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Wang Z, Liu X, Wang X, Wang H, Sun Y, Zhang J, Li H. Contrasting benthic bacterial and fungal communities in two temperate coastal areas affected by different levels of anthropogenic pressure. MARINE ENVIRONMENTAL RESEARCH 2024; 198:106501. [PMID: 38615486 DOI: 10.1016/j.marenvres.2024.106501] [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: 10/08/2023] [Revised: 03/19/2024] [Accepted: 04/08/2024] [Indexed: 04/16/2024]
Abstract
Benthic microbial communities play a crucial role in maintaining the stability and function of estuarine ecosystems. However, their organization and response to multiple stresses in severely disturbed coastal areas remains to be elucidated. In this study, we revealed the presence of contrasting benthic bacterial and fungal communities in the Liaohe (LH) and Yalujiang (YLJ) estuaries, which are located at similar latitudes and are characterized by similar climates but are subjected to different levels of anthropogenic pressure. The results showed that Firmicutes and Chloroflexi were more abundant in LH, which reflected the influence of anthropogenic pressure in this area. Functional analyses indicated that the functional genes involved in the generation of precursor metabolites and energy pathways were more enriched in the LH community, while genes regulating degradation/utilization/assimilation processes were more enriched in the YLJ community. Distance-dependent similarity analysis showed that the bacterial community in LH was more affected by environmental changes, while that in YLJ was more influenced by geographic dispersion. In contrast, no significant distance-dependent similarity was found for the fungal communities in the two areas. In addition, the network analysis showed that the bacterial-fungal network in YLJ was more complex and stable than that in the LH. Our results highlight the important roles of environmental heterogeneity in controlling microbial community composition, biogeographic patterns, and co-occurrence networks. These findings fill knowledge gaps in the understanding of the different response patterns of benthic communities under varying anthropogenic pressures.
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Affiliation(s)
- Zhen Wang
- College of Marine Technology and Environment, Dalian Ocean University, Dalian, 116023, China; State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Xiaohan Liu
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Xiaocheng Wang
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Haining Wang
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Yi Sun
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Jinyong Zhang
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China
| | - Hongjun Li
- State Environmental Protection Key Laboratory of Coastal Ecosystem, National Marine Environmental Monitoring Center, Dalian, 116023, China.
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Li Y, Lou D, Zhou X, Zhuang X, Wang C. Alteration of bacterial community composition in the sediments of an urban artificial river caused by sewage discharge. PeerJ 2024; 12:e16931. [PMID: 38371377 PMCID: PMC10874175 DOI: 10.7717/peerj.16931] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/13/2023] [Accepted: 01/22/2024] [Indexed: 02/20/2024] Open
Abstract
Background Urbanization has an ecological and evolutionary effect on urban microorganisms. Microorganisms are fundamental to ecosystem functions, such as global biogeochemical cycles, biodegradation and biotransformation of pollutants, and restoration and maintenance of ecosystems. Changes in microbial communities can disrupt these essential processes, leading to imbalances within ecosystems. Studying the impact of human activities on urban microbes is critical to protecting the environment, human health, and overall urban sustainability. Methods In this study, bacterial communities in the sediments of an urban artificial river were profiled by sequencing the 16S rRNA V3-V4 region. The samples collected from the eastern side of the Jiusha River were designated as the JHE group and were marked by persistent urban sewage discharges. The samples collected on the western side of the Jiusha River were categorized as the JHW group for comparative analysis. Results The calculated alpha diversity indices indicated that the bacterial community in the JHW group exhibited greater species diversity and evenness than that of the JHE group. Proteobacteria was the most dominant phylum between the two groups, followed by Bacteroidota. The relative abundance of Proteobacteria and Bacteroidota accumulated in the JHE group was higher than in the JHW group. Therefore, the estimated biomarkers in the JHE group were divided evenly between Proteobacteria and Bacteroidota, whereas the biomarkers in the JHW group mainly belonged to Proteobacteria. The Sulfuricurvum, MND1, and Thiobacillus genus were the major contributors to differences between the two groups. In contrast to JHW, JHE exhibited higher enzyme abundances related to hydrolases, oxidoreductases, and transferases, along with a prevalence of pathways associated with carbohydrate, energy, and amino acid metabolisms. Our study highlights the impact of human-induced water pollution on microorganisms in urban environments.
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Affiliation(s)
- Yishi Li
- State Key Laboratory of Microbial Technology, Microbial Technology Institute, Shandong University, Qingdao, Shandong, China
- Focused Photonics (Hangzhou), Inc., Hangzhou, Zhejiang, China
| | - Daoming Lou
- Hangzhou Urban Water Facilities and River Conservation Management Center, Hangzhou, Zhejiang, China
| | - Xiaofei Zhou
- State Key Laboratory of Microbial Technology, Microbial Technology Institute, Shandong University, Qingdao, Shandong, China
| | - Xuchao Zhuang
- Focused Photonics (Hangzhou), Inc., Hangzhou, Zhejiang, China
| | - Chuandong Wang
- State Key Laboratory of Microbial Technology, Microbial Technology Institute, Shandong University, Qingdao, Shandong, China
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Yang S, Dong M, Lu H, Cai Z, Ge M, Xing J, Huang H, Huang Y, Sun G, Zhou S, Xu M. Explaining nitrogen turnover in sediments and water through variations in microbial community composition and potential function. CHEMOSPHERE 2023; 344:140379. [PMID: 37827459 DOI: 10.1016/j.chemosphere.2023.140379] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/03/2023] [Revised: 09/20/2023] [Accepted: 10/05/2023] [Indexed: 10/14/2023]
Abstract
Anthropogenic activities greatly impact nitrogen (N) biogeochemical cycling in aquatic ecosystems. High N concentrations in coastal aquaculture waters threaten fishery production and aquaculture ecosystems and have become an urgent problem to be solved. Existing microbial flora and metabolic potential significantly regulate N turnover in aquatic ecosystems. To clarify the contribution of microorganisms to N turnover in sediment and water, we investigated three types of aquaculture ecosystems in coastal areas of Guangdong, China. Nitrate nitrogen (NO3--N) was the dominant component of total nitrogen in the sediment (interstitial water, 90.4%) and water (61.6%). This finding indicates that NO3--N (1.67-2.86 mg/L and 2.98-7.89 mg/L in the sediment and water) is a major pollutant in aquaculture ecosystems. In water, the relative abundances of assimilation nitrogen reduction and aerobic denitrifying bacteria, as well as the metabolic potentials of nitrogen fixation and dissimilated nitrogen in fish monoculture, were only 61.0%, 31.5%, 47.5%, and 27.2% of fish and shrimp polyculture, respectively. In addition, fish-shrimp polyculture reduced NO3--N content (2.86 mg/L) compared to fish monoculture (7.89 mg/L), which was consistent with changes in aerobic denitrification and nitrate assimilation, suggesting that polyculture could reduce TN concentrations in water bodies and alleviate nitrogen pollution risks. Further analysis via structural equation modeling (SEM) revealed that functional pathways (36% and 31%) explained TN changes better than microbial groups in sediment and water (13% and 11%), suggesting that microbial functional capabilities explain TN better than microbial community composition and other factors (pH, O2, and aquaculture type). This study enhances our understanding of nitrogen pollution characteristics and microbial community and functional capabilities related to sediment-water nitrogen turnover in three types of aquaculture ecosystems, which can contribute to the preservation of healthy coastal ecosystems.
