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Mykrä H, Aroviita J, Tolonen K, Turunen J, Weckström K, Weckström J, Hellsten S. Detecting mining impacts on freshwater ecosystems using replicated sampling before and after the impact. ENVIRONMENTAL MONITORING AND ASSESSMENT 2024; 196:635. [PMID: 38900337 PMCID: PMC11190011 DOI: 10.1007/s10661-024-12812-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/30/2024] [Accepted: 06/11/2024] [Indexed: 06/21/2024]
Abstract
Detecting human impact on freshwater ecosystems is problematic without rigorous assessment of temporal changes. Assessments of mining impacts are further complicated by the strong influence of local catchment geology on surface waters even in unmined environments. Such influence cannot be effectively considered by using broad-scale reference frameworks based on regionalization and stream types. Using the BACI (Before-After Control-Impact) design, we examined the impact of mining discharges on freshwater algae and macroinvertebrate communities resulting from the rerouting of treated wastewaters through a pipeline to larger water bodies in Northern and North-Eastern Finland. Impacted sites and control sites were sampled 1 to 2 years before and 1 to 3 years after the pipelines became operational. Stream diatom communities recovered from past loadings upstream of the pipeline (which was no longer impacted by wastewaters) after rerouting of the wastewaters, while no changes downstream from the pipeline were detected. Upstream from the pipeline, diatom species richness increased and changes in relative abundances of the most common diatom taxa as well as in the overall community composition were observed. The effects of the pipeline were less evident for stream macroinvertebrate communities. There was an indication that regional reference conditions used in national biomonitoring may not represent diatom communities in areas with a strong geochemical background influence. Lake profundal macroinvertebrate communities were impacted by past loadings before the construction of the pipeline, and the influence of the pipeline was observed only as changes in the abundances of a few individual species such as phantom midges (which increased in abundance in response to discharges directed through the pipeline). Our results highlight the variable influence of mining discharges on aquatic communities. Statistically strong monitoring programmes, such as BACI designs, are clearly needed to detect these influences.
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Affiliation(s)
- Heikki Mykrä
- Finnish Environment Institute, Nature Solutions, P.O. Box 413, 90014, Oulu, FI, Finland.
| | - Jukka Aroviita
- Finnish Environment Institute, Marine and Freshwater Solutions, P.O. Box 413, 90014, Oulu, FI, Finland
| | - Kimmo Tolonen
- Finnish Environment Institute, Nature Solutions, P.O. Box 413, 90014, Oulu, FI, Finland
| | - Jarno Turunen
- Finnish Environment Institute, Marine and Freshwater Solutions, P.O. Box 413, 90014, Oulu, FI, Finland
| | - Kaarina Weckström
- University of Helsinki, Ecosystems and Environment Research Programme, and Helsinki Institute of Sustainability Science (HELSUS), (Viikinkaari 1), P.O. Box 65, 00014, Helsinki, FI, Finland
| | - Jan Weckström
- University of Helsinki, Ecosystems and Environment Research Programme, and Helsinki Institute of Sustainability Science (HELSUS), (Viikinkaari 1), P.O. Box 65, 00014, Helsinki, FI, Finland
| | - Seppo Hellsten
- Finnish Environment Institute, Marine and Freshwater Solutions, P.O. Box 413, 90014, Oulu, FI, Finland
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2
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Ning D, Wang Y, Fan Y, Wang J, Van Nostrand JD, Wu L, Zhang P, Curtis DJ, Tian R, Lui L, Hazen TC, Alm EJ, Fields MW, Poole F, Adams MWW, Chakraborty R, Stahl DA, Adams PD, Arkin AP, He Z, Zhou J. Environmental stress mediates groundwater microbial community assembly. Nat Microbiol 2024; 9:490-501. [PMID: 38212658 DOI: 10.1038/s41564-023-01573-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2023] [Accepted: 11/28/2023] [Indexed: 01/13/2024]
Abstract
Community assembly describes how different ecological processes shape microbial community composition and structure. How environmental factors impact community assembly remains elusive. Here we sampled microbial communities and >200 biogeochemical variables in groundwater at the Oak Ridge Field Research Center, a former nuclear waste disposal site, and developed a theoretical framework to conceptualize the relationships between community assembly processes and environmental stresses. We found that stochastic assembly processes were critical (>60% on average) in shaping community structure, but their relative importance decreased as stress increased. Dispersal limitation and 'drift' related to random birth and death had negative correlations with stresses, whereas the selection processes leading to dissimilar communities increased with stresses, primarily related to pH, cobalt and molybdenum. Assembly mechanisms also varied greatly among different phylogenetic groups. Our findings highlight the importance of microbial dispersal limitation and environmental heterogeneity in ecosystem restoration and management.
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Affiliation(s)
- Daliang Ning
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA
| | - Yajiao Wang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA
| | - Yupeng Fan
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA
| | - Jianjun Wang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, China
| | - Joy D Van Nostrand
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
| | - Liyou Wu
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA
| | - Ping Zhang
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- Alkek Center for Metagenomics and Microbiome Research, Department of Molecular Virology and Microbiology, Baylor College of Medicine, Houston, TX, USA
| | - Daniel J Curtis
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
| | - Renmao Tian
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- Institute for Food Safety and Health, Illinois Institute of Technology, Bedford Park, IL, USA
| | - Lauren Lui
- Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - Terry C Hazen
- Department of Earth and Planetary Sciences, Bredesen Center, Department of Civil and Environmental Sciences, Center for Environmental Biotechnology, and Institute for a Secure and Sustainable Environment, University of Tennessee, Knoxville, TN, USA
- Biosciences Division, Oak Ridge National Laboratory, Oak Ridge, TN, USA
- Department of Bioengineering, University of California, Berkeley, CA, USA
| | - Eric J Alm
- Department of Biological Engineering, Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA, USA
| | - Matthew W Fields
- Center for Biofilm Engineering and Department of Microbiology and Cell Biology, Montana State University, Bozeman, MT, USA
| | - Farris Poole
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, USA
| | - Michael W W Adams
- Department of Biochemistry and Molecular Biology, University of Georgia, Athens, GA, USA
| | - Romy Chakraborty
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
| | - David A Stahl
- Department of Civil and Environmental Engineering, University of Washington, Seattle, WA, USA
| | - Paul D Adams
- Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
- Department of Bioengineering, University of California, Berkeley, CA, USA
| | - Adam P Arkin
- Division of Environmental Genomics and Systems Biology, Lawrence Berkeley National Laboratory, Berkeley, CA, USA
- Department of Bioengineering, University of California, Berkeley, CA, USA
| | - Zhili He
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA
- Southern Marine Science and Engineering Guangdong Laboratory, Zhuhai, China
| | - Jizhong Zhou
- Institute for Environmental Genomics, University of Oklahoma, Norman, OK, USA.
- School of Biological Sciences, University of Oklahoma, Norman, OK, USA.
- Earth and Environmental Sciences, Lawrence Berkeley National Laboratory, Berkeley, CA, USA.
- School of Civil Engineering and Environmental Sciences, University of Oklahoma, Norman, OK, USA.
- School of Computer Science, University of Oklahoma, Norman, OK, USA.
