number of recalcitrant molecules were produced during microbial consumption of these short-chain fatty acids. Moreover, the biotransformation efficiency of short-chain fatty acids decreased with the increasing length of carbon chains. Ferrihydrite addition promoted microbial assimilation of short-chain fatty acids as well as enhanced the activation and biotransformation of indigenous stable carbon in the soil replenished with formate. This study demonstrates the significance of ferrihydrite in the biotransformation of labile DOM and promotes a more comprehensive understanding of the coupling of iron reduction and carbon cycling in paddy soils.
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Affiliation(s)
- Jian-Xin Xu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences , Chinese Academy of Sciences , Beijing 100085 , People's Republic of China
- Department of Environmental Engineering , Technical University of Denmark , 2800 Kongens Lyngby , Denmark
- Sino-Danish College of University of Chinese Academy of Sciences , Beijing 101400 , People's Republic of China
- Sino-Danish Centre for Education and Research , Beijing 100049 , People's Republic of China
| | - Xiao-Ming Li
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences , Chinese Academy of Sciences , Beijing 100085 , People's Republic of China
- University of Chinese Academy of Sciences , Beijing 100049 , People's Republic of China
| | - Guo-Xin Sun
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences , Chinese Academy of Sciences , Beijing 100085 , People's Republic of China
- University of Chinese Academy of Sciences , Beijing 100049 , People's Republic of China
| | - Li Cui
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment , Chinese Academy of Sciences , Xiamen , Fujian 361021 , People's Republic of China
| | - Long-Jun Ding
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences , Chinese Academy of Sciences , Beijing 100085 , People's Republic of China
| | - Chen He
- State Key Laboratory of Heavy Oil Processing , China University of Petroleum , Beijing 102249 , People's Republic of China
| | - Li-Guan Li
- Department of Environmental Engineering , Technical University of Denmark , 2800 Kongens Lyngby , Denmark
| | - Quan Shi
- State Key Laboratory of Heavy Oil Processing , China University of Petroleum , Beijing 102249 , People's Republic of China
| | - Barth F Smets
- Department of Environmental Engineering , Technical University of Denmark , 2800 Kongens Lyngby , Denmark
| | - Yong-Guan Zhu
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences , Chinese Academy of Sciences , Beijing 100085 , People's Republic of China
- Key Laboratory of Urban Environment and Health, Institute of Urban Environment , Chinese Academy of Sciences , Xiamen , Fujian 361021 , People's Republic of China
- University of Chinese Academy of Sciences , Beijing 100049 , People's Republic of China
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48
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Yi XY, Yang YP, Yuan HY, Chen Z, Duan GL, Zhu YG. Coupling metabolisms of arsenic and iron with humic substances through microorganisms in paddy soil. JOURNAL OF HAZARDOUS MATERIALS 2019; 373:591-599. [PMID: 30952004 DOI: 10.1016/j.jhazmat.2019.03.113] [Citation(s) in RCA: 44] [Impact Index Per Article: 8.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/27/2018] [Revised: 03/20/2019] [Accepted: 03/26/2019] [Indexed: 05/12/2023]
Abstract
Humic acid (HA) and fulvic acid (FA) are dominating humic substances (HS) in soil. In this study, the effects of HA and FA addition (0.2%-1.5%) on arsenic (As) mobility and microbial community composition in paddy soil were investigated. FA significantly increased the concentrations of As (12-fold), iron (Fe; 20-fold), manganese (Mn; 3-fold) and acetic acid (3-fold) in soil porewater, and also caused significant enrichment of Desulfitobacterium (41-fold). Furthermore, the FA addition significantly increased the relative abundance of Bathyarchaeota (4-fold), a microorganism that is suggested to be important for FA degradation. In contrast, HA slightly increased As (1.2-fold) in porewater, had little effect on Fe, Mn and acetic acid, and 1.5% HA addition significantly decreased As in porewater at day 14 (45%). Both HA and FA addition promoted As methylation. HA increased dimethylarsenate concentration and FA increased monomethylarsenate concentration in porewater. These results highlight the contrasting effects of different (HA vs. FA) organic substances on As fate in paddy soil and advance our understanding of the associations among As, Fe and organic substances through microorganisms in paddy soil.
