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Huang R, Zhang P, Zhang X, Chen S, Sun J, Jiang X, Zhang D, Li H, Yi X, Qu L, Wang T, Gao K, Hall-Spencer JM, Adams J, Gao G, Lin X. Ocean acidification alters microeukaryotic and bacterial food web interactions in a eutrophic subtropical mesocosm. ENVIRONMENTAL RESEARCH 2024; 257:119084. [PMID: 38823617 DOI: 10.1016/j.envres.2024.119084] [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: 10/26/2023] [Revised: 05/03/2024] [Accepted: 05/04/2024] [Indexed: 06/03/2024]
Abstract
Ocean acidification (OA) is known to influence biological and ecological processes, mainly focusing on its impacts on single species, but little has been documented on how OA may alter plankton community interactions. Here, we conducted a mesocosm experiment with ambient (∼410 ppmv) and high (1000 ppmv) CO2 concentrations in a subtropical eutrophic region of the East China Sea and examined the community dynamics of microeukaryotes, bacterioplankton and microeukaryote-attached bacteria in the enclosed coastal seawater. The OA treatment with elevated CO2 affected taxa as the phytoplankton bloom stages progressed, with a 72.89% decrease in relative abundance of the protist Cercozoa on day 10 and a 322% increase in relative abundance of Stramenopile dominated by diatoms, accompanied by a 29.54% decrease in relative abundance of attached Alphaproteobacteria on day 28. Our study revealed that protozoans with different prey preferences had differing sensitivity to high CO2, and attached bacteria were more significantly affected by high CO2 compared to bacterioplankton. Our findings indicate that high CO2 changed the co-occurrence network complexity and stability of microeukaryotes more than those of bacteria. Furthermore, high CO2 was found to alter the proportions of potential interactions between phytoplankton and their predators, as well as microeukaryotes and their attached bacteria in the networks. The changes in the relative abundances and interactions of microeukaryotes between their predators in response to high CO2 revealed in our study suggest that high CO2 may have profound impacts on marine food webs.
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Affiliation(s)
- Ruiping Huang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China; State Key Laboratory of Marine Resources Utilization in South China Sea, School of Marine Biology and Fisheries, Hainan University, Haikou, China
| | - Ping Zhang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China; Xiamen City Key Laboratory of Urban Sea Ecological Conservation and Restoration, Xiamen, China
| | - Xu Zhang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China; Xiamen City Key Laboratory of Urban Sea Ecological Conservation and Restoration, Xiamen, China
| | - Shouchang Chen
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Jiazhen Sun
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Xiaowen Jiang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Di Zhang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - He Li
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Xiangqi Yi
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Liming Qu
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Tifeng Wang
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Kunshan Gao
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Jason M Hall-Spencer
- Shimoda Marine Research Center, University of Tsukuba, 5-10-1 Shimoda, Shizuoka 415-0025, Japan; School of Geography and Oceanography, Nanjing University, Nanjing, China
| | - Jonathan Adams
- School of Geography and Oceanography, Nanjing University, Nanjing, China
| | - Guang Gao
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China
| | - Xin Lin
- State Key Laboratory of Marine Environmental Science, College of Ocean and Earth Sciences, Xiamen University, Xiamen, China; Xiamen City Key Laboratory of Urban Sea Ecological Conservation and Restoration, Xiamen, China.
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2
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Chen M, Zhou S, Xiang P, Wang Y, Luo X, Zhang X, Wen D. Elevated CO 2 and nitrogen addition enhance the symbiosis and functions of rhizosphere microorganisms under cadmium exposure. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2024; 351:120012. [PMID: 38171127 DOI: 10.1016/j.jenvman.2023.120012] [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: 10/06/2023] [Revised: 12/30/2023] [Accepted: 12/30/2023] [Indexed: 01/05/2024]
Abstract
Soil microbes are fundamental to ecosystem health and productivity. How soil microbial communities are influenced by elevated atmospheric carbon dioxide (eCO2) concentration and nitrogen (N) deposition under heavy metal pollution remains uncertain, despite global exposure of terrestrial ecosystems to eCO2, high N deposition and heavy metal stress. Here, we conducted a four year's open-top chamber experiment to assess the effects of soil cadmium (Cd) treatment (10 kg hm-2 year-1) alone and combined treatments of Cd with eCO2 concentration (700 ppm) and/or N addition (100 kg hm-2 year-1) on tree growth and rhizosphere microbial community. Relative to Cd treatment alone, eCO2 concentration in Cd contaminated soil increased the complexity of microbial networks, including the number links, average degree and positive/negative ratios. The combined effect of eCO2 and N addition in Cd contaminated soil not only increased the complexity of microbial networks, but also enhanced the abundance of microbial urealysis related UreC and nitrifying related amoA1 and amoA2, and the richness of arbuscular mycorrhiza fungi (AMF), thereby improving the symbiotic functions between microorganisms and plants. Results from correlation analysis and structural equation model (SEM) further demonstrated that eCO2 concentration and N addition acted on functions and networks differently. Elevated CO2 positively regulated microbial networks and functions through phosphorus (P) and Cd concentration in roots, while N addition affected microbial functions through soil available N and soil organic carbon (SOC) concentration and microbial network through soil Cd concentration. Overall, our findings highlight that eCO2 concentration and N addition make microbial communities towards ecosystem health that may mitigate Cd stress, and provide new insights into the microbiology supporting phytoremediation for Cd contaminated sites in current and future global change scenarios.
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Affiliation(s)
- Minghao Chen
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Shuyidan Zhou
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China
| | - Ping Xiang
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Yutao Wang
- Key Laboratory of Ecology and Environmental Science in Guangdong Higher Education and Guangdong Provincial Key Laboratory of Biotechnology for Plant Development, School of Life Sciences, South China Normal University, Guangzhou, 510631, China
| | - Xianzhen Luo
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China
| | - Xiaofeng Zhang
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Dazhi Wen
- Key Laboratory of Vegetation Restoration and Management of Degraded Ecosystems, South China Botanical Garden, Chinese Academy of Science, Guangzhou, 510650, China; College of Life Sciences, Gannan Normal University, Ganzhou, Jiangxi, 341000, China; College of Resources and Environment, University of Chinese Academy of Sciences, Beijing, 100049, China.
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3
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Qin Y, Wu L, Zhang Q, Wen C, Van Nostrand JD, Ning D, Raskin L, Pinto A, Zhou J. Effects of error, chimera, bias, and GC content on the accuracy of amplicon sequencing. mSystems 2023; 8:e0102523. [PMID: 38038441 PMCID: PMC10734440 DOI: 10.1128/msystems.01025-23] [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] [Received: 10/11/2023] [Accepted: 10/17/2023] [Indexed: 12/02/2023] Open
Abstract
IMPORTANCE Amplicon sequencing of targeted genes is the predominant approach to estimate the membership and structure of microbial communities. However, accurate reconstruction of community composition is difficult due to sequencing errors, and other methodological biases and effective approaches to overcome these challenges are essential. Using a mock community of 33 phylogenetically diverse strains, this study evaluated the effect of GC content on sequencing results and tested different approaches to improve overall sequencing accuracy while characterizing the pros and cons of popular amplicon sequence data processing approaches. The sequencing results from this study can serve as a benchmarking data set for future algorithmic improvements. Furthermore, the new insights on sequencing error, chimera formation, and GC bias from this study will help enhance the quality of amplicon sequencing studies and support the development of new data analysis approaches.