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3
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Selvarajan R, Sibanda T, Ullah H, Abia ALK. Beach sand mycobiome: The silent threat of pathogenic fungi and toxic metal contamination for beachgoers. MARINE POLLUTION BULLETIN 2024; 198:115895. [PMID: 38101061 DOI: 10.1016/j.marpolbul.2023.115895] [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: 10/23/2023] [Revised: 11/17/2023] [Accepted: 12/02/2023] [Indexed: 12/17/2023]
Abstract
Emphasis is always placed on bacterial but not fungal pathogens in marine environments. We analysed the fungal diversity, functional predictions, and toxic metals and metalloids contamination in beach sand from different South African locations. Results revealed a diverse fungal community, with Ascomycota, Rozellomycota, and Basidiomycota being the dominant phyla. Functional predictions highlighted fungal metabolic pathways related to of carbohydrates, amino acids, and lipids, in different beach samples. Elevated concentrations of toxic metals and metalloids were detected in Central and Harbour beach sands, likely due to anthropogenic activities. Correlations among different elements were observed, suggesting complex interactions in the coastal environment. Fungal pathogens like Cladosporium, Fusarium, Aspergillus, and Candida in beach sands raise potential public health risk concerns. Therefore, monitoring fungal diversity (including pathogens) alongside bacterial contamination in beach environments is imperative. The results contribute to understanding fungal community dynamics, functional potential, toxic metal and metalloid contamination, and potential risks associated with beach sand ecosystems.
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Affiliation(s)
- Ramganesh Selvarajan
- Institute of Deep Sea Science and Engineering (IDSSE), Chinese Academy of Sciences (CAS), Sanya, China; Department of Environmental Sciences, College of Agriculture and Environmental Sciences, University of South Africa, Florida Campus, South Africa.
| | - Timothy Sibanda
- School of Molecular and Cell Biology, Faculty of Science, University of the Witwatersrand, Private Bag 3, Wits 2050, Johannesburg, South Africa
| | - Habib Ullah
- Institute of Deep Sea Science and Engineering (IDSSE), Chinese Academy of Sciences (CAS), Sanya, China
| | - Akebe Luther King Abia
- Antimicrobial Research Unit, College of Health Sciences, University of KwaZulu-Natal, Durban, South Africa; Environmental Research Foundation, Westville 3630, South Africa.
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Xu H, You C, Tan B, Xu L, Liu Y, Wang M, Xu Z, Sardans J, Peñuelas J. Effects of livestock grazing on the relationships between soil microbial community and soil carbon in grassland ecosystems. THE SCIENCE OF THE TOTAL ENVIRONMENT 2023; 881:163416. [PMID: 37059137 DOI: 10.1016/j.scitotenv.2023.163416] [Citation(s) in RCA: 2] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/11/2023] [Revised: 03/23/2023] [Accepted: 04/06/2023] [Indexed: 06/01/2023]
Abstract
Livestock grazing of grassland ecosystems may induce shifts in microbe community traits and soil carbon (C) cycling; however, impacts of grassland management (grazing) on soil C- microbe community trait (microbial biomass, diversity, community structure, and enzyme activity) relationships are unclear. To address this, we conducted a global meta-analysis of 95 articles of livestock grazing studies that vary in grazing intensities (light, moderate, and high) and durations (<5 years, 5-10 years, and > 10 years). We found that gazing decreased soil organic carbon content (SOC; 10.1 %), and activities of the enzymes of saccharase (SA; 31.1 %), urease (UA; 7.0 %), and acid phosphatase (11.9 %) in topsoil. Meanwhile, the SOC, soil microbial biomass and enzyme activities consistently decreased as grazing intensity and duration prolonged. Furthermore, we observed strong linear relationships of microbe community traits with SOC (p < 0.05), but weak relationships with soil N or P (p > 0.05) in grasslands, which also depends on the grazing intensity and duration. In conclusion, our results indicate that traits of soil carbon content, soil microbe community, and in particular their relationships in global grasslands are overall significantly affected by livestock grazing, but the effects strongly depend on the grazing intensity and duration.
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Affiliation(s)
- Hongwei Xu
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
| | - Chengming You
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
| | - Bo Tan
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
| | - Lin Xu
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
| | - Yang Liu
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China
| | - Minggang Wang
- The Key Laboratory for Silviculture and Conservation of Ministry of Education, College of Forestry, Beijing Forestry University, Beijing, China.
| | - Zhenfeng Xu
- National Forestry and Grassland Administration Key Laboratory of Forest Resources Conservation and Ecological Safety on the Upper Reaches of the Yangtze River & Forestry Ecological Engineering in the Upper Reaches of the Yangtze River Key Laboratory of Sichuan Province, Sichuan Agricultural University, Chengdu 611130, China.
| | - Jordi Sardans
- CSIC, Global Ecology Unit CREAF-CSIC-UAB, 08913 Bellaterra, Catalonia, Spain; CREAF, 08913 Cerdanyola del Vallès, Catalonia, Spain; Nonlinear Analysis and Applied Mathematics (NAAM)-Research Group, Department of Mathematics, Faculty of Science, King Abdulaziz University, P.O. Box 80257, Jeddah 21589, Saudi Arabia
| | - Josep Peñuelas
- CREAF, 08913 Cerdanyola del Vallès, Catalonia, Spain; Nonlinear Analysis and Applied Mathematics (NAAM)-Research Group, Department of Mathematics, Faculty of Science, King Abdulaziz University, P.O. Box 80257, Jeddah 21589, Saudi Arabia
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5
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Barreto GG, Hepp LU, Rezende RDS, Gonçalves Junior JF, Moretti MDS, Moretto Y, Loureiro RC, Restello RM, Medeiros AO. The cooler the better: Increased aquatic hyphomycete diversity in subtropical streams along a neotropical latitudinal gradient. FUNGAL ECOL 2023. [DOI: 10.1016/j.funeco.2022.101223] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
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6
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Wang Z, Cébron A, Baillard V, Danger M. Nitrogen to phosphorus ratio shapes the bacterial communities involved in cellulose decomposition and copper contamination alters their stoichiometric demands. FEMS Microbiol Ecol 2022; 98:6696375. [PMID: 36095133 DOI: 10.1093/femsec/fiac107] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2022] [Revised: 08/09/2022] [Accepted: 09/09/2022] [Indexed: 12/14/2022] Open
Abstract
All living organisms theoretically have an optimal stoichiometric nitrogen: phosphorus (N: P) ratio, below and beyond which their growth is affected, but data remain scarce for microbial decomposers. Here, we evaluated optimal N: P ratios of microbial communities involved in cellulose decomposition and assessed their stability when exposed to copper Cu(II). We hypothesized that (1) cellulose decomposition is maximized for an optimal N: P ratio; (2) copper exposure reduces cellulose decomposition and (3) increases microbial optimal N: P ratio; and (4) N: P ratio and copper modify the structure of microbial decomposer communities. We measured cellulose disc decomposition by a natural inoculum in microcosms exposed to a gradient of N: P ratios at three copper concentrations (0, 1 and 15 µM). Bacteria were most probably the main decomposers. Without copper, cellulose decomposition was maximized at an N: P molar ratio of 4.7. Contrary to expectations, at high copper concentration, the optimal N: P ratio (2.8) and the range of N: P ratios allowing decomposition were significantly reduced and accompanied by a reduction of bacterial diversity. Copper contamination led to the development of tolerant taxa probably less efficient in decomposing cellulose. Our results shed new light on the understanding of multiple stressor effects on microbial decomposition in an increasingly stoichiometrically imbalanced world.
