251
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Xu Z, Woodhouse JN, Te SH, Yew-Hoong Gin K, He Y, Xu C, Chen L. Seasonal variation in the bacterial community composition of a large estuarine reservoir and response to cyanobacterial proliferation. CHEMOSPHERE 2018; 202:576-585. [PMID: 29597175 DOI: 10.1016/j.chemosphere.2018.03.037] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/30/2017] [Revised: 03/01/2018] [Accepted: 03/05/2018] [Indexed: 05/25/2023]
Abstract
This study employed high-throughput sequencing (HTS) to understand the variations in microbial community in the largest estuary reservoir located at the Yangtze River for a year. Correlations between the heterotrophic bacterial and cyanobacterial communities in the estuarine ecosystem were also investigated. Significant spatial and temporal changes were observed in the microbial community composition at all sites. These differences were mainly reflected on the variations of bacterial relative abundance. The modularity analysis on the network indicate that bacterial community response to the variations of environmental factors in the form of co-occurrence/exclusion patterns. In warm season, Synechococcus spp. being the dominant Cyanobacteria taxa exhibited high relative abundance in the reservoir. Water temperature was the critical driver for the proliferation of Synechococcus. Moreover, heterotrophic bacteria belonging to Actinobacteria, Proteobacteria (α-, β-, and γ-Proteobacteria), Bacteroidetes and Chlorobi, exhibited positive correlations with Synechococcus. The co-occurrence of these bacterial OTUs suggests that specific taxa may benefit from the proliferation of Synechococcus. In cold season, bacterial OTUs belonging to Actinobacteria and Bacteroidetes shown co-occurrence pattern with salt ions (including K+, Na+, Mg2+, Ca2+, Cl- and SO42-) inside the reservoir. In conclusion, further research is required to investigate the ecological functions of these taxa in estuarine ecosystems.
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Affiliation(s)
- Zheng Xu
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai, PR China
| | - Jason N Woodhouse
- School of Biotechnology and Biomolecular Sciences, University of New South Wales, Sydney, Australia; Department of Experimental Limnology, Leibniz-Institute of Freshwater Ecology and Inland Fisheries (IGB), Saffnciyt, Germany
| | - Shu Harn Te
- Department of Civil and Environmental Engineering, National University of Singapore, 138602, Singapore
| | - Karina Yew-Hoong Gin
- Department of Civil and Environmental Engineering, National University of Singapore, 138602, Singapore; NUS Environmental Research Institute (NERI), National University of Singapore, 138602, Singapore
| | - Yiliang He
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai, PR China.
| | - Cong Xu
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai, PR China
| | - Lei Chen
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, Shanghai, PR China
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252
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Osterholz H, Kirchman DL, Niggemann J, Dittmar T. Diversity of bacterial communities and dissolved organic matter in a temperate estuary. FEMS Microbiol Ecol 2018; 94:5037919. [DOI: 10.1093/femsec/fiy119] [Citation(s) in RCA: 23] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2018] [Accepted: 06/10/2018] [Indexed: 12/20/2022] Open
Affiliation(s)
- Helena Osterholz
- ICBM-MPI Bridging Group for Marine Geochemistry, Institute for Chemistry and Biology of the Marine Environment, Carl von Ossietzky University, