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Xu F, Li P. Biogeochemical mechanisms of iron (Fe) and manganese (Mn) in groundwater and soil profiles in the Zhongning section of the Weining Plain (northwest China). THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 939:173506. [PMID: 38815819 DOI: 10.1016/j.scitotenv.2024.173506] [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: 03/11/2024] [Revised: 05/18/2024] [Accepted: 05/23/2024] [Indexed: 06/01/2024]
Abstract
High levels of Iron (Fe) and manganese (Mn) in soils may contribute to secondary contamination of groundwater. However, there is limited understanding of the cycling mechanisms of Fe and Mn in groundwater and soil. This study aimed to investigate the biogeochemical processes constituting the Fe and Mn cycle by combining hydrochemistry, sequential extraction and microbiological techniques. The results indicated a similar vertical distribution pattern of Fe and Mn, with lower levels of the effective form (EFC-Fe/Mn) observed at the oxygenated surface, increasing near the groundwater table and decreasing below it. Generally, there was a tendency for accumulation above the water table, with Mn exhibiting a higher release potential compared to Fe. Iron‑manganese oxides (Ox-Fe/Mn) dominated the effective forms, with Fe and Mn in the soil entering groundwater through the reduction dissolution of Ox-Fe/Mn and the oxidative degradation of organic matter or sulfide (OM-Fe/Mn). Correlation analysis revealed that Fe and Mn tend to accumulate in media with fine particles and high organic carbon (TOC) contents. 16S rRNA sequencing analysis disclosed significant variation in the abundance of microorganisms associated with Fe and Mn transformations among unsaturated zone soils, saturated zone media and groundwater, with Fe/Mn content exerting an influence on microbial communities. Furthermore, functional bacterial identification results from the FAPROTAX database show a higher abundance of iron-oxidizing bacteria (9.3 %) in groundwater, while iron and manganese-reducing bacteria are scarce in both groundwater and soil environments. Finally, a conceptual model of Fe and Mn cycling was constructed, elucidating the biogeochemical processes in groundwater and soil environments. This study provides a new perspective for a deeper understanding of the environmental fate of Fe and Mn, which is crucial for mitigating Fe and Mn pollution in groundwater.
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Affiliation(s)
- Fei Xu
- School of Water and Environment, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects in Arid Region of the Ministry of Education, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China; Key Laboratory of Eco-hydrology and Water Security in Arid and Semi-arid Regions of the Ministry of Water Resources, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China
| | - Peiyue Li
- School of Water and Environment, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China; Key Laboratory of Subsurface Hydrology and Ecological Effects in Arid Region of the Ministry of Education, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China; Key Laboratory of Eco-hydrology and Water Security in Arid and Semi-arid Regions of the Ministry of Water Resources, Chang'an University, No. 126 Yanta Road, Xi'an 710054, Shaanxi, China.
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2
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Yuan Y, Li Q, Deng J, Ma X, Liao X, Zou J, Liao J, Huang H, Dai H. Response mechanism of soil leachate and disinfection by-product formation to extreme precipitation events under continuous drought scenario. THE SCIENCE OF THE TOTAL ENVIRONMENT 2024; 916:170123. [PMID: 38232842 DOI: 10.1016/j.scitotenv.2024.170123] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/23/2023] [Revised: 12/30/2023] [Accepted: 01/10/2024] [Indexed: 01/19/2024]
Abstract
In this study, a rainfall simulation device was employed to investigate the response mechanism of soil leachate and disinfection by-products formation potential (DBPsFP) to extreme precipitation events. The results revealed that the aromaticity of dissolved organic matter (DOM) and the concentration of hydrophobic DOM containing aromatic carbon groups in leachate decreased with rising temperature. The humification degree of DOM decreased at 25 °C (99 mm/h), while the humification degree and protein-like level of DOM increased under high temperatures droughts (45 °C and 65 °C). Higher temperatures resulted in the leach of more microbial-derived humus and low molecular phenolic compounds from soil and broadened the range of molecular weight distribution. Increasing temperature increased DBPsFP and DBPs species and caused the precursors of haloacetic acids (HAAs) in leachate to become more hydrophobic, while the precursors of trihalomethanes (THMs) became more hydrophilic. Most importantly, the increased temperature attenuated the rainfall-mediated dilution of organic pollutant concentration, and temperature has a more significant effect than extreme rainfall in DOM abundance and the formation potential (or species) of DBPs. The results help to better understand the impact of climate change on the physicochemical processes of water quality.