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Affiliation(s)
- Yujia Qin
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
| | - Liyou Wu
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
| | - Qiuting Zhang
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
| | - Chongqin Wen
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
- Fisheries College, Guangdong Ocean University, Zhanjiang, Guangdong, China
| | - Joy D. Van Nostrand
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
| | - Daliang Ning
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
| | - Lutgarde Raskin
- Department of Civil and Environmental Engineering, University of Michigan, Ann Arbor, Michigan, USA
| | - Ameet Pinto
- School of Civil and Environmental Engineering, Georgia Institute of Technology, Atlanta, Georgia, USA
| | - Jizhong Zhou
- Department of Microbiology and Plant Biology, Institute for Environmental Genomics, University of Oklahoma, Norman, Oklahoma, USA
- State Key Joint Laboratory of Environment Simulation and Pollution Control, School of Environment, Tsinghua University, Beijing, China
- Earth Sciences Division, Lawrence Berkeley National Laboratory, Berkeley, California, USA
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, Oklahoma, USA
- School of Computer Science, University of Oklahoma, Norman, Oklahoma, USA
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4
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Gao K, Li W, Gan E, Li J, Jiang L, Liu Y. Impacts of 10 Years of Elevated CO 2 and Warming on Soil Fungal Diversity and Network Complexity in a Chinese Paddy Field. MICROBIAL ECOLOGY 2023; 86:2386-2399. [PMID: 37247028 DOI: 10.1007/s00248-023-02248-0] [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: 03/21/2023] [Accepted: 05/20/2023] [Indexed: 05/30/2023]
Abstract
Climatic change conditions (elevated CO2 and warming) have been known to threaten agricultural sustainability and grain yield. Soil fungi play an important role in maintaining agroecosystem functions. However, little is known about the responses of fungal community in paddy field to elevated CO2 and warming. Herein, using internal transcribed spacer (ITS) gene amplicon sequencing and co-occurrence network methods, the responses of soil fungal community to factorial combinations of elevated CO2 (550 ppm), and canopy warming (+2 °C) were explored in an open-air field experiment for 10 years. Elevated CO2 significantly increased the operational taxonomic unit (OTU) richness and Shannon diversity of fungal communities in both rice rhizosphere and bulk soils, whereas the relative abundances of Ascomycota and Basidiomycota were significantly decreased and increased under elevated CO2, respectively. Co-occurrence network analysis showed that elevated CO2, warming, and their combination increased the network complexity and negative correlation of the fungal community in rhizosphere and bulk soils, suggesting that these factors enhanced the competition of microbial species. Warming resulted in a more complex network structure by altering topological roles and increasing the numbers of key fungal nodes. Principal coordinate analysis indicated that rice growth stages rather than elevated CO2 and warming altered soil fungal communities. Specifically, the changes in diversity and network complexity were greater at the heading and ripening stages than at the tillering stage. Furthermore, elevated CO2 and warming significantly increased the relative abundances of pathotrophic fungi and reduced those of symbiotrophic fungi in both rhizosphere and bulk soils. Overall, the results indicate that long-term CO2 exposure and warming enhance the complexity and stability of soil fungal community, potentially threatening crop health and soil functions through adverse effects on fungal community functions.
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Affiliation(s)
- Ke Gao
- Department of Bioengineering, College of Life Science, Huaibei Normal University, Huaibei, 235000, Anhui, People's Republic of China
| | - Weijie Li
- Department of Bioengineering, College of Life Science, Huaibei Normal University, Huaibei, 235000, Anhui, People's Republic of China
| | - Enze Gan
- Department of Bioengineering, College of Life Science, Huaibei Normal University, Huaibei, 235000, Anhui, People's Republic of China
| | - Jiahui Li
- Department of Bioengineering, College of Life Science, Huaibei Normal University, Huaibei, 235000, Anhui, People's Republic of China
| | - Li Jiang
- State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography, Chinese Academy of Science, Urumqi, 830011, People's Republic of China.
| | - Yuan Liu
- Department of Bioengineering, College of Life Science, Huaibei Normal University, Huaibei, 235000, Anhui, People's Republic of China.
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5
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Gao K, Mao Z, Meng E, Li J, Liu X, Zhang Y, Zhang L, Wang G, Liu Y. Effects of elevated CO 2 and warming on the root-associated microbiota in an agricultural ecosystem. Environ Microbiol 2022; 24:6252-6266. [PMID: 36229422 DOI: 10.1111/1462-2920.16246] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2022] [Accepted: 10/12/2022] [Indexed: 01/12/2023]
Abstract
Plant root-associated microbial communities profoundly affect plant nutrition and productivity. Although elevated atmospheric CO2 and warming affect above- and belowground plant processes, it remains unclear how root-associated microbial communities respond to elevated CO2 and warming. In this study, an open-air field experiment was conducted to assay the interactive effects of elevated CO2 (500 ppm) and warming (+2°C) on the root-associated microbiota and soil enzyme activities in a rice-wheat rotation ecosystem. The results revealed that elevated CO2 significantly increased rhizosphere soil organic carbon (SOC) and total nitrogen contents. In addition, glucosidase, β-xylosidase, and phosphatase activities significantly increased. The richness and Shannon diversity indices were significantly higher in rhizosphere soil than in root endosphere. Elevated CO2 and warming significantly impacted the rhizosphere soil microbiota and altered their composition by changing the relative abundance of some specific groups. Soil pH, SOC, and available potassium content significantly altered the dominant bacterial phyla in the rhizosphere. SOC affected root endophytic bacterial phyla. Bacterial and fungal genera were significantly correlated with soil variables in the rhizosphere than in the root endosphere. These results indicate that microbial communities in the rhizosphere are more sensitive to elevated CO2 and warming than those in the root endosphere.
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Affiliation(s)
- Ke Gao
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Zhenbo Mao
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Enxi Meng
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Jie Li
- Institute of Resources, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Xiaoyu Liu
- Institute of Resources, Ecosystem and Environment of Agriculture, Nanjing Agricultural University, Nanjing, China
| | - Yingying Zhang
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Long Zhang
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Guangli Wang
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
| | - Yuan Liu
- College of Life Science, Huaibei Normal University, Huaibei, Anhui, People's Republic of China
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6
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Baldrian P, Bell-Dereske L, Lepinay C, Větrovský T, Kohout P. Fungal communities in soils under global change. Stud Mycol 2022; 103:1-24. [PMID: 36760734 PMCID: PMC9886077 DOI: 10.3114/sim.2022.103.01] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2022] [Accepted: 09/16/2022] [Indexed: 11/07/2022] Open
Abstract
Soil fungi play indispensable roles in all ecosystems including the recycling of organic matter and interactions with plants, both as symbionts and pathogens. Past observations and experimental manipulations indicate that projected global change effects, including the increase of CO2 concentration, temperature, change of precipitation and nitrogen (N) deposition, affect fungal species and communities in soils. Although the observed effects depend on the size and duration of change and reflect local conditions, increased N deposition seems to have the most profound effect on fungal communities. The plant-mutualistic fungal guilds - ectomycorrhizal fungi and arbuscular mycorrhizal fungi - appear to be especially responsive to global change factors with N deposition and warming seemingly having the strongest adverse effects. While global change effects on fungal biodiversity seem to be limited, multiple studies demonstrate increases in abundance and dispersal of plant pathogenic fungi. Additionally, ecosystems weakened by global change-induced phenomena, such as drought, are more vulnerable to pathogen outbreaks. The shift from mutualistic fungi to plant pathogens is likely the largest potential threat for the future functioning of natural and managed ecosystems. However, our ability to predict global change effects on fungi is still insufficient and requires further experimental work and long-term observations. Citation: Baldrian P, Bell-Dereske L, Lepinay C, Větrovský T, Kohout P (2022). Fungal communities in soils under global change. Studies in Mycology 103: 1-24. doi: 10.3114/sim.2022.103.01.
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Affiliation(s)
- P. Baldrian
- Laboratory of Environmental Microbiology, Institute of Microbiology of the Czech Academy of Sciences, Vídeòská 1083, 142 20 Prague, Czech Republic,*Corresponding author: Petr Baldrian,
| | - L. Bell-Dereske
- Laboratory of Environmental Microbiology, Institute of Microbiology of the Czech Academy of Sciences, Vídeòská 1083, 142 20 Prague, Czech Republic
| | - C. Lepinay
- Laboratory of Environmental Microbiology, Institute of Microbiology of the Czech Academy of Sciences, Vídeòská 1083, 142 20 Prague, Czech Republic
| | - T. Větrovský
- Laboratory of Environmental Microbiology, Institute of Microbiology of the Czech Academy of Sciences, Vídeòská 1083, 142 20 Prague, Czech Republic
| | - P. Kohout
- Laboratory of Environmental Microbiology, Institute of Microbiology of the Czech Academy of Sciences, Vídeòská 1083, 142 20 Prague, Czech Republic
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7
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Liu S, Chen D, Wang Z, Zhang M, Zhu M, Yin M, Zhang T, Wang X. Shifts of bacterial community and molecular ecological network in activated sludge system under ibuprofen stress. CHEMOSPHERE 2022; 295:133888. [PMID: 35134395 DOI: 10.1016/j.chemosphere.2022.133888] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/26/2021] [Revised: 02/01/2022] [Accepted: 02/03/2022] [Indexed: 06/14/2023]
Abstract
The major objectives of this study were to explore the long-term effects of ibuprofen (IBP) on nutrient removal, community compositions, and microbial interactions of the activated sludge system. The results showed that 1 mg/L IBP had no inhibitory effects on the removal of organic matters and nutrients. IBP significantly reduced the microbial diversity and changed the bacterial community structure. Some denitrifiers (Denitratisoma and Hyphomicrobium) increased significantly, while NOB (Nitrospira) significantly decreased under IBP stress (P < 0.05). Furthermore, molecular ecological network analysis indicated that IBP reduced the overall network size and links, but led to a closer network with more efficient communication, which might be the strategy of microbes to survive under the stress of IBP and further maintain the performance stability. Different phylogenetic populations had different responses to IBP, as a closer subnetwork with more synergistic relations was observed in Chloroflexi and a looser subnetwork with more competitive relationships was detected in Proteobacteria. The topological roles of nodes significantly changed, and the putative keystone species decreased under the stress of IBP. This study broadens our knowledge of the long-term effects of IBP on the microbial community structure and the interactions between species in the activated sludge system.
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Affiliation(s)
- Shidi Liu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Daying Chen
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China; School of Environmental Science and Engineering, Tianjin University, Tianjin, 300037, China
| | - Zhimin Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Minglu Zhang
- State Environmental Protection Key Laboratory of Food Chain Pollution Control, Beijing Technology and Business University, Beijing, 100048, China
| | - Minghan Zhu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Meilin Yin
- School of Environmental Science and Engineering, Tianjin University, Tianjin, 300037, China
| | - Tingting Zhang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China.
| | - Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China.
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8
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Álvarez Castelló M, Almaguer Chávez M. Climate Change and Allergies. Fungal Biol 2022. [DOI: 10.1007/978-3-030-89664-5_13] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/27/2022]
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9
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Kumar V, Sarma VV, Thambugala KM, Huang JJ, Li XY, Hao GF. Ecology and Evolution of Marine Fungi With Their Adaptation to Climate Change. Front Microbiol 2021; 12:719000. [PMID: 34512597 PMCID: PMC8430337 DOI: 10.3389/fmicb.2021.719000] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2021] [Accepted: 08/10/2021] [Indexed: 01/04/2023] Open
Abstract
Climate change agitates interactions between organisms and the environment and forces them to adapt, migrate, get replaced by others, or extinct. Marine environments are extremely sensitive to climate change that influences their ecological functions and microbial community including fungi. Fungi from marine habitats are engaged and adapted to perform diverse ecological functions in marine environments. Several studies focus on how complex interactions with the surrounding environment affect fungal evolution and their adaptation. However, a review addressing the adaptation of marine fungi to climate change is still lacking. Here we have discussed the adaptations of fungi in the marine environment with an example of Hortaea werneckii and Aspergillus terreus which may help to reduce the risk of climate change impacts on marine environments and organisms. We address the ecology and evolution of marine fungi and the effects of climate change on them to explain the adaptation mechanism. A review of marine fungal adaptations will show widespread effects on evolutionary biology and the mechanism responsible for it.
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Affiliation(s)
- Vinit Kumar
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang, China
| | | | - Kasun M. Thambugala
- Genetics and Molecular Biology Unit, Faculty of Applied Sciences, University of Sri Jayewardenepura, Nugegoda, Sri Lanka
| | - Jun-Jie Huang
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang, China
| | - Xiang-Yang Li
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang, China
| | - Ge-Fei Hao
- State Key Laboratory Breeding Base of Green Pesticide and Agricultural Bioengineering, Key Laboratory of Green Pesticide and Agricultural Bioengineering, Ministry of Education, Center for Research and Development of Fine Chemicals, Guizhou University, Guiyang, China
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10
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Pec GJ, Diepen LTA, Knorr M, Grandy AS, Melillo JM, DeAngelis KM, Blanchard JL, Frey SD. Fungal community response to long‐term soil warming with potential implications for soil carbon dynamics. Ecosphere 2021. [DOI: 10.1002/ecs2.3460] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022] Open
Affiliation(s)
- Gregory J. Pec
- Department of Natural Resources and the Environment University of New Hampshire Durham New Hampshire03824USA
| | - Linda T. A. Diepen
- Department of Ecosystem Science and Management University of Wyoming Laramie Wyoming82071USA
| | - Melissa Knorr
- Department of Natural Resources and the Environment University of New Hampshire Durham New Hampshire03824USA
| | - A. Stuart Grandy
- Department of Natural Resources and the Environment University of New Hampshire Durham New Hampshire03824USA
| | - Jerry M. Melillo
- The Ecosystems Center Marine Biological Laboratory Woods Hole Massachusetts02543USA
| | - Kristen M. DeAngelis
- Department of Microbiology University of Massachusetts Amherst Massachusetts01003USA
| | | | - Serita D. Frey
- Department of Natural Resources and the Environment University of New Hampshire Durham New Hampshire03824USA
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11
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Demain JG, Choi YJ, Oh JW. The Impact of Climate Change on the Pollen Allergy and Sporulation of Allergic Fungi. CURRENT TREATMENT OPTIONS IN ALLERGY 2021. [DOI: 10.1007/s40521-020-00277-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
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12
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Ya T, Du S, Li Z, Liu S, Zhu M, Liu X, Jing Z, Hai R, Wang X. Successional Dynamics of Molecular Ecological Network of Anammox Microbial Communities under Elevated Salinity. WATER RESEARCH 2021; 188:116540. [PMID: 33126006 DOI: 10.1016/j.watres.2020.116540] [Citation(s) in RCA: 61] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/02/2020] [Revised: 10/14/2020] [Accepted: 10/19/2020] [Indexed: 06/11/2023]
Abstract
Response of microbial interactions to environmental perturbations has been a central issue in wastewater treatment system. However, the interactions among anammox microbial community under salt perturbation is still unclear. Here, we used random matrix theory (RMT)-based network analysis to investigate the dynamics of networks under elevated salinity in an anammox system. Results showed that high salinity (20 and 30 g/L NaCl) inhibited anammox performance. Salinity led to closer and more complex networks for the overall network and subnetwork of Planctomycetes and Proteobacteria, especially under low salinity (5 g/L NaCl), which could serve as a strategy to survive under salt perturbation. Planctomycetes, most dominant phylum and playing crucial roles in anammox, possessed higher proportion of competitive relationships (64.3%) under 30 g/L NaCl. OTU 109 (closely related to Ignavibacterium), the only network hub detected in the anammox system, also had larger amount of competitive relationships (27.3%) than the control (0%) under 30 g/L NaCl. Similar result was found for the most abundant keystone bacteria Candidatus Kuenenia. These increasing competitions at different taxa level could be responsible for the deterioration of nitrogen removal. Besides, all the network topological features tended to reach the values of the original network, which showed the network of microbial community could gradually adapt to the elevated salinity. Microbial network analysis adds a different dimension for our understanding of the response in microbial community to elevated salinity.
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Affiliation(s)
- Tao Ya
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Shuai Du
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China; Beijing Guo Dian Fu Tong Science and Technology Development Co., Ltd., Beijing 100070
| | - Zhenyang Li
- Airport New City in Xixian New Area Management Commission of Shaanxi Province, Xi'an, 712034, China
| | - Shidi Liu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Minghan Zhu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Xiaojing Liu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Zibo Jing
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Reti Hai
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China
| | - Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing 100029, China.