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Affiliation(s)
- Shan Yang
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Meijun Dong
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Huibin Lu
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Zhipeng Cai
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Meng Ge
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Jia Xing
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Haobin Huang
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Youda Huang
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Guoping Sun
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Shaofeng Zhou
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China
| | - Meiying Xu
- Guangdong Environmental Protection Key Laboratory of Microbiology and Ecological Safety, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, State Key Laboratory of Applied Microbiology Southern China, Institute of Microbiology, Guangdong Academy of Sciences, Guangzhou, 510070, China.
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Ye S, Li S, Su C, Shi Z, Li H, Hong J, Wang S, Zhao J, Zheng W, Dong S, Ye S, Lou Y, Zhou Z, Du J. Characterization of microbial community and antibiotic resistome in intra urban water, Wenzhou China. Front Microbiol 2023; 14:1169476. [PMID: 37396356 PMCID: PMC10311006 DOI: 10.3389/fmicb.2023.1169476] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2023] [Accepted: 05/30/2023] [Indexed: 07/04/2023] Open
Abstract
The present study investigated the water quality index, microbial composition and antimicrobial resistance genes in urban water habitats. Combined chemicals testing, metagenomic analyses and qualitative PCR (qPCR) were conducted on 20 locations, including rivers from hospital surrounds (n = 7), community surrounds (n = 7), and natural wetlands (n = 6). Results showed that the indexes of total nitrogen, phosphorus, and ammonia nitrogen of hospital waters were 2-3 folds high than that of water from wetlands. Bioinformatics analysis revealed a total of 1,594 bacterial species from 479 genera from the three groups of water samples. The hospital-related samples had the greatest number of unique genera, followed by those from wetlands and communities. The hospital-related samples contained a large number of bacteria associated with the gut microbiome, including Alistipes, Prevotella, Klebsiella, Escherichia, Bacteroides, and Faecalibacterium, which were all significantly enriched compared to samples from the wetlands. Nevertheless, the wetland waters enriched bacteria from Nanopelagicus, Mycolicibacterium and Gemmatimonas, which are typically associated with aquatic environments. The presence of antimicrobial resistance genes (ARGs) that were associated with different species origins in each water sample was observed. The majority of ARGs from hospital-related samples were carried by bacteria from Acinetobacter, Aeromonas and various genera from Enterobacteriaceae, which each was associated with multiple ARGs. In contrast, the ARGs that were exclusively in samples from communities and wetlands were carried by species that encoded only 1 to 2 ARGs each and were not normally associated with human infections. The qPCR showed that water samples of hospital surrounds had higher concentrations of intI1 and antimicrobial resistance genes such as tetA, ermA, ermB, qnrB, sul1, sul2 and other beta-lactam genes. Further genes of functional metabolism reported that the enrichment of genes associated with the degradation/utilization of nitrate and organic phosphodiester were detected in water samples around hospitals and communities compared to those from wetlands. Finally, correlations between the water quality indicators and the number of ARGs were evaluated. The presence of total nitrogen, phosphorus, and ammonia nitrogen were significantly correlated with the presence of ermA and sul1. Furthermore, intI1 exhibited a significant correlation with ermB, sul1, and blaSHV, indicating a prevalence of ARGs in urban water environments might be due to the integron intI1's diffusion-promoting effect. However, the high abundance of ARGs was limited to the waters around the hospital, and we did not observe the geographical transfer of ARGs along with the river flow. This may be related to water purifying capacity of natural riverine wetlands. Taken together, continued surveillance is required to assess the risk of bacterial horizontal transmission and its potential impact on public health in the current region.