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Affiliation(s)
- Yujin Yuan
- Water Resources and Environmental Institute, Xiamen University of Technology, Xiamen 361005, China; Key Laboratory of Water Resources Utilization and Protection, Xiamen City, Xiamen 361005, China
| | - Qingsong Li
- Water Resources and Environmental Institute, Xiamen University of Technology, Xiamen 361005, China; Key Laboratory of Water Resources Utilization and Protection, Xiamen City, Xiamen 361005, China.
| | - Jing Deng
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310014, China
| | - Xiaoyan Ma
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310014, China
| | - Xiaobin Liao
- College of Civil Engineering, Huaqiao University, Xiamen 361021, China.
| | - Jing Zou
- College of Civil Engineering, Huaqiao University, Xiamen 361021, China.
| | - Jie Liao
- Water Resources and Environmental Institute, Xiamen University of Technology, Xiamen 361005, China.
| | - Huahan Huang
- Water Resources and Environmental Institute, Xiamen University of Technology, Xiamen 361005, China; Key Laboratory of Water Resources Utilization and Protection, Xiamen City, Xiamen 361005, China
| | - Huilin Dai
- Water Resources and Environmental Institute, Xiamen University of Technology, Xiamen 361005, China
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3
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Acetoclastic archaea adaptation under increasing temperature in lake sediments and wetland soils from Alaska. Polar Biol 2023. [DOI: 10.1007/s00300-023-03120-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/16/2023]
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4
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Jiang Y, Yang L, Wu S, Zhou T. Warming changes the composition and diversity of fungal communities in permafrost. ANN MICROBIOL 2023. [DOI: 10.1186/s13213-022-01707-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/05/2023] Open
Abstract
Abstract
Purpose
It is the data support and theoretical basis for the response mechanism of soil fungi to climate warming in permafrost areas in the Greater Xing’an Mountains.
Methods
We collected permafrost from the Greater Xing’an Mountains for indoor simulation experiments and took the natural permafrost as the control (CK) and the test groups of 0 °C (T1), 2 °C (T2), and 4 °C (T3) were set. Illumina MiSeq high-throughput sequencing technology was used to understand the changes in characteristics of fungal communities, and the correlations were analyzed combined with the soil physicochemical properties.
Results
Compared with CK, the value of pH and the content of available potassium (AK) in the three warming treatment groups were significantly lower (P < 0.05), and the microbial biomass carbon (MBC) content was significantly higher (P < 0.05). The content of total nitrogen (TN) and available nitrogen (AN) in the T1 and T3 groups was significantly lower than that in the CK group (P < 0.05). A total of 11 phyla, 39 classes, 89 orders, 187 families, 361 genera, and 522 species were obtained through fungal sequencing and divided into 1463 amplicon sequence variants (ASVs). Ascomycota and Dimorphospora were the dominant phylum and genus, respectively, and there were differences in the response of relative abundance of various groups at the phylum and genus levels to warming. Warming significantly decreased the Sobs and ACE indexes of the treatment groups (P < 0.05), and the Shannon and Shannoneven indexes also showed a downward trend. Moreover, warming significantly changed the fungal beta diversity (P < 0.01), while the value of pH and the content of TN, MBC, and AK could significantly affect the community structure (P < 0.05), and the correlation between fungi at different phyla levels and soil physicochemical properties was different.
Conclusions
These results can provide a reference for further study on the changes in composition and structure of fungal communities and the influence factor in permafrost in the Greater Xing’an Mountains under the background of warming.
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5
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Yang M, Liu N, Wang B, Li Y, Li J, Liu CQ. Archaeal contribution to carbon-functional composition and abundance in China's coastal wetlands: Not to be underestimated. Front Microbiol 2022; 13:1013408. [PMID: 36439847 PMCID: PMC9685420 DOI: 10.3389/fmicb.2022.1013408] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2022] [Accepted: 10/27/2022] [Indexed: 01/16/2024] Open
Abstract
Microbial diversity, together with carbon function, plays a key role in driving the wetland carbon cycle; however, the composition, driving factors of carbon-functional genes and the relationship with microbial community have not been well characterized in coastal wetlands. To understand these concerns, microbes, carbon-functional genes, and related environmental factors were investigated in twenty wetlands along China's coast. The results indicate that carbon-functional gene composition is dominated by archaeal rather than bacterial community and that Nanoarchaeaeota is the dominant archaeal phylum associated with carbon cycling in anoxic sediments. Compared with microbes, carbon-functional composition was more stable because they showed the highest Shannon diversity and archaeal functional redundancy. Deterministic processes dominated microbial community, and stochastic processes were more important for carbon-functional genes. Labile Fe governed archaeal and carbon-functional composition by coupling with nitrogen and carbon biogeochemical cycles, while bacterial community was affected by NH4-N and SOC/SON. This study highlights the predominant contributions of archaea to carbon-functional genes and to the stability of carbon-functional composition, thus providing new insights into the microbial dominance of the carbon cycle and the evaluation of carbon function in coastal wetlands.