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Affiliation(s)
- Ziming Wang
- Université de Lorraine, CNRS, LIEC, F-57000, Metz, France
| | - Aurélie Cébron
- Université de Lorraine, CNRS, LIEC, F-54000, Nancy, France
| | | | - Michael Danger
- Université de Lorraine, CNRS, LIEC, F-57000, Metz, France.,Institut Universitaire de France (IUF), F-75000, Paris, France
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7
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Mobile generalist species dominate the food web succession in a closed ecological system, Chenghai Lake, China. Glob Ecol Conserv 2022. [DOI: 10.1016/j.gecco.2022.e02122] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022] Open
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8
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Hu L, Li Q, Yan J, Liu C, Zhong J. Vegetation restoration facilitates belowground microbial network complexity and recalcitrant soil organic carbon storage in southwest China karst region. THE SCIENCE OF THE TOTAL ENVIRONMENT 2022; 820:153137. [PMID: 35041964 DOI: 10.1016/j.scitotenv.2022.153137] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/07/2021] [Revised: 01/11/2022] [Accepted: 01/11/2022] [Indexed: 05/16/2023]
Abstract
Soil organic carbon (SOC) is an important component of soil ecosystems, and soils are a hotbed of microorganisms playing critical roles in soil functions and ecosystem services. Understanding the interaction between SOC and soil microbial community is of paramount significance in predicting the C fate in soils following vegetation restoration. In this study, high-throughput sequencing of 16S rRNA and ITS genes combined with 13C NMR spectroscopy analysis were applied to characterize SOC chemical compounds and elucidate associated soil microbial community. Our results indicated that the contents of SOC, total nitrogen, total phosphorus, microbial biomass carbon and biomass nitrogen, dissolved organic carbon, available potassium, exchangeable calcium and soil moisture increased significantly (P < 0.05) along with the vegetation restoration processes from corn land, grassland, shrub land, to secondary and primary forests. Moreover, the Alkyl C and O-alkyl C abundance increased with vegetation recovery, but no significant differences of Alkyl C were observed in different successional stages. In contrast, the relative abundance of Methoxyl C showed an opposite trend. The dominate phyla Proteobacteria, Acidobacteria, Actinobacteria, Ascomycota and Basidiomycota were strongly related to SOC. And, SOC was found to be the determining factor shaping soil bacterial and fungal communities in vegetation restoration processes. The complexity of soil bacteria and fungi interactions along the vegetation restoration chronosequence increased. Determinism was the major assembly mechanism of bacterial community while stochasticity dominated the assembly of fungal community. Bryobacter, Haliangium, and MND1 were identified as keystone genera in co-occurrence network. Besides, the dominant functional groups across all vegetation restoration processes were mainly involved in soil C and N cycles and linked to the enhanced recalcitrant SOC storage. Our results provide invaluable reference to advance the understanding of microbe response to vegetation restoration processes and highlight the impact of microbes on recalcitrant SOC storage.
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Affiliation(s)
- Linan Hu
- Institute of Groundwater and Earth Sciences, Jinan University, Guangzhou 510632, China; Key Laboratory of Karst Dynamics, MNR & GZAR, Institute of Karst Geology, Chinese Academy of Geological Sciences, Guilin 541004, China; International Research Center on Karst under the Auspices of UNESCO, Guilin 541004, China
| | - Qiang Li
- Key Laboratory of Karst Dynamics, MNR & GZAR, Institute of Karst Geology, Chinese Academy of Geological Sciences, Guilin 541004, China; International Research Center on Karst under the Auspices of UNESCO, Guilin 541004, China.
| | - Jiahui Yan
- Key Laboratory of Karst Dynamics, MNR & GZAR, Institute of Karst Geology, Chinese Academy of Geological Sciences, Guilin 541004, China; International Research Center on Karst under the Auspices of UNESCO, Guilin 541004, China
| | - Chun Liu
- Institute of Groundwater and Earth Sciences, Jinan University, Guangzhou 510632, China; Department of Ecology, Jinan University, Guangzhou 510632, China.
| | - Juxin Zhong
- Key Laboratory of Karst Dynamics, MNR & GZAR, Institute of Karst Geology, Chinese Academy of Geological Sciences, Guilin 541004, China; International Research Center on Karst under the Auspices of UNESCO, Guilin 541004, China
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Sagova-Mareckova M, Boenigk J, Bouchez A, Cermakova K, Chonova T, Cordier T, Eisendle U, Elersek T, Fazi S, Fleituch T, Frühe L, Gajdosova M, Graupner N, Haegerbaeumer A, Kelly AM, Kopecky J, Leese F, Nõges P, Orlic S, Panksep K, Pawlowski J, Petrusek A, Piggott JJ, Rusch JC, Salis R, Schenk J, Simek K, Stovicek A, Strand DA, Vasquez MI, Vrålstad T, Zlatkovic S, Zupancic M, Stoeck T. Expanding ecological assessment by integrating microorganisms into routine freshwater biomonitoring. WATER RESEARCH 2021; 191:116767. [PMID: 33418487 DOI: 10.1016/j.watres.2020.116767] [Citation(s) in RCA: 58] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/27/2020] [Revised: 12/14/2020] [Accepted: 12/19/2020] [Indexed: 06/12/2023]
Abstract
Bioindication has become an indispensable part of water quality monitoring in most countries of the world, with the presence and abundance of bioindicator taxa, mostly multicellular eukaryotes, used for biotic indices. In contrast, microbes (bacteria, archaea and protists) are seldom used as bioindicators in routine assessments, although they have been recognized for their importance in environmental processes. Recently, the use of molecular methods has revealed unexpected diversity within known functional groups and novel metabolic pathways that are particularly important in energy and nutrient cycling. In various habitats, microbial communities respond to eutrophication, metals, and natural or anthropogenic organic pollutants through changes in diversity and function. In this review, we evaluated the common trends in these changes, documenting that they have value as bioindicators and can be used not only for monitoring but also for improving our understanding of the major processes in lotic and lentic environments. Current knowledge provides a solid foundation for exploiting microbial taxa, community structures and diversity, as well as functional genes, in novel monitoring programs. These microbial community measures can also be combined into biotic indices, improving the resolution of individual bioindicators. Here, we assess particular molecular approaches complemented by advanced bioinformatic analysis, as these are the most promising with respect to detailed bioindication value. We conclude that microbial community dynamics are a missing link important for our understanding of rapid changes in the structure and function of aquatic ecosystems, and should be addressed in the future environmental monitoring of freshwater ecosystems.
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Affiliation(s)
- M Sagova-Mareckova
- Dept. of Microbiology, Nutrition and Dietetics, Czech University of Life Sciences, Kamýcká 129, Prague 6, 16500, Czechia.
