1
|
Demin KA, Prazdnova EV, Minkina TM, Gorovtsov AV. Sulfate-reducing bacteria unearthed: ecological functions of the diverse prokaryotic group in terrestrial environments. Appl Environ Microbiol 2024; 90:e0139023. [PMID: 38551370 PMCID: PMC11022543 DOI: 10.1128/aem.01390-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/18/2024] Open
Abstract
Sulfate-reducing prokaryotes (SRPs) are essential microorganisms that play crucial roles in various ecological processes. Even though SRPs have been studied for over a century, there are still gaps in our understanding of their biology. In the past two decades, a significant amount of data on SRP ecology has been accumulated. This review aims to consolidate that information, focusing on SRPs in soils, their relation to the rare biosphere, uncultured sulfate reducers, and their interactions with other organisms in terrestrial ecosystems. SRPs in soils form part of the rare biosphere and contribute to various processes as a low-density population. The data reveal a diverse range of sulfate-reducing taxa intricately involved in terrestrial carbon and sulfur cycles. While some taxa like Desulfitobacterium and Desulfosporosinus are well studied, others are more enigmatic. For example, members of the Acidobacteriota phylum appear to hold significant importance for the terrestrial sulfur cycle. Many aspects of SRP ecology remain mysterious, including sulfate reduction in different bacterial phyla, interactions with bacteria and fungi in soils, and the existence of soil sulfate-reducing archaea. Utilizing metagenomic, metatranscriptomic, and culture-dependent approaches will help uncover the diversity, functional potential, and adaptations of SRPs in the global environment.
Collapse
|
2
|
Gao C, Xu Z, Yan X, Wang G, Lin X, Zhang J, Guo X. Coupling the measures of pollution source control and water replenishment to improve water quality in the catchment scale of Qianshan River Basin. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2024; 341:122899. [PMID: 37967714 DOI: 10.1016/j.envpol.2023.122899] [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: 09/29/2023] [Revised: 11/01/2023] [Accepted: 11/07/2023] [Indexed: 11/17/2023]
Abstract
With the development of the economy, the problem of urban black odorous water bodies has become increasingly significant, having a serious impact on the environment. As important means of remediating aquatic environments, pollution source control and water replenishment are of great significance in improving water quality. This study takes the Qianshan River Basin in Zhuhai City as its study area to simulate their effects on the improvement of water quality. A coupled model of water quantity and quality in Qianshan River Basin was constructed using MIKE11to analyze the water quality compliance rate, with sewage interception rates of 85%, 90%, and 95%, and to investigate the effect of pollution source control on the improvement of the aquatic environment. Using different sewage interception rates, the amount of water replenishment was calculated in order to meet water quality standards, the water replenishment scheme was determined via river-specific and time-specific methods, and the model was used to analyze the replenishment effect of the scheme. The results show that increasing the sewage interception rate can significantly improve the COD compliance rate, and improve the NH3-N and TP compliance rate; however, the enhancement effect is not sufficiently significant. When a sewage interception rate of 95% is implemented, there are still five rivers with a low NH3-N compliance rate, and six rivers with low a TP compliance rate. Comparing the water replenishment effect under different sewage interception rates of 85% and 95%, the water replenishment program alongside a sewage interception rate of 95% can effectively improve the aquatic environment and the water quality essentially meets the standard under different rainfall conditions; this demonstrates that the program presented herein can be used as the aquatic environment remediation program of choice for the Qianshan River Basin.
Collapse
Affiliation(s)
- Cheng Gao
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China.