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13
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Van Nuland ME, Smith DP, Bhatnagar JM, Stefanski A, Hobbie SE, Reich PB, Peay KG. Warming and disturbance alter soil microbiome diversity and function in a northern forest ecotone. FEMS Microbiol Ecol 2020; 96:5849001. [PMID: 32472932 DOI: 10.1093/femsec/fiaa108] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/13/2020] [Accepted: 05/28/2020] [Indexed: 12/11/2022] Open
Abstract
The response to global change by soil microbes is set to affect important ecosystem processes. These impacts could be most immediate in transitional zones, such as the temperate-boreal forest ecotone, yet previous work in these forests has primarily focused on specific subsets of microbial taxa. Here, we examined how bacterial and fungal communities respond to simulated above- and below-ground warming under realistic field conditions in closed and open canopy treatments in Minnesota, USA. Our results show that warming and canopy disturbance shifted bacterial and fungal community structure as dominant bacterial and fungal groups differed in the direction and intensity of their responses. Ectomycorrhizal and saprotrophic fungal communities with greater connectivity (higher prevalence of strongly interconnected taxa based on pairwise co-occurrence relationships) were more resistant to compositional change. Warming effects on soil enzymes involved in the hydrolytic and oxidative liberation of carbon from plant cell walls and nutrients from organic matter were most strongly linked to fungal community responses, although community structure-function relationships differed between fungal guilds. Collectively, these findings indicate that warming and disturbance will influence the composition and function of microbial communities in the temperate-boreal ecotone, and fungal responses are particularly important to understand for predicting future ecosystem functioning.
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Affiliation(s)
| | - Dylan P Smith
- University of California, California Institute for Quantitative Biosciences, Berkeley, CA 94720 USA
| | | | - Artur Stefanski
- Department of Forest Resources, University of Minnesota, St. Paul, MN 55108 USA
| | - Sarah E Hobbie
- Department of Ecology, Evolution and Behavior, University of Minnesota, St. Paul, MN 55108 USA
| | - Peter B Reich
- Department of Forest Resources, University of Minnesota, St. Paul, MN 55108 USA.,Hawkesbury Institute for the Environment, Western Sydney University, Richmond, 2753, NSW Australia
| | - Kabir G Peay
- Department of Biology, Stanford University, Stanford, CA 94305 USA
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14
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Chen S, Yan M, Huang T, Zhang H, Liu K, Huang X, Li N, Miao Y, Sekar R. Disentangling the drivers of Microcystis decomposition: Metabolic profile and co-occurrence of bacterial community. THE SCIENCE OF THE TOTAL ENVIRONMENT 2020; 739:140062. [PMID: 32544693 DOI: 10.1016/j.scitotenv.2020.140062] [Citation(s) in RCA: 17] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Revised: 06/06/2020] [Accepted: 06/06/2020] [Indexed: 06/11/2023]
Abstract
In aquatic ecosystems, water microbial communities can trigger the outbreak or decline of cyanobacterial blooms. However, the microbiological drivers of Microcystis decomposition in reservoirs remain unclear. Here, we explored the bacterial community metabolic profile and co-occurrence dynamics during Microcystis decomposition. The results showed that the decomposition of Microcystis greatly altered the metabolic characteristics and composition of the water bacterial community. Significant variations in bacterial community composition were observed: the bacterial community was mainly dominated by Proteobacteria, Actinobacteria, Planctomycetes, and Bacteroidetes during Microcystis decomposition. Additionally, members of Exiguobacterium, Rhodobacter, and Stenotrophomonas significantly increased during the terminal stages. Dissolved organic matters (DOM) primarily composed of fulvic-like, humic acid-like, and tryptophan-like components, which varied distinctly during Microcystis decomposition. Additionally, the metabolic activity of the bacterial community showed a continuous decrease during Microcystis decomposition. Functional prediction showed a sharp increase in the cell communication and sensory systems of the bacterial communities from day 12 to day 22. Co-occurrence networks showed that bacteria responded significantly to variations in the dynamics of Microcystis decomposition through close interactions between each other. Redundancy analysis (RDA) indicated that Chlorophyll a, nitrate nitrogen (NO3--N), dissolved oxygen (DO), and dissolved organic carbon (DOC) were crucial drivers for shaping the bacterial community structure. Taken together, these findings highlight the dynamics of the water bacterial community during Microcystis decomposition from the perspective of metabolism and community composition, however, further studies are needed to understand the algal degradation process associated with bacteria.
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Affiliation(s)
- Shengnan Chen
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China.
| | - Miaomiao Yan
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Tinglin Huang
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Hui Zhang
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Kaiwen Liu
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Xin Huang
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Nan Li
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Yutian Miao
- Key Laboratory of Northwest Water Resource, Environment and Ecology, MOE, Xi'an University of Architecture and Technology, Xi'an 710055, China; Shaanxi Key Laboratory of Environmental Engineering, Xi'an University of Architecture and Technology, Xi'an 710055, China
| | - Raju Sekar
- Department of Biological Sciences, Xi'an Jiaotong-Liverpool University, Suzhou, China
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15
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Farrer EC, Porazinska DL, Spasojevic MJ, King AJ, Bueno de Mesquita CP, Sartwell SA, Smith JG, White CT, Schmidt SK, Suding KN. Soil Microbial Networks Shift Across a High-Elevation Successional Gradient. Front Microbiol 2019; 10:2887. [PMID: 31921064 PMCID: PMC6930148 DOI: 10.3389/fmicb.2019.02887] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2019] [Accepted: 11/29/2019] [Indexed: 01/30/2023] Open
Abstract
While it is well established that microbial composition and diversity shift along environmental gradients, how interactions among microbes change is poorly understood. Here, we tested how community structure and species interactions among diverse groups of soil microbes (bacteria, fungi, non-fungal eukaryotes) change across a fundamental ecological gradient, succession. Our study system is a high-elevation alpine ecosystem that exhibits variability in successional stage due to topography and harsh environmental conditions. We used hierarchical Bayesian joint distribution modeling to remove the influence of environmental covariates on species distributions and generated interaction networks using the residual species-to-species variance-covariance matrix. We hypothesized that as ecological succession proceeds, diversity will increase, species composition will change, and soil microbial networks will become more complex. As expected, we found that diversity of most taxonomic groups increased over succession, and species composition changed considerably. Interestingly, and contrary to our hypothesis, interaction networks became less complex over succession (fewer interactions per taxon). Interactions between photosynthetic microbes and any other organism became less frequent over the gradient, whereas interactions between plants or soil microfauna and any other organism were more abundant in late succession. Results demonstrate that patterns in diversity and composition do not necessarily relate to patterns in network complexity and suggest that network analyses provide new insight into the ecology of highly diverse, microscopic communities.
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Affiliation(s)
- Emily C. Farrer
- Department of Ecology and Evolutionary Biology, Tulane University, New Orleans, LA, United States
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
| | - Dorota L. Porazinska
- Department of Entomology and Nematology, University of Florida, Gainesville, FL, United States
| | - Marko J. Spasojevic
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
- Department of Evolution, Ecology, and Organismal Biology, University of California, Riverside, Riverside, CA, United States
| | - Andrew J. King
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, United States
- King Ecological Consulting, Knoxville, TN, United States
| | - Clifton P. Bueno de Mesquita
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, United States
| | - Samuel A. Sartwell
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, United States
| | - Jane G. Smith
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
| | - Caitlin T. White
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, United States
| | - Steven K. Schmidt
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, United States
| | - Katharine N. Suding
- Institute of Arctic and Alpine Research, University of Colorado Boulder, Boulder, CO, United States
- Department of Ecology and Evolutionary Biology, University of Colorado Boulder, Boulder, CO, United States
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16
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Luo Z, Ma J, Chen F, Li X, Hou H, Zhang S. Cracks Reinforce the Interactions among Soil Bacterial Communities in the Coal Mining Area of Loess Plateau, China. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2019; 16:ijerph16244892. [PMID: 31817220 PMCID: PMC6949935 DOI: 10.3390/ijerph16244892] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 09/23/2019] [Revised: 11/28/2019] [Accepted: 12/02/2019] [Indexed: 01/26/2023]
Abstract
Soil microorganisms play a key role in global biogeochemical changes. To understand the interactions among soil bacterial communities and their responses to extreme environments, the soil properties and bacterial community diversity were determined in the post-mining ecosystem of the Loess Plateau, China. The results showed that the soil temperature, pH, organic matter, available phosphorus, and available potassium values were significantly reduced in the post-mining cracks area. However, the richness and uniformity of soil bacterial communities increased by about 50% in the post-mining cracks area. Soil microbial community structure and the network interactions tended to be complex and strengthened in the post-mining cracks area. Moreover, soil nutrient loss caused the differences in soil bacterial community structure compositions in the post-mining cracks area. Furthermore, the relationships between soil physicochemical properties and different modules of the soil bacterial molecular ecological network were changed in a complex manner in the post-mining cracks area. This study provides a theoretical basis for adaptive management and response to cracks in post-mining areas and under other extreme conditions.