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Affiliation(s)
- Sheng Ye
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Shengkai Li
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Chenjun Su
- Pasteurien College, Suzhou Medical College, Soochow University, Suzhou, Jiangsu, China
| | - Zhuqing Shi
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Heng Li
- Pasteurien College, Suzhou Medical College, Soochow University, Suzhou, Jiangsu, China
| | - Jiawen Hong
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
- Taizhou Hospital of Zhejiang Province, Taizhou, China
| | - Shengke Wang
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Jingyan Zhao
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Weiji Zheng
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Shixuan Dong
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Shuhan Ye
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Yongliang Lou
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
| | - Zhemin Zhou
- Pasteurien College, Suzhou Medical College, Soochow University, Suzhou, Jiangsu, China
| | - Jimei Du
- Wenzhou Key Laboratory of Sanitary Microbiology, Department of Microbiology and Immunology, School of Laboratory Medicine, Wenzhou Medical University, Wenzhou, China
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Morris N, Alldred M, Zarnoch C, Alter SE. Estuarine Sediment Microbiomes from a Chronosequence of Restored Urban Salt Marshes. MICROBIAL ECOLOGY 2023; 85:916-930. [PMID: 36826588 DOI: 10.1007/s00248-023-02193-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/14/2023] [Accepted: 02/09/2023] [Indexed: 05/04/2023]
Abstract
Salt marshes play an important role in the global nutrient cycle. The sediments in these systems harbor diverse and complex bacterial communities possessing metabolic capacities that provide ecosystem services such as nutrient cycling and removal. On the East Coast of the USA, salt marshes have been experiencing degradation due to anthropogenic stressors. Salt marsh islands within Jamaica Bay, New York City (USA), are surrounded by a large highly urbanized watershed and have declined in area. Restoration efforts have been enacted to reduce further loss, but little is known about how microbial communities develop following restoration activities, or how processes such as nitrogen cycling are impacted. Sediment samples were collected at two sampling depths from five salt marsh islands to characterize the bacterial communities found in marsh sediment including a post-restoration chronosequence of 3-12 years. We used 16s rRNA amplicon sequencing to define alpha and beta diversity, taxonomic composition, and predicted metabolic profile of each sediment sample. We found significant differences in alpha diversity between sampling depths, and significant differences in beta diversity, taxonomic composition, and predicted metabolic capacity among the five sampling locations. The youngest restored site and the degraded natural sampling site exhibited the most distinct communities among the five sites. Our findings suggest that while the salt marsh islands are located in close proximity to each other, they harbor distinct bacterial communities that can be correlated with post-restoration age, marsh health, and other environmental factors such as availability of organic carbon. IMPORTANCE: Salt marshes play a critical role in the global nutrient cycle due to sediment bacteria and their metabolic capacities. Many East Coast salt marshes have experienced significant degradation over recent decades, thought largely to be due to anthropogenic stressors such as nitrogen loading, urban development, and sea-level rise. Salt marsh islands in Jamaica Bay (Queens/Brooklyn NY) are exposed to high water column nitrogen due to wastewater effluent. Several receding marsh islands have been subjected to restoration efforts to mitigate this loss. Little is known about the effect marsh restoration has on bacterial communities, their metabolic capacity, or how they develop post-restoration. Here, we describe the bacterial communities found in marsh islands including a post-restoration chronosequence of 3-12 years and one degraded marsh island that remains unrestored. We found distinct communities at marsh sites, despite their geographic proximity. Differences in diversity and community composition were consistent with changes in organic carbon availability that occur during marsh development, and may result in differences in ecosystem function among sites.
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Affiliation(s)
- Nathan Morris
- The Graduate Center City University of New York, New York, NY, USA
- York College City University of New York, Jamaica, NY, USA
| | - Mary Alldred
- Center for Earth and Environmental Science State University of New York (SUNY), Plattsburgh, NY, USA
| | - Chester Zarnoch
- The Graduate Center City University of New York, New York, NY, USA
- Baruch College City University of New York, New York, NY, USA
| | - S Elizabeth Alter
- The Graduate Center City University of New York, New York, NY, USA.
- California State University-Monterey Bay, Seaside, CA, USA.
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Li S, Wang S, Wong MH, Zaynab M, Wang K, Zhong L, Ouyang L. Changes in the composition of bacterial communities and pathogen levels during wastewater treatment. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2023; 30:1232-1243. [PMID: 35913690 DOI: 10.1007/s11356-022-21947-8] [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: 03/19/2022] [Accepted: 07/06/2022] [Indexed: 06/15/2023]
Abstract
Wastewater treatment plants have been described as a potential source of spreading pathogens to the receiving water. However, few studies are reporting the presence and concentration changes of pathogens in these matrices. High-throughput sequencing provides new insights into understanding the changes of bacterial communities throughout wastewater treatment plants (WWTPs). In this study, the changes in microbial community composition and the levels of representative pathogens of effluents during the wastewater treatment process in two municipal WWTPs (A and B) were analyzed using Illumina NovaSeq sequencing and qPCR. Proteobacteria was the most abundant phylum in all samples, accounting for 45.0-75.2% of the bacterial community, followed by Firmicutes, Bacteroidetes, Actinobacteria, and Nitrospirae. A slight difference was observed between the bacterial community compositions of WWTPs A and B. However, a significant difference in the community compositions of effluent samples at different treatment stages was observed. Nutrients had a more substantial impact on bacterial community composition than physicochemical factors. Most human-associated Bacteroides and Mycobacterium were eliminated during the wastewater treatment process in both WWTPs. The bacterial community richness in WWTP A was significantly higher than that in WWTP B. The results of this study will provide insights into the potential problems that exist in WWTPs. In turn, these insights can enable the efficient and stable operation of WWTPs and help prevent the spread of pathogens.
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Affiliation(s)
- Shuangfei Li
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518071, China
| | - Shilin Wang
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518071, China
| | - Ming Hung Wong
- Environment, Education and Research (CHEER), Consortium On Health, The Education University of Hong Kong, Tai Po, Hong Kong, China
| | - Madiha Zaynab
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518071, China
| | - Keju Wang
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518071, China
| | - Liping Zhong
- Shenzhen Key Laboratory of Marine Bioresource & Eco-Environmental Sciences, College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518071, China
| | - Liao Ouyang
- School of Materials and Environmental Engineering, Shenzhen Polytechnic, Shenzhen, 518055, China.