| | - Zhantuo Xu
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| | - Xiaoju Yan
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| | - Guodong Wang
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| | - Xinping Lin
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| | - Jichen Zhang
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| | - Xin Guo
- College of Hydrology and Water Resources, Hohai University, Nanjing, 210098, China
| |
Collapse
|
3
|
Reyes-Umana V, Ewens SD, Meier DAO, Coates JD. Integration of molecular and computational approaches paints a holistic portrait of obscure metabolisms. mBio 2023; 14:e0043123. [PMID: 37855625 PMCID: PMC10746228 DOI: 10.1128/mbio.00431-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2023] Open
Abstract
Microorganisms are essential drivers of earth's geochemical cycles. However, the significance of elemental redox cycling mediated by microorganisms is often underestimated beyond the most well-studied nutrient cycles. Phosphite, (per)chlorate, and iodate are each considered esoteric substrates metabolized by microorganisms. However, recent investigations have indicated that these metabolisms are widespread and ubiquitous, affirming a need to continue studying the underlying microbiology to understand their biogeochemical effects and their interface with each other and our biosphere. This review focuses on combining canonical techniques of culturing microorganisms with modern omic approaches to further our understanding of obscure metabolic pathways and elucidate their importance in global biogeochemical cycles. Using these approaches, marker genes of interest have already been identified for phosphite, (per)chlorate, and iodate using traditional microbial physiology and genetics. Subsequently, their presence was queried to reveal the distribution of metabolic pathways in the environment using publicly available databases. In conjunction with each other, computational and experimental techniques provide a more comprehensive understanding of the location of these microorganisms, their underlying biochemistry and genetics, and how they tie into our planet's geochemical cycles.
Collapse
Affiliation(s)
- Victor Reyes-Umana
- Department of Plant and Microbial Biology, University of California, Berkeley, California, USA
| | - Sophia D. Ewens
- Department of Plant and Microbial Biology, University of California, Berkeley, California, USA
| | - David A. O. Meier
- Department of Plant and Microbial Biology, University of California, Berkeley, California, USA
| | - John D. Coates
- Department of Plant and Microbial Biology, University of California, Berkeley, California, USA
| |
Collapse
|
4
|
Ren Z, Jiang W, Sun N, Shi J, Zhang D, Zhang J, Wang Z, Yang J, Yu J, Lv Z. Responses of the structure and function of microbes in Yellow River Estuary sediments to different levels of mercury. MARINE ENVIRONMENTAL RESEARCH 2023; 190:106097. [PMID: 37441819 DOI: 10.1016/j.marenvres.2023.106097] [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: 05/04/2023] [Revised: 06/28/2023] [Accepted: 07/07/2023] [Indexed: 07/15/2023]
Abstract
The health and stability of the estuary of the Yellow River ecosystem have come under increasing pressure from land-based inputs of heavy metals. While it is known that heavy metals affect the function and health of the microbial community, there remains little knowledge on the responses of the microbial community to heavy metals, particularly highly toxic mercury. The research aimed to characterize the responses of the sediment microbial community of the estuary of the Yellow River to different levels of mercury stress. Estuary sediment samples were collected for microbial community analysis, measurement of mercury [including total mercury (THg) and methylmercury (MeHg)], and measurement of other physicochemical factors, including pH, total organic carbon (TOC), sulfide, iron ratio (Fe3+/Fe2+), ammonium salt (NH4+), and biochemical oxygen demand (BOD). The application of 16S rRNA sequencing identified 60 phyla of bacteria, dominated by Proteobacteria, Firmicutes, and Bacteroidetes. Stations with higher THg or MeHg and lower microbial abundance and diversity were generally distributed further outside of the estuary. Besides mercury, the measured physicochemical factors had impacts on microbial diversities and distribution. Metagenomics assessment of three stations, representative of low, moderate, and high mercury concentrations and measured physicochemical factors, revealed the abundances and functions of predicted genes. The most abundant genes regulating the metabolic pathways were categorized as metabolic, environmental information processing, and genetic information processing, genes. At stations with high levels of mercury, the dominant genes were related to energy metabolism, signal transport, and membrane transport. Functional genes with a mercury-resistance function were generally in the mer system (merA, merC, merT, merR), alkylmercury lyase, and metal-transporting ATPase. These results offer insight into the microbial community structure of the sediments in the Yellow River Estuary and the microbial function of mercury resistance under mercury stress.
Collapse
Affiliation(s)
- Zhonghua Ren
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China.
| | - Wenliang Jiang
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China
| | - Na Sun
- MabPlex International Co. Ltd (Worldwide), Yantai, 265500, China
| | - Junfeng Shi
- Clinical Research Center, Affiliated Hospital of Weifang Medical University, Weifang, 261042, China
| | - Depu Zhang
- Institute of Marine Science, Shanghai Ocean University, Shanghai, 201306, China
| | - Jingjing Zhang
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China
| | - Zhikang Wang
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China
| | - Jisong Yang
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China
| | - Junbao Yu
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China
| | - Zhenbo Lv
- Institute for Advanced Study of Coastal Ecology, Lu Dong University, Yantai, 264025, China.
| |
Collapse
|
5
|
Xu F, Zhu L, Wang J, Xue Y, Liu K, Zhang F, Zhang T. Nonpoint Source Pollution (NPSP) Induces Structural and Functional Variation in the Fungal Community of Sediments in the Jialing River, China. MICROBIAL ECOLOGY 2023; 85:1308-1322. [PMID: 35419656 DOI: 10.1007/s00248-022-02009-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Accepted: 04/05/2022] [Indexed: 05/10/2023]
Abstract
Nonpoint source pollution (NPSP) from human production and life activities causes severe destruction in river basin environments. In this study, three types of sediment samples (A, NPSP tributary samples; B, non-NPSP mainstream samples; C, NPSP mainstream samples) were collected at the estuary of the NPSP tributaries of the Jialing River. High-throughput sequencing of the fungal-specific internal transcribed spacer (ITS) gene region was used to identify fungal taxa. The impact of NPSP on the aquatic environment of the Jialing River was revealed by analysing the community structure, community diversity, and functions of sediment fungi. The results showed that the dominant phylum of sediment fungi was Rozellomycota, followed by Ascomycota and Basidiomycota (relative abundance > 5%). NPSP caused a significant increase in the relative abundances of Exosporium, Phialosimplex, Candida, Inocybe, Tausonia, and Slooffia, and caused a significant decrease in the relative abundances of Cercospora, Cladosporium, Dokmaia, Setophaeosphaeria, Paraphoma, Neosetophoma, Periconia, Plectosphaerella, Claviceps, Botrytis, and Papiliotrema. These fungal communities therefore have a certain indicator role. In addition, NPSP caused significant changes in the physicochemical properties of Jialing River sediments, such as pH and available nitrogen (AN), which significantly increased the species richness of fungi and caused significant changes in the fungal community β-diversity (P < 0.05). pH, total phosphorus (TP), and AN were the main environmental factors affecting fungal communities in sediments of Jialing River. The functions of sediment fungi mainly involved three types of nutrient metabolism (symbiotrophic, pathotrophic, and saprotrophic) and 75 metabolic circulation pathways. NPSP significantly improved the pentose phosphate pathway, pentose phosphate pathway, and fatty acid beta-oxidation V metabolic circulation pathway functions (P < 0.05) and inhibited the chitin degradation to ethanol, super pathway of heme biosynthesis from glycine, and adenine and adenosine salvage III metabolic circulation pathway functions (P < 0.05). Hence, NPSP causes changes in the community structure and functions of sediment fungi in Jialing River and has adversely affected for the stability of the Jialing River Basin ecosystem.
Collapse
Affiliation(s)
- Fei Xu
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
- Institute of Nature and Ecology, Heilongjiang Academy of Sciences, Harbin, 150040, China
| | - Lanping Zhu
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
| | - Jiaying Wang
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
| | - Yuqin Xue
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
| | - Kunhe Liu
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
| | - Fubin Zhang
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China
| | - Tuo Zhang
- College of Environmental Science and Engineering, China West Normal University, Nanchong, 637002, China.
- Institute of Agricultural Environment and Sustainable Development, Chinese Academy of Agriculture Sciences, Beijing, 100081, China.
- College of Environment Science and Engineering, China West Normal University, Nanchong, 637009, Sichuan, China.
| |
Collapse
|
6
|
Wang D, Xu S, Zhou S, Wang S, Jiang C, Sun B, Wang X, Yang D, Zuo J, Wang H, Zhuang X. Partial nitrification in free nitrous acid-treated sediment planting Myriophyllum aquaticum constructed wetland strengthens the treatment of black-odor water. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 845:157287. [PMID: 35835191 DOI: 10.1016/j.scitotenv.2022.157287] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2022] [Revised: 07/06/2022] [Accepted: 07/07/2022] [Indexed: 06/15/2023]
Abstract
Black-odor water pollution in rural areas, especially swine wastewater, can lead to the deterioration of water quality and thus seriously affect the daily life of people in the area. However, there is a lack of effective treatment measures with simultaneous attention to carbon, nitrogen and sulfur pollution in rural black-odor water bodies. This study evaluated the feasibility of an in-situ pilot-scale constructed wetland (CW) for the synchronous removal of COD, ammonium, and sulfur compounds in the swine wastewater. In this study, the operation strategy of CW sediment pretreated with free nitrous acid (FNA) and Myriophyllum aquaticum plantation was established. Throughout the 114-day operation, the total removal efficiencies of COD and ammonium nitrogen in experimental groups were 81.2 ± 4.2 % and 72.8 ± 1.8 %, respectively, which were significantly higher than CW without any treatment. Removal efficiencies of Sulfur compounds, i.e. sulfide, sulfate, thiosulfate, and sulfite, were 92.3 ± 1.9 % (61.2 % higher than the no-treatment group), 42.1 ± 3.8 %, 97.9 ± 1.7 %, and 42.7 ± 4.5 % respectively. High-throughput sequencing and qPCR revealed that experimental group significantly increased denitrification genes (nirK, nosZ) and sulfur oxidation genes (soxB, fccAB) and enriched the corresponding microbial taxa (Bacillus, Conexibacter and Clostridium sensu stricto). Moreover, metabolic pathways related to nitrogen and sulfur and the degradation of organic matter were up-regulated. These results indicated that partial nitrification in CW planted with M. aquaticum promoted sulfur oxidation denitrification and heterotrophic denitrification. Overall, the in-situ pilot-scale study revealed that the cultivation of M. aquaticum in FNA-treated CW can be a sustainable approach to treat black-odor water bodies.
Collapse
Affiliation(s)
- Danhua Wang
- School of Life Sciences, Division of Life Sciences and Medicine, University of Science and Technology of China, Hefei, Anhui 230027, China; Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Shengjun Xu
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Sining Zhou
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Shuseng Wang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Cancan Jiang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Bo Sun
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xu Wang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Dongmin Yang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Jialiang Zuo
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Huacai Wang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Xuliang Zhuang
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100085, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| |
Collapse
|
7
|
Leaf-Associated Epiphytic Fungi of Gingko biloba, Pinus bungeana and Sabina chinensis Exhibit Delicate Seasonal Variations. J Fungi (Basel) 2022; 8:jof8060631. [PMID: 35736114 PMCID: PMC9225447 DOI: 10.3390/jof8060631] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2022] [Revised: 06/06/2022] [Accepted: 06/10/2022] [Indexed: 02/04/2023] Open
Abstract
Plant-leaf surface on Earth harbors complex microbial communities that influence plant productivity and health. To gain a detailed understanding of the assembly and key drivers of leaf microbial communities, especially for leaf-associated fungi, we investigated leaf-associated fungal communities in two seasons for three plant species at two sites by high-throughput sequencing. The results reveal a strong impact of growing season and plant species on fungal community composition, exhibiting clear temporal patterns in abundance and diversity. For the deciduous tree Gingko biloba, the number of enriched genera in May was much higher than that in October. The number of enriched genera in the two evergreen trees Pinus bungeana and Sabina chinensis was slightly higher in October than in May. Among the genus-level biomarkers, the abundances of Alternaria, Cladosporium and Filobasidium were significantly higher in October than in May in the three tree species. Additionally, network correlations between the leaf-associated fungi of G. biloba were more complex in May than those in October, containing extra negative associations, which was more obvious than the network correlation changes of leaf-associated fungi of the two evergreen plant species. Overall, the fungal diversity and community composition varied significantly between different growing seasons and host plant species.