| | - J Boenigk
- Biodiversity, University of Duisburg-Essen, Universitaetsstraße 5, 45141 Essen, Germany
| | - A Bouchez
- UMR CARRTEL, INRAE, UMR Carrtel, 75 av. de Corzent, FR-74203 Thonon les Bains cedex, France; University Savoie Mont-Blanc, UMR CARRTEL, FR-73370 Le Bourget du Lac, France
| | - K Cermakova
- ID-Gene Ecodiagnostics, Campus Biotech Innovation Park, 15, av. Sécheron, 1202 Geneva, Switzerland
| | - T Chonova
- UMR CARRTEL, INRAE, UMR Carrtel, 75 av. de Corzent, FR-74203 Thonon les Bains cedex, France; University Savoie Mont-Blanc, UMR CARRTEL, FR-73370 Le Bourget du Lac, France
| | - T Cordier
- Department of Genetics and Evolution, University of Geneva, Science III, 4 Boulevard d'Yvoy, 1205 Geneva, Switzerland
| | - U Eisendle
- University of Salzburg, Hellbrunnerstraße 34, 5020 Salzburg, Austria
| | - T Elersek
- National Institute of Biology, Vecna pot 111, SI-1000 Ljubljana, Slovenia
| | - S Fazi
- Water Research Institute, National Research Council of Italy (IRSA-CNR), Via Salaria km 29,300 - C.P. 10, 00015 Monterotondo St., Rome, Italy
| | - T Fleituch
- Institute of Nature Conservation, Polish Academy of Sciences, ul. Adama Mickiewicza 33, 31-120 Krakow, Poland
| | - L Frühe
- Ecology Group, Technische Universität Kaiserslautern, D-67663 Kaiserslautern, Germany
| | - M Gajdosova
- Dept. of Ecology, Faculty of Science, Charles University, Viničná 7, 12844 Prague, Czechia
| | - N Graupner
- Biodiversity, University of Duisburg-Essen, Universitaetsstraße 5, 45141 Essen, Germany
| | - A Haegerbaeumer
- Dept. of Animal Ecology, Bielefeld University, Konsequenz 45, 33615 Bielefeld, Germany
| | - A-M Kelly
- School of Natural Sciences, Trinity College Dublin, University of Dublin, College Green, Dublin 2, D02 PN40, Ireland
| | - J Kopecky
- Epidemiology and Ecology of Microoganisms, Crop Research Institute, Drnovská 507, 16106 Prague 6, Czechia
| | - F Leese
- Biodiversity, University of Duisburg-Essen, Universitaetsstraße 5, 45141 Essen, Germany; Aquatic Ecosystem Resarch, University of Duisburg-Essen, Universitaetsstrasse 5 D-45141 Essen, Germany
| | - P Nõges
- Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Kreutzwaldi 5, Tartu 51006, Estonia
| | - S Orlic
- Institute Ruđer Bošković, Bijenička 54, 10000 Zagreb, Croatia; Center of Excellence for Science and Technology Integrating Mediterranean, Bijenička 54,10 000 Zagreb, Croatia
| | - K Panksep
- Institute of Agricultural and Environmental Sciences, Estonian University of Life Sciences, Kreutzwaldi 5, Tartu 51006, Estonia
| | - J Pawlowski
- ID-Gene Ecodiagnostics, Campus Biotech Innovation Park, 15, av. Sécheron, 1202 Geneva, Switzerland; Department of Genetics and Evolution, University of Geneva, Science III, 4 Boulevard d'Yvoy, 1205 Geneva, Switzerland; Institute of Oceanology, Polish Academy of Sciences, Powstańców Warszawy 55, 81-712 Sopot, Poland
| | - A Petrusek
- Dept. of Ecology, Faculty of Science, Charles University, Viničná 7, 12844 Prague, Czechia
| | - J J Piggott
- School of Natural Sciences, Trinity College Dublin, University of Dublin, College Green, Dublin 2, D02 PN40, Ireland
| | - J C Rusch
- Norwegian Veterinary Institute, P.O. Box 750, Sentrum, NO-0106 Oslo, Norway; Department of Biosciences, University of Oslo, P.O. Box 1066, Blindern, NO-0316 Oslo, Norway
| | - R Salis
- Department of Biology, Faculty of Science, Lund University, Sölvegatan 37, 223 62 Lund, Sweden
| | - J Schenk
- Dept. of Animal Ecology, Bielefeld University, Konsequenz 45, 33615 Bielefeld, Germany
| | - K Simek
- Institute of Hydrobiology, Biology Centre CAS, Branišovská 31, 370 05 České Budějovice, Czechia
| | - A Stovicek
- Dept. of Microbiology, Nutrition and Dietetics, Czech University of Life Sciences, Kamýcká 129, Prague 6, 16500, Czechia
| | - D A Strand
- Norwegian Veterinary Institute, P.O. Box 750, Sentrum, NO-0106 Oslo, Norway
| | - M I Vasquez
- Department of Chemical Engineering, Cyprus University of Technology, 30 Arch. Kyprianos Str., 3036 Limassol, Cyprus
| | - T Vrålstad
- Norwegian Veterinary Institute, P.O. Box 750, Sentrum, NO-0106 Oslo, Norway
| | - S Zlatkovic
- Ministry of Environmental Protection, Omladinskih brigada 1, 11070 Belgrade, Serbia; Agency "Akvatorija", 11. krajiške divizije 49, 11090 Belgrade, Serbia
| | - M Zupancic
- National Institute of Biology, Vecna pot 111, SI-1000 Ljubljana, Slovenia
| | - T Stoeck
- Ecology Group, Technische Universität Kaiserslautern, D-67663 Kaiserslautern, Germany
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Kuglerová L, Hasselquist EM, Sponseller RA, Muotka T, Hallsby G, Laudon H. Multiple stressors in small streams in the forestry context of Fennoscandia: The effects in time and space. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 756:143521. [PMID: 33243494 DOI: 10.1016/j.scitotenv.2020.143521] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2020] [Revised: 09/29/2020] [Accepted: 10/19/2020] [Indexed: 06/11/2023]
Abstract
In this paper we describe how forest management practices in Fennoscandian countries, namely Sweden and Finland, expose streams to multiple stressors over space and time. In this region, forestry includes several different management actions and we explore how these may successively disturb the same location over 60-100 year long rotation periods. Of these actions, final harvest and associated road construction, soil scarification, and/or ditch network maintenance are the most obvious sources of stressors to aquatic ecosystems. Yet, more subtle actions such as planting, thinning of competing saplings and trees, and removing logging residues also represent disturbances around waterways in these landscapes. We review literature about how these different forestry practices may introduce a combination of physicochemical stressors, including hydrological change, increased sediment transport, altered thermal and light regimes, and water quality deterioration. We further elaborate on how the single stressors may combine and interact and we consequently hypothesise how these interactions may affect aquatic communities and processes. Because production forestry is practiced on a large area in both countries, the various stressors appear multiple times during the rotation cycles and potentially affect the majority of the stream network length within most catchments. We concluded that forestry practices have traditionally not been the focus of multiple stressor studies and should be investigated further in both observational and experimental fashion. Stressors accumulate across time and space in forestry dominated landscapes, and may interact in unpredictable ways, limiting our current understanding of what forested stream networks are exposed to and how we can design and apply best management practices.
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Affiliation(s)
- Lenka Kuglerová
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden.
| | - Eliza Maher Hasselquist
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden; Water Quality Impacts Unit, Natural Resources Institute Finland, Helsinki, Finland
| | | | - Timo Muotka
- Ecology and Genetics Research Unit, University of Oulu, Oulu, Finland; Finnish Environment Institute, Freshwater Centre, Oulu, Finland
| | - Göran Hallsby
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
| | - Hjalmar Laudon
- Department of Forest Ecology and Management, Swedish University of Agricultural Sciences, Umeå, Sweden
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11
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Mykrä H, Kuoppala M, Nykänen V, Tolonen K, Turunen J, Vilmi A, Karjalainen SM. Assessing mining impacts: The influence of background geochemical conditions on diatom and macroinvertebrate communities in subarctic streams. JOURNAL OF ENVIRONMENTAL MANAGEMENT 2021; 278:111532. [PMID: 33130404 DOI: 10.1016/j.jenvman.2020.111532] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2019] [Revised: 08/16/2020] [Accepted: 10/19/2020] [Indexed: 06/11/2023]
Abstract
Mining has changed landscapes locally in northern Fennoscandia and there is an increasing pressure for exploitation of the remaining mineral deposits of the region. Mineral deposits, even if unmined, can strongly influence stream water chemistry, stream biological communities and the ability of organisms to tolerate stressors. Using data sampled from six mining areas with three active (gold and chrome), two closed (gold) and one planned mine (phosphate), we examined how mineral deposits and mining influence water chemistry and diatom and macroinvertebrate communities in subarctic streams in Finnish Lapland. We supplemented the data by additional samples compiled from databases and further assessed how variation in background geological conditions influences bioassessments of the impacts arising from mining. We found that water specific conductivity was elevated in our study streams draining through catchments with a high mineral potential. Mining effects were mainly seen as increased concentration of nitrogen. Influence of mineral deposits was detected in composition of diatom and macroinvertebrate communities, but communities in streams in areas with a high mineral potential were as diverse as those in streams in areas with a low mineral potential. Mining impacts were better detected for diatoms using a reference condition based on sites with a high than low mineral potential, while for macroinvertebrates, the responses were generally less evident, likely because of only minor effects of mining on water chemistry. Community composition and frequencies of occurrence of macroinvertebrate taxa were, however, highly similar between mine-influenced streams and reference streams with a high potential for minerals indicating that the communities are strongly structured by the natural influence of mineral deposits. Incorporating geochemistry into the reference condition would likely improve bioassessments of both taxonomic groups. Replicated monitoring in potentially impacted sites and reference sites would be the most efficient framework for detecting environmental impacts in streams draining through mineral-rich catchments.