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Lu M, Wang X, Li H, Jiao JJ, Luo X, Luo M, Yu S, Xiao K, Li X, Qiu W, Zheng C. Microbial community assembly and co-occurrence relationship in sediments of the river-dominated estuary and the adjacent shelf in the wet season. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2022; 308:119572. [PMID: 35661808 DOI: 10.1016/j.envpol.2022.119572] [Citation(s) in RCA: 9] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2022] [Revised: 05/09/2022] [Accepted: 06/01/2022] [Indexed: 06/15/2023]
Abstract
In the estuarine ecosystem, microbial community plays a vital role in controlling biogeochemical processes. However, there is currently limited comprehensive study on the deterministic and stochastic processes that drive the microbial community assembly in the estuaries and adjacent shelves. In this study, we systematically investigated the co-occurrence relationship and microbial community assembly in the sediments along a large river-dominated estuary to shelf in the northern South China Sea during the wet season. The sampling sites were divided into estuary, transection, and shelf sections based on their salinity values. The microbial co-occurrence networks, hierarchical partitioning-based canonical analysis, null model, neutral community model, and the Mantel test were used to investigate the community assembly. Results suggested that microbial community in the estuary section exhibited more interactions and a higher positive interaction ratio than those in the transition and shelf sections. Stochastic processes dominated community assembly in the study, with homogenizing dispersal contributing the most. The estuary exhibited a higher degree of heterogeneous selection than the transition and shelf sections, whereas homogeneous selection showed an opposite trend. Only the estuary section showed dispersal limitation and undominated processes. The river inflow and the resulting environmental heterogeneity were believed to be the key regulators of the community assembly in the studied area. Our study improved the understanding of how microbial community assembly in estuaries and adjacent shelves.
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Affiliation(s)
- Meiqing Lu
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China; Department of Earth Sciences, The University of Hong Kong, Hong Kong, China
| | - Xuejing Wang
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China.
| | - Hailong Li
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Jiu Jimmy Jiao
- Department of Earth Sciences, The University of Hong Kong, Hong Kong, China
| | - Xin Luo
- Department of Earth Sciences, The University of Hong Kong, Hong Kong, China
| | - Manhua Luo
- School of Water Resources and Environment, China University of Geosciences (Beijing), Beijing, 100083, China
| | - Shengchao Yu
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China; Department of Earth Sciences, The University of Hong Kong, Hong Kong, China
| | - Kai Xiao
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Xiang Li
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Wenhui Qiu
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
| | - Chunmiao Zheng
- State Environmental Protection Key Laboratory of Integrated Surface Water-Groundwater Pollution Control, School of Environmental Science and Engineering, Southern University of Science and Technology, Shenzhen, 518055, China
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Liu H, Li H, Qiu L, Chen B, Wang H, Fang C, Long Y, Hu L. The panorama of antibiotics and the related antibiotic resistance genes (ARGs) in landfill leachate. WASTE MANAGEMENT (NEW YORK, N.Y.) 2022; 144:19-28. [PMID: 35303504 DOI: 10.1016/j.wasman.2022.03.008] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2021] [Revised: 03/07/2022] [Accepted: 03/11/2022] [Indexed: 06/14/2023]
Abstract
Landfill leachate is an important source and sink of antibiotics and antibiotic resistance genes (ARGs), which poses a potential threat to human health and ecological environment. Ten antibiotics and 8 ARGs in leachates collected from Zhejiang Province, China, were systematically investigated. The effects of multiple factors were considered: leachate age, season when the leachate was sampled (dry or rainy), heavy metal concentrations, and leachate quality parameters. Leachate age was crucial to the profile of the detectable antibiotics and ARGs. The total concentration of antibiotics were in the order of macrolides > sulfonamides > tetracyclines and they decreased significantly with leachate age. Similarly, fewer ARGs were harbored in aged leachate; the order of abundance of the ARGs was mexF (11.92 ± 0.22 log10 gene copies/L) > sul2 > Intl1 > sul1 > ermB > mefA > tetM > tetQ (9.57 ± 1.32 log10 gene copies/L). The extreme abundances (i.e., the maxima and minima) of ARGs relating to the same class of antibiotic were always surprisingly similar and appeared in leachate of the same age. Seasonal variation greatly affected the concentrations of antibiotics in the leachate-the concentration difference between the dry and rainy seasons could reach two orders of magnitude. Heavy metal concentrations and leachate quality parameters also had important effects on the distribution of antibiotics and ARGs. Overall, the profile of antibiotics and ARGs in leachates was influenced by numerous factors, and the pollution of antibiotics and ARGs may be reduced and controlled by adjusting the environmental factors.
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Affiliation(s)
- Hongyuan Liu
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310023, China
| | - Hong Li
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310023, China
| | - Libo Qiu
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310023, China
| | - Binhui Chen
- Key Laboratory of Recycling and Eco-treatment of Waste Biomass of Zhejiang Province, Zhejiang University of Science and Technology, Hangzhou 310023, China
| | - Hua Wang
- Key Laboratory of Recycling and Eco-treatment of Waste Biomass of Zhejiang Province, Zhejiang University of Science and Technology, Hangzhou 310023, China
| | - Chengran Fang
- College of Civil Engineering, Zhejiang University of Technology, Hangzhou 310023, China; Key Laboratory of Recycling and Eco-treatment of Waste Biomass of Zhejiang Province, Zhejiang University of Science and Technology, Hangzhou 310023, China.
| | - Yuyang Long
- Zhejiang Provincial Key Laboratory of Solid Waste Treatment and Recycling, Zhejiang Gongshang University, Hangzhou 310012, China
| | - Lifang Hu
- College of Quality and Safety Engineering, Institution of Industrial Carbon Metrology, China Jiliang University, Hangzhou 310018, China
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Wang L, Liang Z, Guo Z, Cong W, Song M, Wang Y, Jiang Z. Response mechanism of microbial community to seasonal hypoxia in marine ranching. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 811:152387. [PMID: 34915008 DOI: 10.1016/j.scitotenv.2021.152387] [Citation(s) in RCA: 12] [Impact Index Per Article: 6.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/07/2021] [Revised: 12/05/2021] [Accepted: 12/10/2021] [Indexed: 06/14/2023]
Abstract
Seasonal hypoxia, as an increasingly recognized environmental issue, frequently occurred in marine ranching from northern Yellow Sea, China. Although microorganisms play an important ecological role in marine ecosystems, but little is known on the response mechanism of microbial community to seasonal hypoxia in marine ranching. A total of 132 seawater samples and 47 sediment samples were collected from the marine ranching, both in the death disaster zone of sea cucumbers and the non-disaster zone, and in different months. 16S rRNA gene high-throughput sequencing was used to explore the microbial community and its influencing factors. The results showed that the stratification in community composition and dissolved oxygen content appeared in August. The Alpha diversity in seawater was higher in summer than in winter, and significant differences in Beta diversity appeared between the death disaster zone of sea cucumbers and the non-disaster zone in sediments. In addition, environmental effects explained more of the variation in bacterial community composition in seawater as compared with spatial effects did, whereas, sedimentary bacterial communities were more closely related to spatial effects. The present results could provide fundamental data for understanding the response mechanism of the microbial community to seasonal hypoxia in marine ranching and are of great significance for the management and protection of marine ranching.