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Affiliation(s)
- Meiling Yang
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
| | - Na Liu
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
| | - Baoli Wang
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
- Bohai Coastal Critical Zone National Observation and Research Station, Tianjin University, Tianjin, China
| | - Yajun Li
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
| | - Jianfeng Li
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
| | - Cong-Qiang Liu
- School of Earth System Science, Institute of Surface-Earth System Science, Tianjin University, Tianjin, China
- Bohai Coastal Critical Zone National Observation and Research Station, Tianjin University, Tianjin, China
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6
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Shi P, Wang H, Feng M, Cheng H, Yang Q, Yan Y, Xu J, Zhang M. Bacterial Metabolic Potential in Response to Climate Warming Alters the Decomposition Process of Aquatic Plant Litter-In Shallow Lake Mesocosms. Microorganisms 2022; 10:1327. [PMID: 35889044 PMCID: PMC9316218 DOI: 10.3390/microorganisms10071327] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/30/2022] [Revised: 06/28/2022] [Accepted: 06/28/2022] [Indexed: 02/04/2023] Open
Abstract
Increased decomposition rates in shallow lakes with global warming might increase the release of atmospheric greenhouse gases, thereby producing positive feedback for global warming. However, how climate warming affects litter decomposition is still unclear in lake ecosystems. Here, we tested the effects of constant and variable warming on the bacterial metabolic potential of typically submerged macrophyte (Potamogeton crispus L.) litters during decomposition in 18 mesocosms (2500 L each). The results showed that warming reduced main chemoheterotrophic metabolic potential but promoted methylotrophy metabolism, which means that further warming may alter methane-cycling microbial metabolism. The nitrate reduction function was inhibited under warming treatments, and nitrogen fixation capability significantly increased under variable warming in summer. The changes in dissolved oxygen (DO), pH, conductivity and ammonium nitrogen driven by warming are the main environmental factors affecting the bacteria's metabolic potential. The effects of warming and environmental factors on fermentation, nitrate reduction and ammonification capabilities in stem and leaf litter were different, and the bacterial potential in the stem litter were more strongly responsive to environmental factors. These findings suggest that warming may considerably alter bacterial metabolic potential in macrophyte litter, contributing to long-term positive feedback between the C and N cycle and climate.
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Affiliation(s)
- Penglan Shi
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
| | - Huan Wang
- State Key Laboratory of Marine Resource Utilization in South China Sea, Hainan University, Haikou 570228, China;
- Donghu Experimental Station of Lake Ecosystems, State Key Laboratory of Freshwater Ecology and Biotechnology of China, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China;
| | - Mingjun Feng
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
| | - Haowu Cheng
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
| | - Qian Yang
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
| | - Yifeng Yan
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
| | - Jun Xu
- Donghu Experimental Station of Lake Ecosystems, State Key Laboratory of Freshwater Ecology and Biotechnology of China, Institute of Hydrobiology, Chinese Academy of Sciences, Wuhan 430072, China;
| | - Min Zhang
- Hubei Provincial Engineering Laboratory for Pond Aquaculture, Engineering Research Center of Green Development for Conventional Aquatic Biological Industry in the Yangtze River Economic Belt, Ministry of Education, College of Fisheries, Huazhong Agricultural University, Wuhan 430070, China; (P.S.); (M.F.); (H.C.); (Q.Y.); (Y.Y.)