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Affiliation(s)
- Zhanbin Luo
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, Xuzhou 221008, China; (Z.L.); (X.L.); (H.H.); (S.Z.)
- College of Resources and Environment, Northwest A&F University, Yangling 712100, China
| | - Jing Ma
- Low Carbon Energy Institute, China University of Mining and Technology, Xuzhou 221008, China;
| | - Fu Chen
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, Xuzhou 221008, China; (Z.L.); (X.L.); (H.H.); (S.Z.)
- Low Carbon Energy Institute, China University of Mining and Technology, Xuzhou 221008, China;
- Correspondence: ; Tel.: +86-5168-388-3501
| | - Xiaoxiao Li
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, Xuzhou 221008, China; (Z.L.); (X.L.); (H.H.); (S.Z.)
| | - Huping Hou
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, Xuzhou 221008, China; (Z.L.); (X.L.); (H.H.); (S.Z.)
| | - Shaoliang Zhang
- School of Environment Science and Spatial Informatics, China University of Mining and Technology, Xuzhou 221008, China; (Z.L.); (X.L.); (H.H.); (S.Z.)
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17
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Wang X, Ya T, Zhang M, Liu L, Hou P, Lu S. Cadmium (II) alters the microbial community structure and molecular ecological network in activated sludge system. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2019; 255:113225. [PMID: 31557558 DOI: 10.1016/j.envpol.2019.113225] [Citation(s) in RCA: 38] [Impact Index Per Article: 7.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/30/2019] [Revised: 09/08/2019] [Accepted: 09/08/2019] [Indexed: 06/10/2023]
Abstract
Cadmium (II) can potentially alter the microbial community structure and molecular ecological network in activated sludge systems. In this study, we used Illumina sequencing combined with an RMT-based network approach to show the response of the microbial community and its network structure to Cd (II) in activated sludge systems. The results demonstrated that 1 mg/L Cd (II) did not have chronic negative effects on chemical oxygen demand (COD) reduction and denitrification processes, but negatively affected the nitrification process and phosphorus removal. In contrast, 10 mg/L Cd (II) adversely affected both COD and nutrient removal, and reduced the microbial diversity and changed the overall microbial community structure. The relative abundances of Nitrosomonadaceae, Nitrospira, Accumulibacter and Acinetobacter, which are involved in nitrogen removal, significantly decreased with increases in the Cd (II) concentration. In addition, molecular ecological network analysis showed that the networks sizes in the presence of higher levels of Cd (II) were smaller than in the control, but the nodes were more closely connected with neighbors. These shifts in bacterial abundance and the bacterial network structure may be responsible for the deterioration of COD and nutrient removal. Overall, this study provides new insights into the effects of Cd (II) on the bacterial community and its interactions in activated sludge systems.
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Affiliation(s)
- Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Tao Ya
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Minglu Zhang
- Key Laboratory of Cleaner Production and Integrated Resource Utilization of China National Light Industry, Beijing Technology and Business University, Beijing, 100048, China
| | - Lin Liu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Pengfei Hou
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Shaoyong Lu
- State Environmental Protection Scientific Observation and Research Station for Lake Dongtinghu (SEPSORSLD), National Engineering Laboratory for Lake Pollution Control and Ecological Restoration, State Key Laboratory of Environmental Criteria an Risk Assessment, Research Centre of Lake Environment, Chinese Research Academy of Environmental Sciences, Beijing, 100012, China.
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18
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Pang Y, Ji G. Biotic factors drive distinct DNRA potential rates and contributions in typical Chinese shallow lake sediments. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2019; 254:112903. [PMID: 31362259 DOI: 10.1016/j.envpol.2019.07.071] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/23/2019] [Revised: 06/27/2019] [Accepted: 07/13/2019] [Indexed: 06/10/2023]
Abstract
Dissimilatory nitrate reduction to ammonia (DNRA) is an important nitrate reduction pathway in lake sediments; however, little is known about the biotic factors driving the DNRA potential rates and contributions to the fate of nitrate. This study reports the first investigation of DNRA potential rates and contributions in lake sediments linked to DNRA community structures. The results of 15N isotope-tracing incubation experiments showed that 12 lakes had distinct DNRA potentials, which could be clustered into 2 groups, one with higher DNRA potentials (rates varied from 2.7 to 5.0 nmol N g-1 h-1 and contributions varied from 27.5% to 35.4%) and another with lower potentials (rates varied from 0.6 to 2.3 nmol N g-1 h-1 and contributions varied from 8.1% to 22.8%). Sediment C/N and the abundance of the nrfA gene were the key abiotic and biotic factors accounting for the distinct DNRA potential rates, respectively. A high-throughput sequencing analysis of the nrfA gene revealed that the sediment C/N could also affect the DNRA potential rates by altering the ecological patterns of the DNRA community composition. In addition, the interactions between the DNRA community and the denitrifying community were found to be obviously different in the two groups. In the higher DNRA potential group, the DNRA community mainly interacted with heterotrophic denitrifiers, while in the lower DNRA potential group, both heterotrophic and sulfur-driven autotrophic denitrifiers might cooperate with the DNRA community. The present study highlighted the role of the sulfur-driven nitrate reduction pathway in C-limited sediments, which has always been overlooked in freshwater environments, and gave new insights into the molecular mechanism influencing the fate of nitrate.
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Affiliation(s)
- Yunmeng Pang
- Key Laboratory of Water and Sediment Sciences, Ministry of Education, Department of Environmental Engineering, Peking University, Beijing 100871, China
| | - Guodong Ji
- Key Laboratory of Water and Sediment Sciences, Ministry of Education, Department of Environmental Engineering, Peking University, Beijing 100871, China.
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19
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Hu A, Nie Y, Yu G, Han C, He J, He N, Liu S, Deng J, Shen W, Zhang G. Diurnal Temperature Variation and Plants Drive Latitudinal Patterns in Seasonal Dynamics of Soil Microbial Community. Front Microbiol 2019; 10:674. [PMID: 31001239 PMCID: PMC6454054 DOI: 10.3389/fmicb.2019.00674] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2018] [Accepted: 03/18/2019] [Indexed: 12/27/2022] Open
Abstract
Seasonality, an exogenous driver, motivates the biological and ecological temporal dynamics of animal and plant communities. Underexplored microbial temporal endogenous dynamics hinders the prediction of microbial response to climate change. To elucidate temporal dynamics of microbial communities, temporal turnover rates, phylogenetic relatedness, and species interactions were integrated to compare those of a series of forest ecosystems along latitudinal gradients. The seasonal turnover rhythm of microbial communities, estimated by the slope (w value) of similarity-time decay relationship, was spatially structured across the latitudinal gradient, which may be caused by a mixture of both diurnal temperature variation and seasonal patterns of plants. Statistical analyses revealed that diurnal temperature variation instead of average temperature imposed a positive and considerable effect alone and also jointly with plants. Due to higher diurnal temperature variation with more climatic niches, microbial communities might evolutionarily adapt into more dispersed phylogenetic assembly based on the standardized effect size of MNTD metric, and ecologically form higher community resistance and resiliency with stronger network interactions among species. Archaea and the bacterial groups of Chloroflexi, Alphaproteobacteria, and Deltaproteobacteria were sensitive to diurnal temperature variation with greater turnover rates at higher latitudes, indicating that greater diurnal temperature fluctuation imposes stronger selective pressure on thermal specialists, because bacteria and archaea, single-celled organisms, have extreme short generation period compared to animal and plant. Our findings thus illustrate that the dynamics of microbial community and species interactions are crucial to assess ecosystem stability to climate variations in an increased climatic variability era.