Collapse
|
8
|
Li L, Peng C, Yang Z, He Y, Liang M, Cao H, Qiu Q, Song J, Su Y, Gong B. Microbial communities in swamps of four mangrove reserves driven by interactions between physicochemical properties and microbe in the North Beibu Gulf, China. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2022; 29:37582-37597. [PMID: 35066825 DOI: 10.1007/s11356-021-18134-6] [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: 09/15/2021] [Accepted: 12/11/2021] [Indexed: 06/14/2023]
Abstract
Mangroves are distributed in coastal and estuarine regions and are characterized as a sink for terrestrial pollution. It is believed that complex interactions between environmental factors and microbial communities exist in mangrove swamps. However, little is known about environment-microbe interactions. There is a need to clarify some important environmental factors shaping microbial communities and how environmental factors interact with microbial assemblages in mangrove swamps. In the present study, physicochemical and microbial characteristics in four mangrove reserves (named ZZW, Qin, Bei, and GQ) in the North Beibu Gulf were determined. The interactions between environmental factors and microbial assemblages were analyzed with statistical methods in addition to CCA and RDA. Higher concentrations of sulfate (SO42--S) and Fe but lower concentrations of total phosphorus (TP) and NO3--N were detected in ZZW and Qin. Nutrient elements (NO3--N, NH4+-N, organic matter (OM), SO42--S, Fe, and TP) were more important than heavy metals for determining the microbial assemblages, and NO3--N was the most important factor. NO3--N, SO42--S, TP, and Fe formed a significant co-occurrence network in conjunction with some bacterial taxa, most of which were Proteobacteria. Notably, comparatively elevated amounts of sulfate-reducing bacteria (Desulfatibacillum, Desulfomonile, and Desulfatiglans) and sulfur-oxidizing bacteria (Thioprofundum and Thiohalophilus) were found in ZZW and Qin. The co-occurrence network suggested that some bacteria involved in sulfate reduction and sulfur oxidation drive the transformation of P and N, resulting in the reduction of P and N in mangrove swamps. Through the additional utilization of multivariate regression tree (MRT) and co-occurrence network analysis, our research provides a new perspective for understanding the interactions between environmental factors and microbial communities in mangroves.
Collapse
Affiliation(s)
- Lu Li
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Chunyan Peng
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Zicong Yang
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Yu He
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Meng Liang
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Hongmin Cao
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Qinghua Qiu
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China
| | - Jingjing Song
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China.
| | - Youlu Su
- Innovative Institute of Animal Healthy Breeding, Zhongkai University of Agriculture and Engineering, Guangzhou, 510225, China.
| | - Bin Gong
- The Guangxi Key Laboratory of Beibu Gulf Marine Biodiversity Conservation, College of Marine Sciences, Beibu Gulf University, Qinzhou, 535011, China.
| |
Collapse
|
9
|
Xu T, Tao Y, Song L, Wang H, Ren B. A unique microbiome in a highly polluted and alkalic lake in a seasonally frozen area. ENVIRONMENTAL RESEARCH 2022; 204:112056. [PMID: 34534523 DOI: 10.1016/j.envres.2021.112056] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/01/2021] [Revised: 09/07/2021] [Accepted: 09/10/2021] [Indexed: 06/13/2023]
Abstract
Highly polluted waters profoundly promoted microbial activities and vice versa. Although microbial community structures and bioprocesses in polluted environments have been fully investigated, they are rarely uncovered in abandoned and highly polluted aquatic environment, especially in a seasonally frozen area. East Lake had been polluted by surrounding paper mills and dairy plants from the 1960s to the early 2000s. Under low biodegradability (BOD5/COD ratio<0.2) and alkalic (pH > 9) conditions, a unique microbiome was discovered in East lake. Proteobacteria was the largest taxonomic group in the microbial community, covering almost half of the top-100 genera. Among them, seven genera are sulfate-reducing bacteria, including Desulfuromusa, Desulfuromonas, Desulfobulbus, Desulfocapsa, Desulfurivibrio, Desulfatiglans, and Desulfomicrobium. Functional analysis revealed abundant predicted functional genes for the respiration of sulfur compounds and sulfate respiration. Great vertical variations were found to both microbial community structures and predicted functions. This work provides unique evidence for future microbiome studies of nutrient-rich, alkalic, and seasonally frozen water habitats.
Collapse
Affiliation(s)
- Tiefu Xu
- School of Civil Engineering, Heilongjiang University, Harbin, 150080, China; Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, 100085, China
| | - Yu Tao
- School of Civil and Environmental Engineering, Harbin Institute of Technology (Shenzhen), Shenzhen, 518055, China
| | - Lan Song
- School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Haoyu Wang
- School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China.
| | - Binqiao Ren
- State Key Laboratory of Urban Water Resource and Environment, Harbin Institute of Technology, Harbin, 150090, China; Institute of Advanced Technology, Heilongjiang Academy of Sciences, Harbin, 150028, China.
| |
Collapse
|
10
|
Zhang H, Li S, Zheng X, Zhang J, Bai N, Zhang H, Lv W. Effects of Biogas Slurry Combined With Chemical Fertilizer on Soil Bacterial and Fungal Community Composition in a Paddy Field. Front Microbiol 2021; 12:655515. [PMID: 34526972 PMCID: PMC8435896 DOI: 10.3389/fmicb.2021.655515] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Accepted: 07/26/2021] [Indexed: 11/13/2022] Open
Abstract
The application of biogas slurry and chemical fertilizer in paddy fields can be a practical method to reduce the environmental risk and utilize the nutrients of biogas slurry. The responses of bacterial and fungal communities to the application of biogas slurry and chemical fertilizer are important reflections of the quality of the ecological environment. In this study, based on a 3-year field experiment with different ratios of biogas slurry and chemical fertilizer (applying the same pure nitrogen amount), the Illumina MiSeq platform was used to investigate the bacterial and fungal community diversity and composition in paddy soil. Our results revealed that compared with the observations under regular chemical fertilization, on the basis of stable paddy yield, the application of biogas slurry combined with chemical fertilizer significantly enhanced the soil nutrient availability and bacterial community diversity and reduced the fungal community diversity. Dissolved organic carbon (DOC), DOC/SOC (soil organic carbon), available nitrogen (AN) and available phosphorus (AP) were positively correlated with the bacterial community diversity, but no soil property was significantly associated with the fungal community. The bacterial community was primarily driven by the application of biogas slurry combined with chemical fertilizer (40.78%), while the fungal community was almost equally affected by the addition of pure biogas slurry, chemical fertilizer and biogas slurry combined with chemical fertilizer (25.65–28.72%). Biogas slurry combined with chemical fertilizer significantly enriched Proteobacteria, Acidobacteria, Planctomycetes, Rokubacteria, and Ascomycota and depleted Chloroflexi, Bacteroidetes, Crenarchaeota, Basidiomycota, and Glomeromycota. The observation of the alteration of some bacteria- and fungus-specific taxa provides insights for the proper application of biogas slurry combined with chemical fertilizer, which has the potential to promote crop growth and inhibit pathogens.
Collapse
Affiliation(s)
- Hanlin Zhang
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Agricultural Environment and Farmland Conservation Experiment Station of Ministry Agriculture, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Shuangxi Li
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Xianqing Zheng
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Juanqin Zhang
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Naling Bai
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Haiyun Zhang
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| | - Weiguang Lv
- Eco-environmental Protection Research Institute, Shanghai Academy of Agricultural Sciences, Shanghai, China.,Agricultural Environment and Farmland Conservation Experiment Station of Ministry Agriculture, Shanghai, China.,Shanghai Key Laboratory of Horticultural Technology, Shanghai, China
| |
Collapse
|
11
|
Wu B, Liu F, Fang W, Yang T, Chen GH, He Z, Wang S. Microbial sulfur metabolism and environmental implications. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 778:146085. [PMID: 33714092 DOI: 10.1016/j.scitotenv.2021.146085] [Citation(s) in RCA: 59] [Impact Index Per Article: 19.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/19/2021] [Revised: 02/19/2021] [Accepted: 02/20/2021] [Indexed: 06/12/2023]
Abstract
Sulfur as a macroelement plays an important role in biochemistry in both natural environments and engineering biosystems, which can be further linked to other important element cycles, e.g. carbon, nitrogen and iron. Consequently, the sulfur cycling primarily mediated by sulfur compounds oxidizing microorganisms and sulfur compounds reducing microorganisms has enormous environmental implications, particularly in wastewater treatment and pollution bioremediation. In this review, to connect the knowledge in microbial sulfur metabolism to environmental applications, we first comprehensively review recent advances in understanding microbial sulfur metabolisms at molecular-, cellular- and ecosystem-levels, together with their energetics. We then discuss the environmental implications to fight against soil and water pollution, with four foci: (1) acid mine drainage, (2) water blackening and odorization in urban rivers, (3) SANI® and DS-EBPR processes for sewage treatment, and (4) bioremediation of persistent organic pollutants. In addition, major challenges and further developments toward elucidation of microbial sulfur metabolisms and their environmental applications are identified and discussed.