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Affiliation(s)
- Xing-Yun Yi
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China; University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Yu-Ping Yang
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China; University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Hai-Yan Yuan
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China; University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China
| | - Zheng Chen
- Department of Health and Environmental Sciences, Xi'an Jiaotong-Liverpool University, Suzhou, 215123, People's Republic of China
| | - Gui-Lan Duan
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China; University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China.
| | - Yong-Guan Zhu
- State Key Lab of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, People's Republic of China; University of Chinese Academy of Sciences, Beijing, 100049, People's Republic of China; Key Laboratory of Urban Environment and Health, Institute of Urban Environment, Chinese Academy of Sciences, Xiamen, 361021, People's Republic of China
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49
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Farnberger J, Hiebler K, Bierbaumer S, Skibar W, Zepeck F, Kroutil W. Cobalamin-Dependent Apparent Intramolecular Methyl Transfer for Biocatalytic Constitutional Isomerization of Catechol Monomethyl Ethers. ACS Catal 2019; 9:3900-3905. [PMID: 31080689 PMCID: PMC6503581 DOI: 10.1021/acscatal.8b05072] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2018] [Revised: 03/14/2019] [Indexed: 12/29/2022]
Abstract
Isomerization is a fundamental reaction in chemistry. However, isomerization of phenyl methyl ethers has not been described yet. Using a cobalamin-dependent methyl transferase, a reversible shuttle concept was investigated for isomerization of catechol monomethyl ethers. The methyl ether of substituted catechol derivatives was successfully transferred onto the adjacent hydroxy moiety. For instance, the cobalamin-dependent biocatalyst transformed isovanillin to its regioisomer vanillin with significant regioisomeric excess (68% vanillin). To the best of our knowledge, isomerization by methyl transfer employing a methyl transferase has not been reported before.
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Affiliation(s)
- Judith
E. Farnberger
- Austrian
Centre of Industrial Biotechnolgy, ACIB GmbH, c/o University of Graz, Heinrichstrasse 28, 8010 Graz, Austria
| | - Katharina Hiebler
- Institute
of Chemistry, Organic and Bioorganic Chemistry, NAWI Graz, BioTechMed
Graz, University of Graz, Heinrichstrasse 28, 8010 Graz, Austria
| | - Sarah Bierbaumer
- Institute
of Chemistry, Organic and Bioorganic Chemistry, NAWI Graz, BioTechMed
Graz, University of Graz, Heinrichstrasse 28, 8010 Graz, Austria
| | - Wolfgang Skibar
- Sandoz
GmbH, Biocatalysis Lab, Biochemiestrasse 10, 6250 Kundl, Austria
| | - Ferdinand Zepeck
- Sandoz
GmbH, Biocatalysis Lab, Biochemiestrasse 10, 6250 Kundl, Austria
| | - Wolfgang Kroutil
- Institute
of Chemistry, Organic and Bioorganic Chemistry, NAWI Graz, BioTechMed
Graz, University of Graz, Heinrichstrasse 28, 8010 Graz, Austria
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50
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Zearalenone Changes the Diversity and Composition of Caecum Microbiota in Weaned Rabbit. BIOMED RESEARCH INTERNATIONAL 2018; 2018:3623274. [PMID: 30402473 PMCID: PMC6196994 DOI: 10.1155/2018/3623274] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 09/16/2018] [Indexed: 12/13/2022]
Abstract
Mycotoxins exhibit several severe effects on intestinal health, but few studies have assessed mycotoxins effect on the intestinal microflora and its repercussions to humans and animals. In this study, we evaluated the effect of zearalenone (ZEA), one of the most harmful mycotoxins on the structure of caecal microbiota in rabbits. Twenty-eight male weaned rabbits were randomly divided into four groups and orally given different concentrations of ZEA (400, 800, and 1600 μg/kg.b.w). Microbial communities in caecum samples of rabbits were analyzed for 16S rRNA by Illumina sequencing through Illumina Miseq platform after being fed for 28 days. The results showed that increasing ZEA doses increased the species richness but did not significantly increased the species diversity of the caecum microbiota in the rabbits. In addition, the caecum microbiota from the samples in different ZEA-treated groups was clustered according to their dosing regimens. At the phylum level, ZEA decreased the abundance of Actinobacteria and significantly increased the abundance of Cyanobacteria, Synergistetes, and Proteobacteria. At the genus level, there were declines in the abundance of Adlercreutzia, Blautia, Desulfitobacter, Lactobacillus, Oxalobacter, and p-75-a5. The decrease of abundance in Lactobacillus, Desulfitobacter, and p-75-a5 was particularly noticeable. In conclusion, zearalenone could increase α-diversity but significantly decrease the abundance of some bacteria with the important metabolic functions. These findings suggested that ZEA could modify the caecum microbiota.
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