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Affiliation(s)
- Ang Hu
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, China.,College of Resources and Environment, Hunan Agricultural University, Changsha, China
| | - Yanxia Nie
- Center for Ecology and Environmental Sciences, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Guirui Yu
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, China
| | - Conghai Han
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, China
| | - Jinhong He
- Center for Ecology and Environmental Sciences, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Nianpeng He
- Key Laboratory of Ecosystem Network Observation and Modeling, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing, China
| | - Shirong Liu
- Key Laboratory of Forest Ecology and Environment, Chinese Academy of Forestry, Beijing, China
| | - Jie Deng
- School of Ecological and Environmental Sciences, East China Normal University, Shanghai, China
| | - Weijun Shen
- Center for Ecology and Environmental Sciences, South China Botanical Garden, Chinese Academy of Sciences, Guangzhou, China
| | - Gengxin Zhang
- Key Laboratory of Alpine Ecology and Biodiversity, Institute of Tibetan Plateau Research, Chinese Academy of Sciences, Beijing, China
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20
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Hu D, Zhang S, Baskin JM, Baskin CC, Wang Z, Liu R, Du J, Yang X, Huang Z. Seed mucilage interacts with soil microbial community and physiochemical processes to affect seedling emergence on desert sand dunes. PLANT, CELL & ENVIRONMENT 2019; 42:591-605. [PMID: 30193400 DOI: 10.1111/pce.13442] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Revised: 08/31/2018] [Accepted: 09/03/2018] [Indexed: 06/08/2023]
Abstract
Seedling emergence is a critical stage in the establishment of desert plants. Soil microbes participate in plant growth and development, but information is lacking with regard to the role of microbes on seedling emergence. We applied the biocides (captan and streptomycin) to assess how seed mucilage interacts with soil microbial community and physiochemical processes to affect seedling emergence of Artemisia sphaerocephala on the desert sand dune. Fungal and bacterial community composition and diversity and fungal-bacterial interactions were changed by both captan and streptomycin. Mucilage increased soil enzyme activities and fungal-bacterial interactions. Highest seedling emergence occurred under streptomycin and mucilage treatment. Members of the phyla Firmicutes and Glomeromycota were the keystone species that improved A. sphaerocephala seedling emergence, by increasing resistance of young seedlings to drought and pathogen. Seed mucilage directly improved seedling emergence and indirectly interacted with the soil microbial community through strengthening fungal-bacterial interactions and providing favourable environment for soil enzymes to affect seedling emergence. Our study provides a comprehensive understanding of the regulatory mechanisms by which soil microbial community and seed mucilage interactively promote successful establishment of populations of desert plants on the barren and stressful sand dune.
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Affiliation(s)
- Dandan Hu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Shudong Zhang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Jerry M Baskin
- Department of Biology, University of Kentucky, Lexington, Kentucky
| | - Carol C Baskin
- Department of Biology, University of Kentucky, Lexington, Kentucky
- Department of Plant and Soil Sciences, University of Kentucky, Lexington, Kentucky
| | - Zhaoren Wang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Rong Liu
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
- University of Chinese Academy of Sciences, Beijing, China
| | - Juan Du
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Xuejun Yang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
| | - Zhenying Huang
- State Key Laboratory of Vegetation and Environmental Change, Institute of Botany, Chinese Academy of Sciences, Beijing, China
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21
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Kong X, Jin D, Wang X, Zhang F, Duan G, Liu H, Jia M, Deng Y. Dibutyl phthalate contamination remolded the fungal community in agro-environmental system. CHEMOSPHERE 2019; 215:189-198. [PMID: 30317089 DOI: 10.1016/j.chemosphere.2018.10.020] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/25/2018] [Revised: 09/18/2018] [Accepted: 10/04/2018] [Indexed: 06/08/2023]
Abstract
Dibutyl phthalate (DBP) is a typical soil contaminant that is widely used as plasticizer in modern agricultural production. In this study, an experiment was conducted to evaluate fungal community succession in a soil-vegetable ecosystem under different DBP concentrations. By using high-throughput sequencing of the ribosomal internal transcribed spacer (ITS) region, it was shown that DBP contamination caused significant changes to the soil fungal community, in terms of both α and β diversities. The largest changes in fungal α and β diversities were detected under 50 mg/kg DBP concentration at the first day of addition. The bulk soils, rhizosphere soils and the phyllosphere harbored different fungal communities, while the abundance of saprotrophs and plant pathogens in the phyllosphere have been increased under DBP contamination. From correlation analysis and partial Mantel test, the change in fungal community α diversity was the result of multiple factors (DBP concentration, bacterial community and soil properties) while the β diversity of fungal community was mainly co-varied with the bacterial community after DBP contamination. Moreover, molecular ecological network analysis demonstrated that DBP contamination was detrimental to mutualistic relationships among fungal species and destabilized the network structure. Overall, the fungal communities in soils and around vegetables were largely remolded by DBP contamination that provides new insight into DBP contamination impacts on agricultural ecosystems.
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Affiliation(s)
- Xiao Kong
- Key Laboratory of Environmental Biotechnology, 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
| | - Decai Jin
- Key Laboratory of Environmental Biotechnology, 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.
| | - Xinxin Wang
- China Offshore Environmental Service Co. Ltd., Tianjin 300452, China
| | - Fengsong Zhang
- Key Laboratory of Land Surface Pattern and Simulation, Institute of Geographic Sciences and Natural Resources Research, Chinese Academy of Sciences, Beijing 100101, China
| | - Guilan Duan
- Key Laboratory of Environmental Biotechnology, 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
| | - Huijun Liu
- Beijing Key Laboratory of Detection and Control of Spoilage Organisms and Pesticide Residues in Agricultural Products, Beijing University of Agriculture, Beijing 102206, China
| | - Minghong Jia
- Beijing Key Laboratory of Detection and Control of Spoilage Organisms and Pesticide Residues in Agricultural Products, Beijing University of Agriculture, Beijing 102206, China
| | - Ye Deng
- Key Laboratory of Environmental Biotechnology, 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
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Borrett SR, Sheble L, Moody J, Anway EC. Bibliometric review of ecological network analysis: 2010–2016. Ecol Modell 2018. [DOI: 10.1016/j.ecolmodel.2018.04.020] [Citation(s) in RCA: 43] [Impact Index Per Article: 7.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/16/2022]
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Wang X, Zhu M, Li N, Du S, Yang J, Li Y. Effects of CeO 2 nanoparticles on bacterial community and molecular ecological network in activated sludge system. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2018; 238:516-523. [PMID: 29605611 DOI: 10.1016/j.envpol.2018.03.034] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/28/2017] [Revised: 03/01/2018] [Accepted: 03/12/2018] [Indexed: 06/08/2023]
Abstract
The increasing use of cerium oxide nanoparticles (CeO2 NPs) has caused concerns regarding their potential environmental risks. However, their effects on bacterial communities and network interactions in activated sludge process are still unclear. In this study, we carried out long-term exposure experiments (210 d) to investigate the influence of CeO2 NPs on wastewater treatment performance, bacterial community structure and network interactions in activated sludge systems. The results showed that long-term exposure to 1 mg/L CeO2 NPs induced the deterioration of denitrifying process, which was consistent with the inhibition of enzyme activities of nitrite oxidoreductase and nitrate reductase under CeO2 NPs. CeO2 NPs decreased the bacterial diversity and altered the overall bacterial community structure in activated sludge. Some dominant denitrifying bacteria, such as Flexibacter and Acinetobacter decreased significantly. Molecular ecological network analysis showed that CeO2 NPs decreased the network complexity of bacterial community, and probably promoted the competition in bacterial communities of activated sludge. These changes of denitrifying bacteria and the bacterial network may be relevant to the deterioration of denitrifying process. This study provides insights into how the bacteria community and their molecular ecological network respond to CeO2 NPs in activated sludge systems.