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Affiliation(s)
- Heikki Mykrä
- Finnish Environment Institute, Freshwater Centre, P.O. Box 413, FI-90014, Oulu, Finland.
| | - Minna Kuoppala
- Finnish Environment Institute, Freshwater Centre, P.O. Box 413, FI-90014, Oulu, Finland
| | - Vesa Nykänen
- Geological Survey of Finland, P.O. Box 77, FI-96101, Rovaniemi, Finland
| | - Katri Tolonen
- Finnish Environment Institute, Freshwater Centre, P.O. Box 413, FI-90014, Oulu, Finland
| | - Jarno Turunen
- Finnish Environment Institute, Freshwater Centre, P.O. Box 413, FI-90014, Oulu, Finland
| | - Annika Vilmi
- Finnish Environment Institute, Freshwater Centre, P.O. Box 413, FI-90014, Oulu, Finland
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12
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Muszynski S, Maurer F, Henjes S, Horn MA, Noll M. Fungal and Bacterial Diversity Patterns of Two Diversity Levels Retrieved From a Late Decaying Fagus sylvatica Under Two Temperature Regimes. Front Microbiol 2021; 11:548793. [PMID: 33584553 PMCID: PMC7874115 DOI: 10.3389/fmicb.2020.548793] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/03/2020] [Accepted: 11/19/2020] [Indexed: 11/25/2022] Open
Abstract
Environmental fluctuations are a common occurrence in an ecosystem, which have an impact on organismic diversity and associated ecosystem services. The aim of this study was to investigate how a natural and a species richness-reduced wood decaying community diversity were capable of decomposing Fagus sylvatica dead wood under a constant and a fluctuating temperature regime. Therefore, microcosms with both diversity levels (natural and species richness-reduced) were prepared and incubated for 8 weeks under both temperature regimes. Relative wood mass loss, wood pH, carbon dioxide, and methane emissions, as well as fungal and bacterial community compositions in terms of Simpson‘s diversity, richness and evenness were investigated. Community interaction patterns and co-occurrence networks were calculated. Community composition was affected by temperature regime and natural diversity caused significantly higher mass loss than richness-reduced diversity. In contrast, richness-reduced diversity increased wood pH. The bacterial community composition was less affected by richness reduction and temperature regimes than the fungal community composition. Microbial interaction patterns showed more mutual exclusions in richness-reduced compared to natural diversity as the reduction mainly reduced abundant fungal species and disintegrated previous interaction patterns. Microbial communities reassembled in richness-reduced diversity with a focus on nitrate reducing and dinitrogen-fixing bacteria as connectors in the network, indicating their high relevance to reestablish ecosystem functions. Therefore, a stochastic richness reduction was followed by functional trait based reassembly to recover previous ecosystem productivity.
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Affiliation(s)
- Sarah Muszynski
- Department of Applied Science, Institute of Bioanalysis, University of Coburg, Coburg, Germany
| | - Florian Maurer
- Department of Applied Science, Institute of Bioanalysis, University of Coburg, Coburg, Germany
| | - Sina Henjes
- Institute of Microbiology, Leibniz University of Hannover, Hanover, Germany
| | - Marcus A Horn
- Institute of Microbiology, Leibniz University of Hannover, Hanover, Germany
| | - Matthias Noll
- Department of Applied Science, Institute of Bioanalysis, University of Coburg, Coburg, Germany
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13
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Juvigny-Khenafou NPD, Piggott JJ, Atkinson D, Zhang Y, Wu N, Matthaei CD. Fine sediment and flow velocity impact bacterial community and functional profile more than nutrient enrichment. ECOLOGICAL APPLICATIONS : A PUBLICATION OF THE ECOLOGICAL SOCIETY OF AMERICA 2021; 31:e02212. [PMID: 32754996 DOI: 10.1002/eap.2212] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/07/2020] [Accepted: 06/17/2020] [Indexed: 06/11/2023]
Abstract
Freshwater ecosystems face many simultaneous pressures due to human activities. Consequently, there has been a rapid loss of freshwater biodiversity and an increase in biomonitoring programs. Our study assessed the potential of benthic stream bacterial communities as indicators of multiple-stressor impacts associated with urbanization and agricultural intensification. We conducted a fully crossed four-factor experiment in 64 flow-through mesocosms fed by a pristine montane stream (21 d of colonization, 21 d of manipulations) and investigated the effects of nutrient enrichment, flow-velocity reduction and added fine sediment after 2 and 3 weeks of stressor exposure. We used high-throughput sequencing and metabarcoding techniques (16S rRNA genes), as well as curated biological databases (METAGENassit, MetaCyc), to identify changes in bacterial relative abundances and predicted metabolic functional profile. Sediment addition and flow-velocity reduction were the most pervasive stressors. They both increased α-diversity and had strong taxon-specific effects on community composition and predicted functions. Sediment and flow velocity also interacted frequently, with 88% of all bacterial response variables showing two-way interactions and 33% showing three-way interactions including nutrient enrichment. Changes in relative abundances of common taxa were associated with shifts in dominant predicted functions, which can be extrapolated to underlaying stream-wide mechanisms such as carbon use and bacterial energy production pathways. Observed changes were largely stable over time and occurred after just 2 weeks of exposure, demonstrating that bacterial communities can be well-suited for early detection of multiple stressors. Overall, added sediment and reduced flow velocity impacted both bacterial community structure and predicted function more than nutrient enrichment. In future research and stream management, a holistic approach to studying multiple-stressor impacts should include multiple trophic levels with their functional responses, to enhance our mechanistic understanding of complex stressor effects and promote establishment of more efficient biomonitoring programs.