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7
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Keuschnig C, Larose C, Rudner M, Pesqueda A, Doleac S, Elberling B, Björk RG, Klemedtsson L, Björkman MP. Reduced methane emissions in former permafrost soils driven by vegetation and microbial changes following drainage. GLOBAL CHANGE BIOLOGY 2022; 28:3411-3425. [PMID: 35285570 PMCID: PMC9314937 DOI: 10.1111/gcb.16137] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/24/2021] [Accepted: 01/12/2022] [Indexed: 06/14/2023]
Abstract
In Arctic regions, thawing permafrost soils are projected to release 50 to 250 Gt of carbon by 2100. This data is mostly derived from carbon-rich wetlands, although 71% of this carbon pool is stored in faster-thawing mineral soils, where ecosystems close to the outer boundaries of permafrost regions are especially vulnerable. Although extensive data exists from currently thawing sites and short-term thawing experiments, investigations of the long-term changes following final thaw and co-occurring drainage are scarce. Here we show ecosystem changes at two comparable tussock tundra sites with distinct permafrost thaw histories, representing 15 and 25 years of natural drainage, that resulted in a 10-fold decrease in CH4 emissions (3.2 ± 2.2 vs. 0.3 ± 0.4 mg C-CH4 m-2 day-1 ), while CO2 emissions were comparable. These data extend the time perspective from earlier studies based on short-term experimental drainage. The overall microbial community structures did not differ significantly between sites, although the drier top soils at the most advanced site led to a loss of methanogens and their syntrophic partners in surface layers while the abundance of methanotrophs remained unchanged. The resulting deeper aeration zones likely increased CH4 oxidation due to the longer residence time of CH4 in the oxidation zone, while the observed loss of aerenchyma plants reduced CH4 diffusion from deeper soil layers directly to the atmosphere. Our findings highlight the importance of including hydrological, vegetation and microbial specific responses when studying long-term effects of climate change on CH4 emissions and underscores the need for data from different soil types and thaw histories.
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Affiliation(s)
- Christoph Keuschnig
- Environmental Microbial GenomicsLaboratoire AmpereEcole Centrale de LyonEcullyFrance
| | - Catherine Larose
- Environmental Microbial GenomicsLaboratoire AmpereEcole Centrale de LyonEcullyFrance
| | - Mario Rudner
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
| | - Argus Pesqueda
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Present address:
Center for Ecological Research and Forestry Applications (CREAF)‐Edifici CUniversitat Autonoma de BarcelonaBellaterra, BarcelonaSpain
| | - Stéphane Doleac
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Ecole PolytechniquePalaiseauFrance
| | - Bo Elberling
- Center for Permafrost (CENPERM)Department of Geosciences and Natural Resource ManagementUniversity of CopenhagenCopenhagenDenmark
| | - Robert G. Björk
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Gothenburg Global Biodiversity CentreGothenburgSweden
| | - Leif Klemedtsson
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
| | - Mats P. Björkman
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Gothenburg Global Biodiversity CentreGothenburgSweden
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8
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Han Y, Qu C, Hu X, Wang P, Wan D, Cai P, Rong X, Chen W, Huang Q. Warming and humidification mediated changes of DOM composition in an Alfisol. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 805:150198. [PMID: 34537712 DOI: 10.1016/j.scitotenv.2021.150198] [Citation(s) in RCA: 6] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/21/2021] [Revised: 08/29/2021] [Accepted: 09/03/2021] [Indexed: 06/13/2023]
Abstract
Dissolved organic matter (DOM) represents the most mobile and reactive pool of soil organic matter (SOM). Climate changes, such as global warming and altered precipitation exert considerable influences on the quality and quantity of soil DOM. However, rare reports have focused on the interactive effects of soil warming and increased precipitation. In the present study, we conducted a 90-day incubation experiment to investigate how the concentration, source and chemical composition of DOM from an Alfisol respond to the variations of temperatures (15, 30 and 45 °C) and moistures (40%, 60%, and 80% of saturated soil water content). Four DOM components were identified through fluorescence excitation emission matrix (EEM)-parallel factor analysis (PARAFAC). Increased temperature alone aggravated the decomposition of plant-derived aromatic components (C2 and C4) but promoted the accumulation of microbial-derived aliphatic carbon (C1) and tryptophan-like component (C3). Increased fungi/bacteria ratio with warming was responsible for the decomposition of plant-derived components. Warming-induced disassociation of Ca-bearing mineral to colloidal Ca facilitated the accrual of microbial-derived aliphatic DOM. Humidification alone and humidification + warming significantly increased the concentration of DOM and the percentage of plant-derived aromatic carbon (C2, C4), which was attributed to the release of Fe-bearing mineral-OC. Based on the above findings along with the results of two-way ANOVA and Variation partition analysis, we infer that moisture will play a dominant role in regulating the chemical composition of DOM in Alfisols under both warming and humidification which in turn impact global C cycling and the ultimate climate.