Collapse
Affiliation(s)
- Bo Wu
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou 510006, China
| | - Feifei Liu
- Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Institute of Microbiology, Guangdong Academy of Sciences, State Key Laboratory of Applied Microbiology Southern China, Guangzhou 510070, China
| | - Wenwen Fang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou 510006, China
| | - Tony Yang
- Swift Current Research and Development Centre, Agriculture and Agri-Food Canada, Swift Current, SK S9H 3X2, Canada
| | - Guang-Hao Chen
- Department of Civil & Environmental Engineering, The Hong Kong University of Science and Technology, Hong Kong, China
| | - Zhili He
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou 510006, China
| | - Shanquan Wang
- Environmental Microbiomics Research Center, School of Environmental Science and Engineering, Guangdong Provincial Key Laboratory of Environmental Pollution Control and Remediation Technology, Southern Marine Science and Engineering Guangdong Laboratory (Zhuhai), Sun Yat-Sen University, Guangzhou 510006, China.
| |
Collapse
|
12
|
Bao L, Gu L, Sun B, Cai W, Zhang S, Zhuang G, Bai Z, Zhuang X. Seasonal variation of epiphytic bacteria in the phyllosphere of Gingko biloba, Pinus bungeana and Sabina chinensis. FEMS Microbiol Ecol 2020; 96:5719566. [PMID: 32005997 DOI: 10.1093/femsec/fiaa017] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/29/2019] [Accepted: 01/29/2020] [Indexed: 11/12/2022] Open
Abstract
Phyllosphere harbors diverse microorganisms, which influence plant growth and health. In order to understand the extent to which environmental factors affect epiphytic microbial communities, we characterized microbial communities on leaves of three separate tree species present on the college campus, and also present within a forest park over two seasons. Quantitative PCR analysis showed the quantity of 16S rRNA genes was lower in May compared with October, while the abundances of functional genes (nifH and bacterial amoA genes) were extremely high in May. High-throughput sequencing revealed a large variation in the diversity and composition of bacterial and diazotrophic communities over the two seasons, and showed the abundance of functional genera, such as Nocardioides, Bacillus and Zoogloea were significantly elevated in May. In addition, xenobiotic biodegradation pathways of bacterial communities were clearly elevated in May. Network analysis showed the correlations between phyllospheric bacteria in May were more complex than that in October and showed greater negative correlations. These results were consistent in all tree species in this study. This study showed that phyllospheric bacteria varied greatly in different seasons, which implies that different growing seasons should be considered in the exploitation of the interactions between phyllospheric microorganisms and host plants.