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Affiliation(s)
- Noël P D Juvigny-Khenafou
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Biosciences Building, Crown Street, Liverpool, L69 7ZB, UK
- Department of Health and Environmental Science, Xi'an Jiaotong-Liverpool University, 111 Ren'ai Road Suzhou, Jiangsu, 215123, China
| | - Jeremy J Piggott
- Trinity Centre for the Environment & Department of Zoology, School of Natural Sciences, Trinity College Dublin, The University of Dublin, College Green, Dublin 2, Ireland
| | - David Atkinson
- Department of Evolution, Ecology and Behaviour, University of Liverpool, Biosciences Building, Crown Street, Liverpool, L69 7ZB, UK
| | - Yixin Zhang
- Department of Landscape Architecture, Soochow University, Suzhou, 215123, China
| | - Naicheng Wu
- Department of Health and Environmental Science, Xi'an Jiaotong-Liverpool University, 111 Ren'ai Road Suzhou, Jiangsu, 215123, China
| | - Christoph D Matthaei
- Department of Zoology, University of Otago, PO Box 56, Dunedin, 9054, New Zealand
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Wang F, Lin D, Li W, Dou P, Han L, Huang M, Qian S, Yao J. Meiofauna promotes litter decomposition in stream ecosystems depending on leaf species. Ecol Evol 2020; 10:9257-9270. [PMID: 32953059 PMCID: PMC7487239 DOI: 10.1002/ece3.6610] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/05/2020] [Revised: 07/04/2020] [Accepted: 07/06/2020] [Indexed: 11/10/2022] Open
Abstract
Litter decomposition, a fundamental process of nutrient cycling and energy flow in freshwater ecosystems, is driven by a diverse array of decomposers. As an important component of the heterotrophic food web, meiofauna can provide a trophic link between leaf-associated microbes (i.e., bacteria and fungi)/plant detritus and macroinvertebrates, though their contribution to litter decomposition is not well understood. To investigate the role of different decomposer communities in litter decomposition, especially meiofauna, we compared the litter decomposition of three leaf species with different lignin to nitrogen ratios in litter bags with different mesh sizes (0.05, 0.25, and 2 mm) in a forested stream, in China for 78 days. The meiofauna significantly enhanced the decomposition of leaves of high-and medium- quality, while decreasing (negative effect) or increasing (positive effect) the fungal biomass and diversity. Macrofauna and meiofauna together contributed to the decomposition of low-quality leaf species. The presence of meiofauna and macrofauna triggered different aspects of the microbial community, with their effects on litter decomposition varying as a function of leaf quality. This study reveals that the meiofauna increased the trophic complexity and modulated their interactions with microbes, highlighting the important yet underestimated role of meiofauna in detritus-based ecosystems.
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Affiliation(s)
- Fang Wang
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Dunmei Lin
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Wei Li
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Pengpeng Dou
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Le Han
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Mingfen Huang
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Shenhua Qian
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
| | - Jingmei Yao
- Key Laboratory of the Three Gorges Reservoir Region's Eco‐EnvironmentMinistry of EducationChongqing UniversityChongqingChina
- College of Environment and EcologyChongqing UniversityChongqingChina
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15
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Renes SE, Sjöstedt J, Fetzer I, Langenheder S. Disturbance history can increase functional stability in the face of both repeated disturbances of the same type and novel disturbances. Sci Rep 2020; 10:11333. [PMID: 32647292 PMCID: PMC7347917 DOI: 10.1038/s41598-020-68104-0] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/28/2020] [Accepted: 06/18/2020] [Indexed: 02/08/2023] Open
Abstract
Climate change is expected to increase the incidences of extremes in environmental conditions. To investigate how repeated disturbances affect microbial ecosystem resistance, natural lake bacterioplankton communities were subjected to repeated temperature disturbances of two intensities (25 °C and 35 °C), and subsequently to an acidification event. We measured functional parameters (bacterial production, abundance, extracellular enzyme activities) and community composition parameters (richness, evenness, niche width) and found that, compared to undisturbed control communities, the 35 °C treatment was strongly affected in all parameters, while the 25 °C treatment did not significantly differ from the control. Interestingly, exposure to multiple temperature disturbances caused gradually increasing stability in the 35 °C treatment in some parameters, while others parameters showed the opposite, indicating that the choice of parameters can strongly affect the outcome of a study. The acidification event did not lead to stronger changes in community structure, but functional resistance of bacterial production towards acidification in the 35 °C treatments increased. This indicates that functional resistance in response to a novel disturbance can be increased by previous exposure to another disturbance, suggesting similarity in stress tolerance mechanisms for both disturbances. These results highlight the need for understanding function- and disturbance-specific responses, since general responses are likely to be unpredictable.
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Affiliation(s)
- Sophia Elise Renes
- Department of Aquatic Sciences and Assessment, Swedish University of Agricultural Sciences, Uppsala, Sweden. .,Department of Ecology and Genetics/Limnology, Uppsala University, Uppsala, Sweden.
| | - Johanna Sjöstedt
- Department of Ecology and Genetics/Limnology, Uppsala University, Uppsala, Sweden. .,Department of Biology/Aquatic Ecology, Lund University, Lund, Sweden.
| | - Ingo Fetzer
- Stockholm Resilience Centre, Stockholm University, Stockholm, Sweden.,Bolin Centre for Climate Research, Stockholm University, Stockholm, Sweden
| | - Silke Langenheder
- Department of Ecology and Genetics/Limnology, Uppsala University, Uppsala, Sweden
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16
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Koivusaari P, Tejesvi MV, Tolkkinen M, Markkola A, Mykrä H, Pirttilä AM. Fungi Originating From Tree Leaves Contribute to Fungal Diversity of Litter in Streams. Front Microbiol 2019; 10:651. [PMID: 31001228 PMCID: PMC6454979 DOI: 10.3389/fmicb.2019.00651] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2017] [Accepted: 03/14/2019] [Indexed: 01/03/2023] Open
Abstract
Biomass production and decomposition are key processes in ecology, where plants are primarily responsible for production and microbes act in decomposition. Trees harbor foliar microfungi living on and inside leaf tissues, epiphytes, and endophytes, respectively. Early researchers hypothesized that all fungal endophytes are parasites or latent saprophytes, which slowly colonize the leaf tissues for decomposition. While this has been proven for some strains in the terrestrial environment, it is not known whether foliar microfungi from terrestrial origin can survive or perform decomposition in the aquatic environment. On the other hand, aquatic hyphomycetes, fungi which decompose organic material in stream environments, have been suggested to have a plant-associated life phase. Our aim was to study how much the fungal communities of leaves and litter submerged in streams overlap. Ergosterol content on litter, which is an estimator of fungal biomass, was 5-14 times higher in submerged litter than in senescent leaves, indicating active fungal colonization. Leaves generally harbored a different microbiome prior to than after submergence in streams. The Chao1 richness was significantly higher (93.7 vs. 60.7, p = 0.004) and there were more observed operational taxonomic units (OTUs) (78.3 vs. 47.4, p = 0.004) in senescent leaves than in stream-immersed litter. There were more Leotiomycetes (9%, p = 0.014) in the litter. We identified a group of 35 fungi (65%) with both plant- and water-associated lifestyles. Of these, eight taxa had no previous references to water, such as lichenicolous fungi. Six OTUs were classified within Glomeromycota, known as obligate root symbionts with no previous records from leaves. Five members of Basidiomycota, which are rare in aquatic environments, were identified in the stream-immersed litter only. Overall, our study demonstrates that foliar microfungi contribute to fungal diversity in submerged litter.