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Affiliation(s)
- Yafeng Han
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Chenchen Qu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Xiping Hu
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Peng Wang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Dan Wan
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Peng Cai
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Xingmin Rong
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China
| | - Wenli Chen
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China
| | - Qiaoyun Huang
- State Key Laboratory of Agricultural Microbiology, Huazhong Agricultural University, Wuhan 430070, China; Key Laboratory of Arable Land Conservation (Middle and Lower Reaches of Yangtze River), Ministry of Agriculture, College of Resources and Environment, Huazhong Agricultural University, Wuhan 430070, China.
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9
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Chu LL, Bae H. Bacterial endophytes from ginseng and their biotechnological application. J Ginseng Res 2022; 46:1-10. [PMID: 35035239 PMCID: PMC8753428 DOI: 10.1016/j.jgr.2021.04.004] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2020] [Revised: 03/30/2021] [Accepted: 04/09/2021] [Indexed: 12/19/2022] Open
Abstract
Ginseng has been well-known as a medicinal plant for thousands of years. Bacterial endophytes ubiquitously colonize the inside tissues of ginseng without any disease symptoms. The identification of bacterial endophytes is conducted through either the internal transcribed spacer region combined with ribosomal sequences or metagenomics. Bacterial endophyte communities differ in their diversity and composition profile, depending on the geographical location, cultivation condition, and tissue, age, and species of ginseng. Bacterial endophytes have a significant effect on the growth of ginseng through indole-3-acetic acid (IAA) and siderophore production, phosphate solubilization, and nitrogen fixation. Moreover, bacterial endophytes can protect ginseng by acting as biocontrol agents. Interestingly, bacterial endophytes isolated from Panax species have the potential to produce ginsenosides and bioactive metabolites, which can be used in the production of food and medicine. The ability of bacterial endophytes to transform major ginsenosides into minor ginsenosides using β-glucosidase is gaining increasing attention as a promising biotechnology. Recently, metabolic engineering has accelerated the possibilities for potential applications of bacterial endophytes in producing beneficial secondary metabolites.
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Affiliation(s)
- Luan Luong Chu
- Faculty of Biotechnology, Chemistry and Environmental Engineering, Phenikaa University, Hanoi, Viet Nam
- Bioresource Research Center, Phenikaa University, Hanoi, Viet Nam
| | - Hanhong Bae
- Department of Biotechnology, Yeungnam University, Gyeongsan, Republic of Korea
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10
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Yang Z, Liao Y, Fu X, Zaporski J, Peters S, Jamison M, Liu Y, Wullschleger SD, Graham DE, Gu B. Temperature sensitivity of mineral-enzyme interactions on the hydrolysis of cellobiose and indican by β-glucosidase. THE SCIENCE OF THE TOTAL ENVIRONMENT 2019; 686:1194-1201. [PMID: 31412515 DOI: 10.1016/j.scitotenv.2019.05.479] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/26/2019] [Revised: 05/30/2019] [Accepted: 05/31/2019] [Indexed: 06/10/2023]
Abstract
Extracellular enzymes are mainly responsible for depolymerizing soil organic matter (SOM) in terrestrial ecosystems, and soil minerals are known to affect enzyme activity. However, the mechanisms and the effects of mineral-enzyme interactions on enzymatic degradation of organic matter remain poorly understood. In this study, we examined the adsorption of fungal β-glucosidase enzyme on minerals and time-dependent changes of enzymatic reactivity, measured by the degradation of two organic substrates (i.e., cellobiose and indican) under both cold (4 °C) and warm (20 and 30 °C) conditions. Hematite, kaolinite, and montmorillonite were used, to represent three common soil minerals with distinctly different surface charges and characteristics. β-glucosidase was found to sorb more strongly onto hematite and kaolinite than montmorillonite. All three minerals inhibited enzyme degradation of cellobiose and indican, likely due to the inactivation or hindrance of enzyme active sites. The mineral-bound β-glucosidase retained its specificity for organic substrate degradation, and increasing temperature from 4 to 30 °C enhanced the degradation rates by 2-4 fold for indican and 5-9 fold for cellobiose. These results indicate that enzyme adsorption, mineral type, temperature, and organic substrate specificity are important factors influencing enzymatic reactivity and thus have important implications in further understanding and modeling complex enzyme-facilitated SOM transformations in terrestrial ecosystems.