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Affiliation(s)
- Lu Wang
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Zhenlin Liang
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Zhansheng Guo
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Wei Cong
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Minpeng Song
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Yuxin Wang
- Marine College, Shandong University, Weihai, Shandong 264209, China
| | - Zhaoyang Jiang
- Marine College, Shandong University, Weihai, Shandong 264209, China.
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10
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Ottoni JR, dos Santos Grignet R, Barros MGA, Bernal SPF, Panatta AAS, Lacerda-Júnior GV, Centurion VB, Delforno TP, da Costa Silva Goncalves C, Passarini MRZ. DNA Metabarcoding from Microbial Communities Recovered from Stream and Its Potential for Bioremediation Processes. Curr Microbiol 2022; 79:70. [DOI: 10.1007/s00284-021-02752-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 12/21/2021] [Indexed: 11/29/2022]
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11
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Su Z, Huang B, Mu Q, Wen D. Evaluating the Potential Antibiotic Resistance Status in Environment Based on the Trait of Microbial Community. Front Microbiol 2020; 11:575707. [PMID: 33123107 PMCID: PMC7573184 DOI: 10.3389/fmicb.2020.575707] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/24/2020] [Accepted: 09/07/2020] [Indexed: 01/03/2023] Open
Abstract
The overuse of antibiotics has promoted the propagation and dissemination of antibiotic resistance genes (ARGs) in environment. Due to the dense human population and intensive activities in coastal areas, the health risk of ARGs in coastal environment is becoming a severe problem. To date, there still lacks of a quantitative method to assess properly the gross antibiotic resistance at microbial community level. Here, we collected sediment samples from Hangzhou Bay (HB), Taizhou Bay (TB), and Xiangshan Bay (XB) of the East China Sea for community-level ARGs analysis. Based on the 16S rRNA genes and predictive metagenomics, we predicted the composition of intrinsic ARGs (piARGs) and some related functional groups. Firstly, a total of 40 piARG subtypes, belonging to nine drug classes and five resistance mechanisms, were obtained, among which the piARGs encoding multidrug efflux pumps were the most dominant in the three bays. Secondly, XB had higher relative abundances of piARGs and pathogens than the other two bays, which posed higher potential health risk and implied the heavier impact of long-term maricultural activities in this bay. Thirdly, the co-occurrence network analysis identified that there were more connections between piARGs and some potential pathogenic bacteria. Several piARG subtypes (e.g., tetA, aacA, aacC, and aadK) distributed widely in the microbial communities. And finally, the microbial diversity correlated negatively with the relative abundance of piARGs. Oil, salinity, and arsenic had significant effects on the variations of piARGs and potential pathogenic bacteria. The abundance-weighted average ribosomal RNA operon (rrn) copy number of microbial communities could be regarded as an indicator to evaluate the antibiotic resistance status. In conclusion, this study provides a new insight on how to evaluate antibiotic resistance status and their potential risk in environment based on a quantitative analysis of microbial communities.
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Affiliation(s)
- Zhiguo Su
- College of Environmental Sciences and Engineering, Peking University, Beijing, China
| | - Bei Huang
- Zhejiang Provincial Zhoushan Marine Ecological Environmental Monitoring Station, Zhoushan, China
| | - Qinglin Mu
- Zhejiang Provincial Zhoushan Marine Ecological Environmental Monitoring Station, Zhoushan, China
| | - Donghui Wen
- College of Environmental Sciences and Engineering, Peking University, Beijing, China
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12
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Ouyang L, Chen H, Liu X, Wong MH, Xu F, Yang X, Xu W, Zeng Q, Wang W, Li S. Characteristics of spatial and seasonal bacterial community structures in a river under anthropogenic disturbances. ENVIRONMENTAL POLLUTION (BARKING, ESSEX : 1987) 2020; 264:114818. [PMID: 32559870 DOI: 10.1016/j.envpol.2020.114818] [Citation(s) in RCA: 31] [Impact Index Per Article: 7.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2020] [Revised: 04/16/2020] [Accepted: 05/13/2020] [Indexed: 06/11/2023]
Abstract
In this study, the seasonal characteristics of microbial community compositions at different sites in a river under anthropogenic disturbances (Maozhou River) were analyzed using Illumina HiSeq sequencing. Taxonomic analysis revealed that Proteobacteria was the most abundant phylum in all sites, followed by Actinobacteria, Bacteroidetes, Chloroflexi, Acidobacteria and Firmicutes. The variations of the community diversities and compositions between the seasons were not significant. However, significant differences between sites as well as water and sediment samples were observed. These results indicated that sites under different levels of anthropogenic disturbances have selected distinct bacterial communities. pH, dissolved oxygen (DO), concentrations of total nitrogen (TN) and heavy metals were the main factors that influence the diversity and the composition of bacterial community. Specifically, the relative abundance of Proteobacteria was negatively correlated with pH and DO and positively correlated with TN, while Actinobacteria and Verrucomicrobia showed the opposite pattern. Moreover, positive correlations between the relative abundances of Firmicutes and Bacteroidetes and the concentration of heavy metals were also found. Results of functional prediction analysis showed no significant differences of the carbon, nitrogen and phosphorus metabolism across the sites and seasons. Potential pathogens such as Vibrio, Arcobacter, Acinetobacter and Pseudomonas were found in these samples, which may pose potential risks for environment and human health. This study reveals the effect of anthropogenic activities on the riverine bacterial community compositions and provides new insights into the relationships between the environmental factors and the bacterial community distributions in a freshwater ecosystem under anthropogenic disturbances.