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Affiliation(s)
| | - Mysore V Tejesvi
- Ecology and Genetics, University of Oulu, Oulu, Finland.,Chain Antimicrobials Oy, Oulu, Finland
| | | | | | - Heikki Mykrä
- Freshwater Centre, Finnish Environment Institute, Oulu, Finland
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17
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Mykrä H, Sarremejane R, Laamanen T, Karjalainen SM, Markkola A, Lehtinen S, Lehosmaa K, Muotka T. Local geology determines responses of stream producers and fungal decomposers to nutrient enrichment: A field experiment. AMBIO 2019; 48:100-110. [PMID: 29663267 PMCID: PMC6297103 DOI: 10.1007/s13280-018-1057-4] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2017] [Revised: 03/12/2018] [Accepted: 04/05/2018] [Indexed: 06/08/2023]
Abstract
We examined how short-term (19 days) nutrient enrichment influences stream fungal and diatom communities, and rates of leaf decomposition and algal biomass accrual. We conducted a field experiment using slow-releasing nutrient pellets to increase nitrate (NO3-N) and phosphate (PO4-P) concentrations in a riffle section of six naturally acidic (naturally low pH due to catchment geology) and six circumneutral streams. Nutrient enrichment increased microbial decomposition rate on average by 14%, but the effect was significant only in naturally acidic streams. Nutrient enrichment also decreased richness and increased compositional variability of fungal communities in naturally acidic streams. Algal biomass increased in both stream types, but algal growth was overall very low. Diatom richness increased in response to nutrient addition by, but only in circumneutral streams. Our results suggest that primary producers and decomposers are differentially affected by nutrient enrichment and that their responses to excess nutrients are context dependent, with a potentially stronger response of detrital processes and fungal communities in naturally acidic streams than in less selective environments.
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Affiliation(s)
- Heikki Mykrä
- Freshwater Centre, Finnish Environment Institute (SYKE), P.O. Box 413, 90014 Oulu, Finland
| | - Romain Sarremejane
- Department of Ecology & Genetics, University of Oulu, P.O. Box 8000, 90014 Oulu, Finland
| | - Tiina Laamanen
- Freshwater Centre, Finnish Environment Institute (SYKE), P.O. Box 413, 90014 Oulu, Finland
| | | | - Annamari Markkola
- Department of Ecology & Genetics, University of Oulu, P.O. Box 8000, 90014 Oulu, Finland
| | - Sirkku Lehtinen
- Department of Ecology & Genetics, University of Oulu, P.O. Box 8000, 90014 Oulu, Finland
| | - Kaisa Lehosmaa
- Department of Ecology & Genetics, University of Oulu, P.O. Box 8000, 90014 Oulu, Finland
| | - Timo Muotka
- Department of Ecology & Genetics, University of Oulu, P.O. Box 8000, 90014 Oulu, Finland
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18
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De Laender F. Community- and ecosystem-level effects of multiple environmental change drivers: Beyond null model testing. GLOBAL CHANGE BIOLOGY 2018; 24:5021-5030. [PMID: 29959825 DOI: 10.1111/gcb.14382] [Citation(s) in RCA: 26] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2018] [Revised: 06/05/2018] [Accepted: 06/21/2018] [Indexed: 06/08/2023]
Abstract
Understanding the joint effect of multiple drivers of environmental change is a key scientific challenge. The dominant approach today is to compare observed joint effects with predictions from various types of null models. Drivers are said to combine synergistically (antagonistically) when their observed joint effect is larger (smaller) than that predicted by the null model. Here, I argue that this approach does not promote understanding of effects on important community- and ecosystem-level variables such as biodiversity and ecosystem function. I use ecological theory to show that different mechanisms can lead to the same deviation from a null model's prediction. Inversely, I show that the same mechanism can lead to different deviations from a null model's prediction. These examples illustrate that it is not possible to make strong mechanistic inferences from null models. Next, I present an alternative framework to study such effects. This framework makes a clear distinction between two different kinds of drivers (resource ratio shifts and multiple stressors) and integrates both by incorporating stressor effects into resource uptake theory. I show that this framework can advance understanding because of three reasons. First, it forces formalization of "multiple stressors," using factors that describe the number and kind of stressors, their selectivity and dynamic behaviour, and the initial trait diversity and tolerance among species. Second, it produces testable predictions on how these factors affect biodiversity and ecosystem function, alone and in combination with resource ratio shifts. Third, it can fail in informative ways. That is, its assumptions are clear, so that different kinds of deviations between predictions and observed effects can guide new experiments and theory improvement. I conclude that this framework will more effectively progress understanding of global change effects on communities and ecosystems than does the current practice of null model testing.
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Affiliation(s)
- Frederik De Laender
- Research Unit in Environmental and Evolutionary Biology, Namur Institute of Complex Systems, and the Institute of Life, Earth, and Environment, University of Namur, Namur, Belgium
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19
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Ortiz-Vera MP, Olchanheski LR, da Silva EG, de Lima FR, Martinez LRDPR, Sato MIZ, Jaffé R, Alves R, Ichiwaki S, Padilla G, Araújo WL. Influence of water quality on diversity and composition of fungal communities in a tropical river. Sci Rep 2018; 8:14799. [PMID: 30287878 PMCID: PMC6172213 DOI: 10.1038/s41598-018-33162-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2018] [Accepted: 09/21/2018] [Indexed: 11/09/2022] Open
Abstract
Freshwater fungi are key decomposers of organic material and play important roles in nutrient cycling, bio-remediation and ecosystem functioning. Although aquatic fungal communities respond to pollution, few studies have quantitatively assessed the effect of freshwater contamination on fungal diversity and composition; and knowledge is scarcer for tropical systems. Here we help fill this knowledge gap by studying a heavily-contaminated South American river spanning a biodiversity hotspot. We collected 30 water samples scattered across a quality gradient over two seasons and analyzed them using Terminal Restriction Fragment Length Polymorphisms (T-RFLP) coupled with 454 Pyrosequencing. Using T-RFLP we identified 451 and 442 Operational Taxonomy Units (OTUs) in the dry and rainy seasons respectively, whereas Pyrosequencing revealed 48,553 OTUs from which 11% were shared between seasons. Although 68% of all identified OTUs and 51% of all identified phyla remained unidentified, dominant fungal phyla included the Ascomycota, Basidiomycota, Chytridiomycota, Glomeromycota, Zygomycota and Neocallimastigomycota, while Calcarisporiella, Didymosphaeria, Mycosphaerella (Ascomycota) and Rhodotorula (Basidiomycota) were the most abundant genera. Fungal diversity was affected by pH and dissolved iron, while community composition was influenced by dissolved oxygen, pH, nitrate, biological oxygen demand, total aluminum, total organic carbon, total iron and seasonality. The presence of potentially pathogenic species was associated with high pH. Furthermore, geographic distance was positively associated with community dissimilarity, suggesting that local conditions allowed divergence among fungal communities. Overall, our findings raise potential concerns for human health and the functioning of tropical river ecosystems and they call for improved water sanitation systems.
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Affiliation(s)
- Mabel Patricia Ortiz-Vera
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Luiz Ricardo Olchanheski
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Eliane Gonçalves da Silva
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Felipe Rezende de Lima
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Lina Rocío Del Pilar Rada Martinez
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Maria Inês Zanoli Sato
- Department of Environmental Analysis, Environmental Company of São Paulo State (CETESB), Av. Prof. Frederico Hermann Jr., 345, São Paulo, SP, Brazil
| | - Rodolfo Jaffé
- Instituto Tecnológico Vale - Desenvolvimento Sustentável. Rua Boaventura da Silva, 955, Nazaré, 66055-090, Belém, PA, Brazil
| | - Ronnie Alves
- Instituto Tecnológico Vale - Desenvolvimento Sustentável. Rua Boaventura da Silva, 955, Nazaré, 66055-090, Belém, PA, Brazil
| | - Simone Ichiwaki
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Gabriel Padilla
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil
| | - Welington Luiz Araújo
- NAP-BIOP, LABMEM, Department of Microbiology, Institute of Biomedical Sciences, University of São Paulo, Av. Lineu Prestes, 1374, Ed. Biomédicas II, Cidade Universitária, São Paulo, SP, Brazil.
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Xun W, Yan R, Ren Y, Jin D, Xiong W, Zhang G, Cui Z, Xin X, Zhang R. Grazing-induced microbiome alterations drive soil organic carbon turnover and productivity in meadow steppe. MICROBIOME 2018; 6:170. [PMID: 30236158 PMCID: PMC6149009 DOI: 10.1186/s40168-018-0544-y] [Citation(s) in RCA: 55] [Impact Index Per Article: 9.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 08/29/2018] [Indexed: 05/26/2023]
Abstract
BACKGROUND Grazing is a major modulator of biodiversity and productivity in grasslands. However, our understanding of grazing-induced changes in below-ground communities, processes, and soil productivity is limited. Here, using a long-term enclosed grazing meadow steppe, we investigated the impacts of grazing on the soil organic carbon (SOC) turnover, the microbial community composition, resistance and activity under seasonal changes, and the microbial contributions to soil productivity. RESULTS The results demonstrated that grazing had significant impacts on soil microbial communities and ecosystem functions in meadow steppe. The highest microbial α-diversity was observed under light grazing intensity, while the highest β-diversity was observed under moderate grazing intensity. Grazing shifted the microbial composition from fungi dominated to bacteria dominated and from slow growing to fast growing, thereby resulting in a shift from fungi-dominated food webs primarily utilizing recalcitrant SOC to bacteria-dominated food webs mainly utilizing labile SOC. Moreover, the higher fungal recalcitrant-SOC-decomposing activities and bacterial labile-SOC-decomposing activities were observed in fungi- and bacteria-dominated communities, respectively. Notably, the robustness of bacterial community and the stability of bacterial activity were associated with α-diversity, while this was not the case for the robustness of fungal community and its associated activities. Finally, we observed that microbial α-diversity rather than SOC turnover rate can predict soil productivity. CONCLUSIONS Our findings indicate the strong influence of grazing on soil microbial community, SOC turnover, and soil productivity and the important positive role of soil microbial α-diversity in steering the functions of meadow steppe ecosystems.
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Affiliation(s)
- Weibing Xun
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Ruirui Yan
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Yi Ren
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Dongyan Jin
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Wu Xiong
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Guishan Zhang
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China
| | - Zhongli Cui
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China
| | - Xiaoping Xin
- National Hulunber Grassland Ecosystem Observation and Research Station, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
| | - Ruifu Zhang
- Jiangsu Provincial Key Lab for Organic Solid Waste Utilization, National Engineering Research Center for Organic-based Fertilizers, Jiangsu Collaborative Innovation Center for Solid Organic Waste Resource Utilization, Nanjing Agricultural University, Nanjing, 210095, China.
- Key Laboratory of Microbial Resources Collection and Preservation, Ministry of Agriculture, Institute of Agricultural Resources and Regional Planning, Chinese Academy of Agricultural Sciences, Beijing, 100081, China.
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Mansour I, Heppell CM, Ryo M, Rillig MC. Application of the microbial community coalescence concept to riverine networks. Biol Rev Camb Philos Soc 2018; 93:1832-1845. [PMID: 29700966 DOI: 10.1111/brv.12422] [Citation(s) in RCA: 57] [Impact Index Per Article: 9.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/08/2017] [Revised: 03/29/2018] [Accepted: 04/04/2018] [Indexed: 01/08/2023]
Abstract
Flows of water, soil, litter, and anthropogenic materials in and around rivers lead to the mixing of their resident microbial communities and subsequently to a resultant community distinct from its precursors. Consideration of these events through a new conceptual lens, namely, community coalescence, could provide a means of integrating physical, environmental, and ecological mechanisms to predict microbial community assembly patterns better in these habitats. Here, we review field studies of microbial communities in riverine habitats where environmental mixing regularly occurs, interpret some of these studies within the community coalescence framework and posit novel hypotheses and insights that may be gained in riverine microbial ecology through the application of this concept. Particularly in the face of a changing climate and rivers under increasing anthropogenic pressures, knowledge about the factors governing microbial community assembly is essential to forecast and/or respond to changes in ecosystem function. Additionally, there is the potential for microbial ecology studies in rivers to become a driver of theory development: riverine systems are ideal for coalescence studies because regular and predictable environmental mixing occurs. Data appropriate for testing community coalescence theory could be collected with minimal alteration to existing study designs.
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Affiliation(s)
- India Mansour
- Plant Ecology, Institut für Biologie, Freie Universität Berlin, D-14195 Berlin, Germany.,Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), D-14195 Berlin, Germany.,School of Geography, Queen Mary University of London, London E1 4NS, UK
| | | | - Masahiro Ryo
- Plant Ecology, Institut für Biologie, Freie Universität Berlin, D-14195 Berlin, Germany.,Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), D-14195 Berlin, Germany
| | - Matthias C Rillig
- Plant Ecology, Institut für Biologie, Freie Universität Berlin, D-14195 Berlin, Germany.,Berlin-Brandenburg Institute of Advanced Biodiversity Research (BBIB), D-14195 Berlin, Germany
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Fairbanks DO, McArthur JV, Young CM, Rader RB. Consumption of terrestrial organic matter in the rocky intertidal zone along the central Oregon coast. Ecosphere 2018. [DOI: 10.1002/ecs2.2138] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/06/2022] Open
Affiliation(s)
| | - J Vaun McArthur
- Savannah River Ecology Laboratory Drawer E Aiken South Carolina 29801 USA
| | - Craig M. Young
- Oregon Institute of Marine Biology University of Oregon P.O. Box 5389 Charleston Oregon 97420 USA
| | - Russell B. Rader
- Department of Biology Brigham Young University Provo Utah 84602 USA
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Mykrä H, Heino J. Decreased habitat specialization in macroinvertebrate assemblages in anthropogenically disturbed streams. ECOLOGICAL COMPLEXITY 2017. [DOI: 10.1016/j.ecocom.2017.07.002] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
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Mykrä H, Tolkkinen M, Heino J. Environmental degradation results in contrasting changes in the assembly processes of stream bacterial and fungal communities. OIKOS 2017. [DOI: 10.1111/oik.04133] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Affiliation(s)
- Heikki Mykrä
- Finnish Environment Inst., Freshwater Centre; PO Box 413 FI-90014, Oulu Finland
| | | | - Jani Heino
- Finnish Environment Inst., Natural Environment Centre, Biodiversity; Oulu Finland
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Mykrä H, Tolkkinen M, Markkola AM, Pirttilä A, Muotka T. Phylogenetic clustering of fungal communities in human‐disturbed streams. Ecosphere 2016. [DOI: 10.1002/ecs2.1316] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022] Open
Affiliation(s)
- H. Mykrä
- Thule InstituteUniversity of Oulu P.O. Box 7300 FI‐90014 Oulu Finland
- Finnish Environment Institute (SYKE)University of Oulu, Freshwater Centre P.O. Box 413 FI‐90014 Oulu Finland
| | - M. Tolkkinen
- Pöyry Finland Oy Tutkijantie 2 FI‐90590 Oulu Finland
| | - A. M. Markkola
- Department of BiologyUniversity of Oulu P.O. Box 3000 FI‐90014 Oulu Finland
| | - A.‐M. Pirttilä
- Department of BiologyUniversity of Oulu P.O. Box 3000 FI‐90014 Oulu Finland
| | - T. Muotka
- Department of BiologyUniversity of Oulu P.O. Box 3000 FI‐90014 Oulu Finland
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Litter Decomposition as an Indicator of Stream Ecosystem Functioning at Local-to-Continental Scales. ADV ECOL RES 2016. [DOI: 10.1016/bs.aecr.2016.08.006] [Citation(s) in RCA: 54] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/04/2023]
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