Collapse
Affiliation(s)
- Lijun Bao
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Likun Gu
- College of Resources and Environment, Henan University of Engineering, Zhengzhou 451191, China
| | - Bo Sun
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Wenyang Cai
- College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing 100083, China
| | - Shiwei Zhang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China
| | - Guoqiang Zhuang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Zhihui Bai
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Xuliang Zhuang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environment Sciences, Chinese Academy of Sciences, Beijing 100085, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| |
Collapse
|
13
|
Bao L, Cai W, Cao J, Zhang X, Liu J, Chen H, Wei Y, Zhuang X, Zhuang G, Bai Z. Microbial community overlap between the phyllosphere and rhizosphere of three plants from Yongxing Island, South China Sea. Microbiologyopen 2020; 9:e1048. [PMID: 32315123 PMCID: PMC7349147 DOI: 10.1002/mbo3.1048] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2020] [Revised: 03/24/2020] [Accepted: 03/30/2020] [Indexed: 12/19/2022] Open
Abstract
Phyllosphere and rhizosphere are unique and wide‐ranging habitats that harbor various microbial communities, which influence plant growth and health, and the productivity of the ecosystems. In this study, we characterized the shared microbiome of the phyllosphere and rhizosphere among three plants (Ipomoea pes‐caprae, Wedelia chinensis, and Cocos nucifera), to obtain an insight into the relationships between bacteria (including diazotrophic bacteria) and fungi, present on these host plants. Quantitative PCR showed that the abundances of the microbiome in the soil samples were significantly higher than those in the phyllosphere samples, though there was an extremely low abundance of fungi in bulk soil. High‐throughput sequencing showed that the alpha‐diversity of bacteria and fungi was higher in the rhizosphere than the phyllosphere samples associated with the same plant, while there was no obvious shift in the alpha‐diversity of diazotrophic communities between all the tested phyllosphere and soil samples. Results of the microbial composition showed that sample‐specific bacteria and fungi were found among the phyllosphere and rhizosphere of the different host plants. About 10%–27% of bacteria, including diazotrophs, and fungi overlapped between the phyllosphere and the rhizosphere of these host plants. No significant difference in microbial community structure was found among the tested rhizosphere samples, and soil properties had a higher influence on the soil microbial community structures than the host plant species.
Collapse
Affiliation(s)
- Lijun Bao
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Wenyang Cai
- College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China
| | - Jianxi Cao
- Tangshan Ecology and Environment Bureau Fengrun Branch, Tangshan, China
| | - Xiaofen Zhang
- Institute of Naval Engineering Design, Naval Research Academy, Beijing, China
| | - Jinhong Liu
- Institute of Naval Engineering Design, Naval Research Academy, Beijing, China
| | - Hao Chen
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Yuansong Wei
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Xuliang Zhuang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Guoqiang Zhuang
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| | - Zhihui Bai
- Key Laboratory of Environmental Biotechnology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, China
| |
Collapse
|
14
|
Liu J, Zheng G. Emission of volatile organic compounds from a small-scale municipal solid waste transfer station: Ozone-formation potential and health risk assessment. WASTE MANAGEMENT (NEW YORK, N.Y.) 2020; 106:193-202. [PMID: 32234654 DOI: 10.1016/j.wasman.2020.03.031] [Citation(s) in RCA: 23] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/10/2019] [Revised: 03/01/2020] [Accepted: 03/23/2020] [Indexed: 06/11/2023]
Abstract
Volatile organic compounds (VOCs) are the main precursors of tropospheric ozone and secondary aerosol generation, posing a threat to human health and affecting the environmental climate. A large quantity of VOCs can be produced in the initial decomposition stage of municipal solid waste (MSW). In this study, the atmosphere in an MSW transfer station was monitored for one year. The emission characteristics of VOCs in different seasons and working hours were analyzed, and the ozone-formation potential of VOCs was calculated through the maximum incremental reaction method, and health risks posed by the VOCs in the MSW transfer station were assessed. The results showed that the highest concentration of VOCs appeared in spring and summer, accounting for 70.6% and 26.6% of total VOCs (TVOCs) in peak working periods, respectively. Oxygenated compounds and terpenes contributed most to ozone formation, accounting for 41.0% and 50.6% of total ozone formation, respectively. The carcinogenic risks were above the safe threshold, labeled "probable risks". Tetrachloroethylene and 1,2-dichloroethane were the main contributors to carcinogenic risks. The mean non-carcinogenic risks were within the safe threshold in the MSW transfer station. From the perspective of protecting human health and ecological environmental safety, VOC control needs to be further strengthened in the transfer station.
Collapse
Affiliation(s)
- Junwan Liu
- Center for Environmental Remediation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China
| | - Guodi Zheng
- Center for Environmental Remediation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing 100049, China.
| |
Collapse
|