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Affiliation(s)
- Ziming Yang
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA; Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA.
| | - Yiju Liao
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA
| | - Xuan Fu
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA
| | - Jared Zaporski
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA
| | - Stephanie Peters
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA
| | - Megan Jamison
- Department of Chemistry, Oakland University, Rochester, MI, 48309, USA
| | - Yurong Liu
- College of Resources and Environment, Huazhong Agricultural University, Wuhan, 430070, China
| | - Stan D Wullschleger
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - David E Graham
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA
| | - Baohua Gu
- Environmental Sciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, 37831, USA.
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11
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Zhao M, Sun B, Wu L, Wang F, Wen C, Wang M, Liang Y, Hale L, Zhou J, Yang Y. Dissimilar responses of fungal and bacterial communities to soil transplantation simulating abrupt climate changes. Mol Ecol 2019; 28:1842-1856. [DOI: 10.1111/mec.15053] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/24/2018] [Revised: 02/02/2019] [Accepted: 02/11/2019] [Indexed: 12/12/2022]
Affiliation(s)
- Mengxin Zhao
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection Chinese Academy of Agricultural Sciences Beijing China
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment Tsinghua University Beijing China
| | - Bo Sun
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science Chinese Academy of Sciences Nanjing China
| | - Linwei Wu
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment Tsinghua University Beijing China
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, and School of Civil Engineering and Environmental Sciences University of Oklahoma Norman Oklahoma
| | - Feng Wang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science Chinese Academy of Sciences Nanjing China
- Ningbo Academy of Agricultural Sciences Ningbo China
| | - Chongqing Wen
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, and School of Civil Engineering and Environmental Sciences University of Oklahoma Norman Oklahoma
- Fisheries College Guangdong Ocean University Zhanjiang China
| | - Mengmeng Wang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment Tsinghua University Beijing China
| | - Yuting Liang
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science Chinese Academy of Sciences Nanjing China
| | - Lauren Hale
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, and School of Civil Engineering and Environmental Sciences University of Oklahoma Norman Oklahoma
| | - Jizhong Zhou
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment Tsinghua University Beijing China
- Institute for Environmental Genomics, Department of Microbiology and Plant Biology, and School of Civil Engineering and Environmental Sciences University of Oklahoma Norman Oklahoma
- Earth and Environmental Sciences Lawrence Berkeley National Laboratory Berkeley California
| | - Yunfeng Yang
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment Tsinghua University Beijing China
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12
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Short-Term Response of the Soil Microbial Abundances and Enzyme Activities to Experimental Warming in a Boreal Peatland in Northeast China. SUSTAINABILITY 2019. [DOI: 10.3390/su11030590] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
Abstract
Global warming is likely to influence the soil microorganisms and enzyme activity and alter the carbon and nitrogen balance of peatland ecosystems. To investigate the difference in sensitivities of carbon and nitrogen cycling microorganisms and enzyme activity to warming, we conducted three-year warming experiments in a boreal peatland. Our findings demonstrated that both mcrA and nirS gene abundance in shallow soil and deep soil exhibited insensitivity to warming, while shallow soil archaea 16S rRNA gene and amoA gene abundance in both shallow soil and deep soil increased under warming. Soil pmoA gene abundance of both layers, bacterial 16S rRNA gene abundance in shallow soil, and nirK gene abundance in deep soil decreased due to warming. The decreases of these gene abundances would be a result of losing labile substrates because of the competitive interactions between aboveground plants and underground soil microorganisms. Experimental warming inhibited β-glucosidase activity in two soil layers and invertase activity in deep soil, while it stimulated acid phosphatase activity in shallow soil. Both temperature and labile substrates regulate the responses of soil microbial abundances and enzyme activities to warming and affect the coupling relationships of carbon and nitrogen. This study provides a potential microbial mechanism controlling carbon and nitrogen cycling in peatland under climate warming.