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Affiliation(s)
- Liao Ouyang
- College of Physics and Optoelectronic Engineering, Shenzhen University, Shenzhen, 518060, China; College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Huirong Chen
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Xinyue Liu
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Ming Hung Wong
- Consortium on Health, Environment, Education and Research (CHEER), The Education University of HongKong, Taipo, Hong Kong, China
| | - Fangfang Xu
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Xuewei Yang
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China
| | - Wang Xu
- Shenzhen Environmental Monitoring Center, Shenzhen, 518049, Guangdong, China
| | - Qinghuai Zeng
- Shenzhen Environmental Monitoring Center, Shenzhen, 518049, Guangdong, China
| | - Weimin Wang
- Shenzhen Environmental Monitoring Center, Shenzhen, 518049, Guangdong, China
| | - Shuangfei Li
- College of Life Sciences and Oceanography, Shenzhen University, Shenzhen, 518060, China.
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13
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Zhang B, Li Y, Xiang SZ, Yan Y, Yang R, Lin MP, Wang XM, Xue YL, Guan XY. Sediment Microbial Communities and Their Potential Role as Environmental Pollution Indicators in Xuande Atoll, South China Sea. Front Microbiol 2020; 11:1011. [PMID: 32523570 PMCID: PMC7261833 DOI: 10.3389/fmicb.2020.01011] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2019] [Accepted: 04/24/2020] [Indexed: 11/13/2022] Open
Abstract
In this study, 39 sediment samples were collected from Qilian Island, Iltis Bank, and Yongxing Island in Xuande Atoll in the South China Sea (SCS), and the microbial community structures and distribution were analyzed. The microbial community was influenced by both natural environmental factors and human activities. The abundance of genera Vibrio and Pseudoalteromonas, which are associated with pathogenicity and pollutant degradation, were significantly higher in Qilian Island than in Yongxing Island and Iltis Bank, suggesting possible contamination of Qilian Island area through human activities. Pathogenic or typical pollutants-degrading bacteria were found to be negatively correlated with most of the commonly occurring bacterial populations in marine sediment, and these bacteria were more likely to appear in the sediment of deep water layer. This co-occurrence pattern may be due to bacterial adaptation to environmental changes such as depth and contaminations from human activities, including garbage disposal, farming, and oil spills from ships. The findings of this study could help in understanding the potential influences of human activities on the ecosystem at the microbial level.
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Affiliation(s)
- Biao Zhang
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Yan Li
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Shi-Zheng Xiang
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Yu Yan
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Rui Yang
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Meng-Ping Lin
- School of Ocean Sciences, China University of Geosciences, Beijing, China
| | - Xue-Mu Wang
- Marine Geological Survey Institute of Hainan Province, Haikou, China
| | - Yu-Long Xue
- Marine Geological Survey Institute of Hainan Province, Haikou, China
| | - Xiang-Yu Guan
- School of Ocean Sciences, China University of Geosciences, Beijing, China.,Hebei Marine Resource Survey Center, Qinhuangdao, China
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14
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Lu XM, Lu PZ. Seasonal variations in antibiotic resistance genes in estuarine sediments and the driving mechanisms. JOURNAL OF HAZARDOUS MATERIALS 2020; 383:121164. [PMID: 31520936 DOI: 10.1016/j.jhazmat.2019.121164] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2019] [Revised: 08/19/2019] [Accepted: 09/04/2019] [Indexed: 06/10/2023]
Abstract
Estuary sediments are chemically contaminated by adjacent coastal industrial cities, but the impact of organic pollutants on antibiotic resistance genes (ARGs) in estuarine sediments is unknown. We comprehensively analyzed the complex interactions between chemical pollutants (heavy metals and organic pollutants), mobile genetic elements (MGEs), and ARGs in estuarine sediments during various seasons. The results indicate that under the effects of the chemically polluted river water, the number of different estuarine sediment ARGs increased by 76.9%-92.3% in summer and 5.9%-35.3% in winter, and the abundance of these ARGs increased by 29-5195 times in summer and 48-239 times in winter. The abundance of sediment ARGs in distinct estuaries showed different seasonal trends. Seasonal changes had a greater impact on the abundance of estuarine sediment ARGs than on their diversity. The diversity of estuarine sediment ARGs was positively correlated with the chemical pollution levels. Furthermore, chemical pollution was positively correlated with MGEs, and MGEs were correlated with ARG abundance. These results indicate that ARGs are enriched in bacteria via horizontal gene transfer triggered by chemical pollution, promoting multi-antibiotic resistance in estuarine sediment bacteria. These findings have implications for our understanding of the distribution and propagation of ARGs in chemically polluted estuarine sediments.
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Affiliation(s)
- Xiao-Ming Lu
- School of Ecological Environment and Urban Construction, Fujian University of Technology, Fuzhou 350118, China.
| | - Peng-Zhen Lu
- Faculty of Civil Engineering and Architecture, Zhejiang University of Technology, Hangzhou 310014, China
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15
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Lu XM, Peng X, Qin S, Xue F, Wu JN. Microbial community successional patterns in offshore sediments impacted by chemical pollution from Taizhou and Xiamen Cities in China. MARINE POLLUTION BULLETIN 2020; 150:110600. [PMID: 31669980 DOI: 10.1016/j.marpolbul.2019.110600] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/13/2019] [Revised: 09/12/2019] [Accepted: 09/12/2019] [Indexed: 06/10/2023]
Abstract
An Illumina-based next-generation sequencing was employed to characterise the sediment microbiome adjacent to coastal industrial and tourist cities, Taizhou and Xiamen, in China, and their associations with chemical pollution were explored. The results indicated that chemical pollution of sediments from Taizhou was higher than that from Xiamen. The number of sediment bacterial genera was negatively (Taizhou) or positively (Xiamen) correlated with offshore distance, owing to shifts in the primary and secondary status of organic matter and chemical pollutants for the promotion or inhibition of the sediment microbiome. The total number of the operational taxonomic units (OTUs) in sediments from Taizhou was larger than from Xiamen, while the number of core OTUs was smaller indicating that Taizhou had more impact on core microbes in sediments than Xiamen. This study suggests that chemical pollutants and organic matter result in different co-regulation of the off-shore sediment microbiome of coastal industrial and tourist cities.
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Affiliation(s)
- Xiao-Ming Lu
- School of Ecological Environment and Urban Construction, Fujian University of Technology, Fuzhou, 350118, China
| | - Xin Peng
- Marine Resources and Environment Research Center, Zhejiang Mariculture Research Institute, Wenzhou, 325005, China.
| | - Song Qin
- Marine Resources and Environment Research Center, Zhejiang Mariculture Research Institute, Wenzhou, 325005, China
| | - Feng Xue
- Marine Resources and Environment Research Center, Zhejiang Mariculture Research Institute, Wenzhou, 325005, China
| | - Jiang-Nan Wu
- School of Ecological Environment and Urban Construction, Fujian University of Technology, Fuzhou, 350118, China
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16
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Mai YZ, Lai ZN, Li XH, Peng SY, Wang C. Structural and functional shifts of bacterioplanktonic communities associated with spatiotemporal gradients in river outlets of the subtropical Pearl River Estuary, South China. MARINE POLLUTION BULLETIN 2018; 136:309-321. [PMID: 30509812 DOI: 10.1016/j.marpolbul.2018.09.013] [Citation(s) in RCA: 30] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/02/2018] [Revised: 09/07/2018] [Accepted: 09/08/2018] [Indexed: 06/09/2023]
Abstract
In this study, we used high-throughput sequencing of 16S rRNA gene amplicons, to investigate the spatio-temporal variation in bacterial communities in surface-waters collected from eight major outlets of the Pearl River Estuary, South China. Betaproteobacteria were the most abundant class among the communities, followed by Gammaproteobacteria, Alphaproteobacteria, Actinobacteria, and Acidimicrobiia. Generally, alpha-diversity increased in winter communities and the taxonomic diversity of bacterial communities differed with seasonal and spatial differences. Temperature, conductivity, salinity, pH and nutrients were the crucial environmental factors associated with shifts in the bacterial community composition. Furthermore, inferred community functions that were associated with amino acid, carbohydrate and energy metabolisms were lower in winter, whereas the relative abundance of inferred functions associated with membrane transport, bacterial motility proteins, and xenobiotics biodegradation and metabolism, were enriched in winter. These results provide new insights into the dynamics of bacterial communities within estuarine ecosystems.
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Affiliation(s)
- Yong-Zhan Mai
- Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China
| | - Zi-Ni Lai
- Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China.
| | - Xin-Hui Li
- Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China
| | - Song-Yao Peng
- Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China
| | - Chao Wang
- Pearl River Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510380, China
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17
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Peng W, Li X, Liu T, Liu Y, Ren J, Liang D, Fan W. Biostabilization of cadmium contaminated sediments using indigenous sulfate reducing bacteria: Efficiency and process. CHEMOSPHERE 2018; 201:697-707. [PMID: 29547858 DOI: 10.1016/j.chemosphere.2018.02.182] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/02/2017] [Revised: 02/01/2018] [Accepted: 02/28/2018] [Indexed: 06/08/2023]
Abstract
Sulfate reducing bacteria (SRB) was used to stabilize cadmium (Cd) in sediments spiked with Cd. The study found that the Cd in sediments (≤600 mg kg-1) was successfully stabilized after 166 d SRB bio-treatment. This was verified by directly and indirectly examining Cd speciation in sediments, mobilization index, and Cd content in interstitial water. After 166 d bio-treatment, compared with control groups, Cd concentrations in interstitial water of Cd-spiked sediments were reduced by 77.6-96.4%. The bioavailable fractions of Cd (e.g., exchangeable and carbonate bound phases) were reduced, while more stable fractions of Cd (e.g., Fe-Mn oxide, organic bound, and residual phases) were increased. However, Cd mobilization in sediment was observed during the first part of bio-treatment (32 d), leading to an increase of Cd concentrations in the overlying water. Bacterial community composition (e.g., richness, diversity, and typical SRB) played an important role in Cd mobilization, dissolution, and stabilization. Bacterial community richness and diversity, including the typical SRB (e.g., Desulfobacteraceae and Desulfobulbaceae), were enhanced. However, bacterial communities were also influenced by Cd content and its speciations (especially the exchangeable and carbonate bound phases) in sediments, as well as total organic carbon in overlying water.
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Affiliation(s)
- Weihua Peng
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Xiaomin Li
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Tong Liu
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Yingying Liu
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Jinqian Ren
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Dawei Liang
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China
| | - Wenhong Fan
- School of Space and Environment, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China; Beijing Advanced Innovation Center for Big Data-Based Precision Medicine, Beihang University, No. 37, XueYuan Road, HaiDian District, Beijing 100191, PR China.
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18
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Su Z, Dai T, Tang Y, Tao Y, Huang B, Mu Q, Wen D. Sediment bacterial community structures and their predicted functions implied the impacts from natural processes and anthropogenic activities in coastal area. MARINE POLLUTION BULLETIN 2018; 131:481-495. [PMID: 29886974 DOI: 10.1016/j.marpolbul.2018.04.052] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/06/2018] [Revised: 04/20/2018] [Accepted: 04/20/2018] [Indexed: 06/08/2023]
Abstract
Coastal ecosystem structures and functions are changing under natural and anthropogenic influences. In this study, surface sediment samples were collected from disturbed zone (DZ), near estuary zone (NEZ), and far estuary zone (FEZ) of Hangzhou Bay, one of the most seriously polluted bays in China. The bacterial community structures and predicted functions varied significantly in different zones. Firmicutes were found most abundantly in DZ, highlighting the impacts of anthropogenic activities. Sediment total phosphorus was most influential on the bacterial community structures. Predicted by PICRUSt analysis, DZ significantly exceeded FEZ and NEZ in the subcategory of Xenobiotics Biodegradation and Metabolism; and DZ enriched all the nitrate reduction related genes, except nrfA gene. Seawater salinity and inorganic nitrogen, respectively as the representative natural and anthropogenic factor, performed exact-oppositely in nitrogen metabolism functions. The changes of bacterial community compositions and predicted functions provide a new insight into human-induced pollution impacts on coastal ecosystem.
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Affiliation(s)
- Zhiguo Su
- College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China
| | - Tianjiao Dai
- College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China
| | - Yushi Tang
- College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China
| | - Yile Tao
- College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China
| | - Bei Huang
- Zhejiang Provincial Zhoushan Marine Ecological Environmental Monitoring Station, Zhoushan 316021, China
| | - Qinglin Mu
- Zhejiang Provincial Zhoushan Marine Ecological Environmental Monitoring Station, Zhoushan 316021, China
| | - Donghui Wen
- College of Environmental Sciences and Engineering, Peking University, Beijing 100871, China.
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19
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Lv B, Cui Y, Tian W, Feng D. Composition and influencing factors of bacterial communities in ballast tank sediments: Implications for ballast water and sediment management. MARINE ENVIRONMENTAL RESEARCH 2017; 132:14-22. [PMID: 29046225 DOI: 10.1016/j.marenvres.2017.10.005] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/26/2017] [Revised: 10/08/2017] [Accepted: 10/08/2017] [Indexed: 06/07/2023]
Abstract
This study aims to reveal the composition and influencing factors of bacterial communities in ballast tank sediments. Nine samples were collected and their 16S rRNA gene sequences were analyzed by high-throughput sequencing. The analysis results showed the Shannon index in ballast tank sediments was in the range of 5.27-6.35, which was significantly higher than that in ballast water. Acidobacteria, Actinobacteria, Bacteroidetes, Chloroflexi and Proteobacteria were the dominant phyla and accounted for approximately 80% of all 16S rRNA gene sequences of the samples. Besides, the high contents of sulfate reducing bacteria (SRB) and sulfur oxidizing bacteria were detected in sediments, indicating that the corrosion of metal caused by SRB might occur in ballast tank. In addition, the trace of human fecal bacteria and candidate pathogens were also detected in ballast tank sediments, and these undesirable microbes reduced the effect of ballast water exchange. Furthermore, C and N had significant effects on the bacterial community composition in ballast tank sediments. In conclusion, our findings suggest that the proper management and disposal of the ballast tank sediments should be considered in order to reduce the negative impact and ecological risks related to ballast water and sediments.
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Affiliation(s)
- Baoyi Lv
- College of Ocean Science and Engineering, Shanghai Maritime University, Shanghai 201306, China.
| | - Yuxue Cui
- Shanghai Key Lab for Urban Ecological Processes and Eco-Restoration, East China Normal University, Shanghai 200241, China
| | - Wen Tian
- Jiangyin Entry-Exit Inspection and Quarantine Bureau, Jiangyin 214442, China
| | - Daolun Feng
- College of Ocean Science and Engineering, Shanghai Maritime University, Shanghai 201306, China
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20
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Zhou Z, Meng H, Liu Y, Gu JD, Li M. Stratified Bacterial and Archaeal Community in Mangrove and Intertidal Wetland Mudflats Revealed by High Throughput 16S rRNA Gene Sequencing. Front Microbiol 2017; 8:2148. [PMID: 29163432 PMCID: PMC5673634 DOI: 10.3389/fmicb.2017.02148] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2017] [Accepted: 10/20/2017] [Indexed: 12/02/2022] Open
Abstract
The stratified distribution of bacterial and archaeal communities has been detected in many sediment profiles from various natural environments. A better understanding of microbial composition and diversity pattern in coastal mangrove wetlands in relation to physicochemical and spatial-temporal influences could provide more insights into the ecological functions of microbes in coastal wetlands. In this study, seasonal variations of microbial communities within sediment profiles from two sediment types (mangrove forest and intertidal mudflats) at three sampling locations in coastal Mai Po wetland were characterized using MiSeq high throughput sequencing and 16S rRNA quantitative PCR methods. Bacterial 16S rRNA gene abundance showed clear decreasing trends with increasing depth for all sites, seasonality and sediment types. There is a weak seasonal dynamic of bacterial and archaeal community abundance in both seasons. Seasonality imposed more influence on the beta diversity pattern of bacterial community than archaeal community. The five most abundant phyla within bacterial and archaeal community remain stable between two distinctive seasons. Sediment depth and seasonality are the most influential factors affecting bacterial community composition and diversity. The pH is the most influential factor on shaping the archaeal community. Stratified distribution of bacterial community including aerobic and anaerobic bacterial taxa is largely represented in the surface layers and the subsurface layers, respectively. For archaeal stratification, Thaumarchaeota Marine Group I is the dominant member in surface sediments while Bathyarchaeota and MBG-B dominate in subsurface sediments. Such stratified distribution patterns are irrespective of sediment types, sampling locations or seasonality, but significantly correlated to the sediment depth, which might be shaped by oxygen availability and the distribution of other terminal electron accepters along the depth profile.
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Affiliation(s)
- Zhichao Zhou
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong
| | - Han Meng
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong
| | - Yang Liu
- Institute for Advanced Study, Shenzhen University, Shenzhen, China
| | - Ji-Dong Gu
- Laboratory of Environmental Microbiology and Toxicology, School of Biological Sciences, University of Hong Kong, Pokfulam, Hong Kong
| | - Meng Li
- Institute for Advanced Study, Shenzhen University, Shenzhen, China
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