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Affiliation(s)
- Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Minghan Zhu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Nankun Li
- Appraisal Center for Environment & Engineering, Ministry of Environmental Protection, Beijing, 100012, China
| | - Shuai Du
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Jingdan Yang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Yuan Li
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China.
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Wang X, Zheng Q, Yuan Y, Hai R, Zou D. Bacterial community and molecular ecological network in response to Cr 2O 3 nanoparticles in activated sludge system. CHEMOSPHERE 2017; 188:10-17. [PMID: 28865788 DOI: 10.1016/j.chemosphere.2017.08.072] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/10/2017] [Revised: 07/28/2017] [Accepted: 08/15/2017] [Indexed: 06/07/2023]
Abstract
The potential environmental risks of chromium oxide nanoparticles (Cr2O3 NPs) have caused great concerns. However, their possible impacts on activated sludge process are very limited. In this study, we carried out long-term exposure experiments to evaluate the influence of Cr2O3 NPs on wastewater nutrient removal, bacterial community and molecular ecological network (MEN) in the sequencing batch reactor (SBR). It was found that 1 mg/L Cr2O3 NPs increased the effluent concentrations of NO3--N and TP from 6.5 to 15.4 mg/L, and 0.6-2.7 mg/L, indicating the serious deterioration of denitrification and phosphorus removal. Cr2O3 NPs significantly decreased the bacterial richness in terms of the number of different OTUs (626 OTUs in Cr2O3 samples and 728 OTUs in controls). Detrended correspondence analysis (DCA) showed that the overall taxonomic structure of bacterial community was altered at Cr2O3 NPs in activated sludge systems. Further analysis revealed that three genera related to denitrification (Desulfovibrio, Pseudomonas and Hyphomicrobium) and two genera related to phosphorus removal (Accumulibacter and Rhodobacter) decreased significantly, which was consistent with the observed influences of Cr2O3 NPs on denitrification and phosphorus removal. MEN analysis showed that the overall architecture of the network under Cr2O3 NPs was substantially alerted. β-Proteobacteria, playing an important role in nutrients removal, had less complex interactions in the presence of Cr2O3 NPs, which may be associated with the deterioration of denitrification and phosphorus removal. This study provides insights into our understanding of shifts in the bacteria community and their MEN under Cr2O3 NPs in activated sludge systems.
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Affiliation(s)
- Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Quan Zheng
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Yuan Yuan
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China; College of Forestry, Henan Agriculture University, ZhengZhou, 450002, China
| | - Reti Hai
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China
| | - Dexun Zou
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology, Beijing, 100029, China.
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Chen Z, Zheng Y, Ding C, Ren X, Yuan J, Sun F, Li Y. Integrated metagenomics and molecular ecological network analysis of bacterial community composition during the phytoremediation of cadmium-contaminated soils by bioenergy crops. ECOTOXICOLOGY AND ENVIRONMENTAL SAFETY 2017; 145:111-118. [PMID: 28711820 DOI: 10.1016/j.ecoenv.2017.07.019] [Citation(s) in RCA: 39] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 07/06/2017] [Accepted: 07/10/2017] [Indexed: 06/07/2023]
Abstract
Two energy crops (maize and soybean) were used in the remediation of cadmium-contaminated soils. These crops were used because they are fast growing, have a large biomass and are good sources for bioenergy production. The total accumulation of cadmium in maize and soybean plants was 393.01 and 263.24μg pot-1, respectively. The rhizosphere bacterial community composition was studied by MiSeq sequencing. Phylogenetic analysis was performed using 16S rRNA gene sequences. The rhizosphere bacteria were divided into 33 major phylogenetic groups according to phyla. The dominant phylogenetic groups included Proteobacteria, Acidobacteria, Actinobacteria, Gemmatimonadetes, and Bacteroidetes. Based on principal component analysis (PCA) and unweighted pair group with arithmetic mean (UPGMA) analysis, we found that the bacterial community was influenced by cadmium addition and bioenergy cropping. Three molecular ecological networks were constructed for the unplanted, soybean- and maize-planted bacterial communities grown in 50mgkg-1 cadmium-contaminated soils. The results indicated that bioenergy cropping increased the complexity of the bacterial community network as evidenced by a higher total number of nodes, the average geodesic distance (GD), the modularity and a shorter geodesic distance. Proteobacteria and Acidobacteria were the keystone bacteria connecting different co-expressed operational taxonomic units (OTUs). The results showed that bioenergy cropping altered the topological roles of individual OTUs and keystone populations. This is the first study to reveal the effects of bioenergy cropping on microbial interactions in the phytoremediation of cadmium-contaminated soils by network reconstruction. This method can greatly enhance our understanding of the mechanisms of plant-microbe-metal interactions in metal-polluted ecosystems.
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Affiliation(s)
- Zhaojin Chen
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China.
| | - Yuan Zheng
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
| | - Chuanyu Ding
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
| | - Xuemin Ren
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
| | - Jian Yuan
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
| | - Feng Sun
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
| | - Yuying Li
- Key Laboratory of Ecological Security for Water Source Region of Mid-line Project of South-to-North Diversion Project of Henan Province, College of Agricultural Engineering, Nanyang Normal University, Nanyang 473061, People's Republic of China; Henan Collaborative Innovation Center of Water Security for Water Source Region of Mid-line Project of South-to-North Diversion Project, Nanyang 473061, People's Republic of China
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Wang X, Li J, Liu R, Hai R, Zou D, Zhu X, Luo N. Responses of Bacterial Communities to CuO Nanoparticles in Activated Sludge System. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:5368-5376. [PMID: 28410439 DOI: 10.1021/acs.est.6b06137] [Citation(s) in RCA: 59] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/29/2023]
Abstract
The main objectives of this study were to investigate the influence of copper oxide nanoparticles (CuO NPs) on wastewater nutrient removal, bacterial community and molecular ecological network in activated sludge. The results showed that long-term exposure to 1 mg/L CuO NPs induced an increase of effluent concentrations of ammonia and total phosphorus, which was consistent with the inhibition of enzyme activities of ammonia monooxygenase, nitrite oxidoreductase, exopolyphosphatase, and polyphosphate in the presence of CuO NPs. MiSeq sequencing data indicated that CuO NPs significantly decreased the bacterial diversity and altered the overall bacterial community structure in activated sludge. Some genera involved in nitrogen and phosphorus removal, such as Nitrosomonas, Acinetobacter, and Pseudomonas decreased significantly. Molecular ecological network analysis showed that network interactions among different phylogenetic populations were markedly changed by CuO NPs. For example, β-Proteobacteria, playing an important role in nutrients removal, had less complex interactions in the presence of CuO NPs. These shifts of the abundance of related genera, together with the network interactions may be associated with the deterioration of ammonia and phosphorus removal. This study provides insights into our understanding of shifts in the bacteria community and their molecular ecological network under CuO NPs in activated sludge systems.