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13
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Kramshøj M, Albers CN, Holst T, Holzinger R, Elberling B, Rinnan R. Biogenic volatile release from permafrost thaw is determined by the soil microbial sink. Nat Commun 2018; 9:3412. [PMID: 30143640 PMCID: PMC6109083 DOI: 10.1038/s41467-018-05824-y] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2018] [Accepted: 07/26/2018] [Indexed: 11/09/2022] Open
Abstract
Warming in the Arctic accelerates thawing of permafrost-affected soils, which leads to a release of greenhouse gases to the atmosphere. We do not know whether permafrost thaw also releases non-methane volatile organic compounds that can contribute to both negative and positive radiative forcing on climate. Here we show using proton transfer reaction-time of flight-mass spectrometry that substantial amounts of ethanol and methanol and in total 316 organic ions were released from Greenlandic permafrost soils upon thaw in laboratory incubations. We demonstrate that the majority of this release is taken up in the active layer above. In an experiment using 14C-labeled ethanol and methanol, we demonstrate that these compounds are consumed by microorganisms. Our findings highlight that the thawing permafrost soils are not only a considerable source of volatile organic compounds but also that the active layer regulates their release into the atmosphere.
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Affiliation(s)
- Magnus Kramshøj
- Terrestrial Ecology Section, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100, Copenhagen, Denmark.,Center for Permafrost (CENPERM), Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, DK-1350, Copenhagen, Denmark
| | - Christian N Albers
- Center for Permafrost (CENPERM), Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, DK-1350, Copenhagen, Denmark.,Department of Geochemistry, Geological Survey of Denmark and Greenland (GEUS), Øster Voldgade 10, DK-1350, Copenhagen, Denmark
| | - Thomas Holst
- Terrestrial Ecology Section, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100, Copenhagen, Denmark.,Department of Physical Geography & Ecosystem Science, Lund University, Sölvegatan 12, S-22362, Lund, Sweden
| | - Rupert Holzinger
- Institute for Marine and Atmospheric Research (IMAU), Utrecht University, Princetonplein 5, 3584 CC, Utrecht, The Netherlands
| | - Bo Elberling
- Center for Permafrost (CENPERM), Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, DK-1350, Copenhagen, Denmark
| | - Riikka Rinnan
- Terrestrial Ecology Section, Department of Biology, University of Copenhagen, Universitetsparken 15, DK-2100, Copenhagen, Denmark. .,Center for Permafrost (CENPERM), Department of Geosciences and Natural Resource Management, University of Copenhagen, Øster Voldgade 10, DK-1350, Copenhagen, Denmark.
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14
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Chen H, Yang Z, Chu RK, Tolic N, Liang L, Graham DE, Wullschleger SD, Gu B. Molecular Insights into Arctic Soil Organic Matter Degradation under Warming. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2018; 52:4555-4564. [PMID: 29569920 DOI: 10.1021/acs.est.7b05469] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/08/2023]
Abstract
Molecular composition of the Arctic soil organic carbon (SOC) and its susceptibility to microbial degradation are uncertain due to heterogeneity and unknown SOC compositions. Using ultrahigh-resolution mass spectrometry, we determined the susceptibility and compositional changes of extractable dissolved organic matter (EDOM) in an anoxic warming incubation experiment (up to 122 days) with a tundra soil from Alaska (United States). EDOM was extracted with 10 mM NH4HCO3 from both the organic- and mineral-layer soils during incubation at both -2 and 8 °C. Based on their O:C and H:C ratios, EDOM molecular formulas were qualitatively grouped into nine biochemical classes of compounds, among which lignin-like compounds dominated both the organic and the mineral soils and were the most stable, whereas amino sugars, peptides, and carbohydrate-like compounds were the most biologically labile. These results corresponded with shifts in EDOM elemental composition in which the ratios of O:C and N:C decreased, while the average C content in EDOM, molecular mass, and aromaticity increased after 122 days of incubation. This research demonstrates that certain EDOM components, such as amino sugars, peptides, and carbohydrate-like compounds, are disproportionately more susceptible to microbial degradation than others in the soil, and these results should be considered in SOC degradation models to improve predictions of Arctic climate feedbacks.
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Affiliation(s)
| | - Ziming Yang
- Department of Chemistry , Oakland University , Rochester , Michigan 48309 , United States
| | - Rosalie K Chu
- Environmental Molecular Sciences Laboratory , Pacific Northwest National Laboratory , Richland , Washington 99354 , United States
| | - Nikola Tolic
- Environmental Molecular Sciences Laboratory , Pacific Northwest National Laboratory , Richland , Washington 99354 , United States
| | - Liyuan Liang
- Environmental Molecular Sciences Laboratory , Pacific Northwest National Laboratory , Richland , Washington 99354 , United States
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