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Affiliation(s)
- Xiaohui Wang
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Jing Li
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Rui Liu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Reti Hai
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Dexun Zou
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Xiaobiao Zhu
- Beijing Engineering Research Center of Environmental Material for Water Purification, College of Chemical Engineering, Beijing University of Chemical Technology , Beijing 100029, China
| | - Nan Luo
- China Sciences MapUniverse Technology Co., Ltd. (MAPUNI), Beijing, 100101, China
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27
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A comprehensive insight into functional profiles of free-living microbial community responses to a toxic Akashiwo sanguinea bloom. Sci Rep 2016; 6:34645. [PMID: 27703234 PMCID: PMC5050414 DOI: 10.1038/srep34645] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2016] [Accepted: 09/14/2016] [Indexed: 12/28/2022] Open
Abstract
Phytoplankton blooms are a worldwide problem and can greatly affect ecological processes in aquatic systems, but its impacts on the functional potential of microbial communities are limited. In this study, a high-throughput microarray-based technology (GeoChip) was used to profile the functional potential of free-living microbes from the Xiamen Sea Area in response to a 2011 Akashiwo sanguinea bloom. The bloom altered the overall community functional structure. Genes that were significantly (p < 0.05) increased during the bloom included carbon degradation genes and genes involved in nitrogen (N) and/or phosphorus (P) limitation stress. Such significantly changed genes were well explained by chosen environmental factors (COD, nitrite-N, nitrate-N, dissolved inorganic phosphorus, chlorophyll-a and algal density). Overall results suggested that this bloom might enhance the microbial converting of nitrate to N2 and ammonia nitrogen, decrease P removal from seawater, activate the glyoxylate cycle, and reduce infection activity of bacteriophage. This study presents new information on the relationship of algae to other microbes in aquatic systems, and provides new insights into our understanding of ecological impacts of phytoplankton blooms.
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28
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Niu J, Deng J, Xiao Y, He Z, Zhang X, Van Nostrand JD, Liang Y, Deng Y, Liu X, Yin H. The shift of microbial communities and their roles in sulfur and iron cycling in a copper ore bioleaching system. Sci Rep 2016; 6:34744. [PMID: 27698381 PMCID: PMC5048113 DOI: 10.1038/srep34744] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/26/2016] [Accepted: 09/20/2016] [Indexed: 11/16/2022] Open
Abstract
Bioleaching has been employed commercially to recover metals from low grade ores, but the production efficiency remains to be improved due to limited understanding of the system. This study examined the shift of microbial communities and S&Fe cycling in three subsystems within a copper ore bioleaching system: leaching heap (LH), leaching solution (LS) and sediment under LS. Results showed that both LH and LS had higher relative abundance of S and Fe oxidizing bacteria, while S and Fe reducing bacteria were more abundant in the Sediment. GeoChip analysis showed a stronger functional potential for S0 oxidation in LH microbial communities. These findings were consistent with measured oxidation activities to S0 and Fe2+, which were highest by microbial communities from LH, lower by those from LS and lowest form Sediment. Moreover, phylogenetic molecular ecological network analysis indicated that these differences might be related to interactions among microbial taxa. Last but not the least, a conceptual model was proposed, linking the S&Fe cycling with responsible microbial populations in the bioleaching systems. Collectively, this study revealed the microbial community and functional structures in all three subsystems of the copper ore, and advanced a holistic understanding of the whole bioleaching system.
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Affiliation(s)
- Jiaojiao Niu
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
| | - Jie Deng
- Institute for Environmental Genomics and Department of Botany and Microbiology, University of Oklahoma, Norman 73019, USA
| | - Yunhua Xiao
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
| | - Zhili He
- Institute for Environmental Genomics and Department of Botany and Microbiology, University of Oklahoma, Norman 73019, USA
| | - Xian Zhang
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
| | - J. D. Van Nostrand
- Institute for Environmental Genomics and Department of Botany and Microbiology, University of Oklahoma, Norman 73019, USA
| | - Yili Liang
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
| | - Ye Deng
- Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences, Beijing 100081, China
| | - Xueduan Liu
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
| | - Huaqun Yin
- School of Minerals Processing and Bioengineering, Central South University, Changsha 410083, China
- Key laboratory of Biometallurgy, Ministry of Education, Changsha 410083, China
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Yang T, Weisenhorn P, Gilbert JA, Ni Y, Sun R, Shi Y, Chu H. Carbon constrains fungal endophyte assemblages along the timberline. Environ Microbiol 2016; 18:2455-69. [DOI: 10.1111/1462-2920.13153] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2015] [Revised: 11/23/2015] [Accepted: 11/23/2015] [Indexed: 11/28/2022]
Affiliation(s)
- Teng Yang
- State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil Science Chinese Academy of Sciences 71 East Beijing Road Nanjing 210008 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Pamela Weisenhorn
- Argonne National Laboratory Institute for Genomics and Systems Biology Argonne IL 60439 USA
| | - Jack A. Gilbert
- Argonne National Laboratory Institute for Genomics and Systems Biology Argonne IL 60439 USA
- Departments of Ecology and Evolution
- Surgery University of Chicago Chicago IL 60637 USA
- Marine Biological Laboratory 7 MBL Street Woods Hole MA 02543 USA
- College of Environmental and Resource Sciences Zhejiang University Hangzhou 310058 China
| | - Yingying Ni
- State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil Science Chinese Academy of Sciences 71 East Beijing Road Nanjing 210008 China
| | - Ruibo Sun
- State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil Science Chinese Academy of Sciences 71 East Beijing Road Nanjing 210008 China
- University of Chinese Academy of Sciences Beijing 100049 China
| | - Yu Shi
- State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil Science Chinese Academy of Sciences 71 East Beijing Road Nanjing 210008 China
| | - Haiyan Chu
- State Key Laboratory of Soil and Sustainable Agriculture Institute of Soil Science Chinese Academy of Sciences 71 East Beijing Road Nanjing 210008 China
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Chen L, Xu J, Feng Y, Wang J, Yu Y, Brookes PC. Responses of soil microeukaryotic communities to short-term fumigation-incubation revealed by MiSeq amplicon sequencing. Front Microbiol 2015; 6:1149. [PMID: 26539178 PMCID: PMC4611156 DOI: 10.3389/fmicb.2015.01149] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2015] [Accepted: 10/05/2015] [Indexed: 11/25/2022] Open
Abstract
In soil microbiology, there is a “paradox” of soil organic carbon (SOC) mineralization, which is that even though chloroform fumigation destroys majority of the soil microbial biomass, SOC mineralization continues at the same rate as in the non-fumigated soil during the incubation period. Soil microeukaryotes as important SOC decomposers, however, their community-level responses to chloroform fumigation are not well understood. Using the 18S rRNA gene amplicon sequencing, we analyzed the composition, diversity, and C-metabolic functions of a grassland soil and an arable soil microeukaryotic community in response to fumigation followed by a 30-day incubation. The grassland and arable soil microeukaryotic communities were dominated by the fungal Ascomycota (80.5–93.1% of the fungal sequences), followed by the protistan Cercozoa and Apicomplexa. In the arable soil fungal community, the predominance of the class Sordariomycetes was replaced by the class Eurotiomycetes after fumigation at days 7 and 30 of the incubation. Fumigation changed the microeukaryotic α-diversity in the grassland soil at days 0 and 7, and β-diversity in the arable soil at days 7 and 30. Network analysis indicated that after fumigation fungi were important groups closely related to other taxa. Most phylotypes (especially Sordariomycetes, Dothideomycetes, Coccidia, and uncultured Chytridiomycota) were inhibited, and only a few were positively stimulated by fumigation. Despite the inhibited Sordariomycetes, the fumigated communities mainly consisted of Eurotiomycetes and Sordariomycetes (21.9 and 36.5% relative frequency, respectively), which are able to produce hydrolytic enzymes associated with SOC mineralization. Our study suggests that fumigation not only decreases biomass size, but modulates the composition and diversity of the soil microeukaryotic communities, which are capable of driving SOC mineralization by release of hydrolytic enzymes during short-term fumigation-incubation.
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Affiliation(s)
- Lin Chen
- Institute of Soil and Water Resources and Environmental Science, Zhejiang University Hangzhou, China
| | - Jianming Xu
- Institute of Soil and Water Resources and Environmental Science, Zhejiang University Hangzhou, China
| | - Youzhi Feng
- State Key Laboratory of Soil and Sustainable Agriculture, Institute of Soil Science, Chinese Academy of Sciences Nanjing, China
| | - Juntao Wang
- State Key Laboratory of Urban and Regional Ecology, Research Center for Eco-Environmental Sciences, Chinese Academy of Sciences Beijing, China
| | - Yongjie Yu
- College of Applied Meteorology, Nanjing University of Information Science and Technology Nanjing, China
| | - Philip C Brookes
- Institute of Soil and Water Resources and Environmental Science, Zhejiang University Hangzhou, China
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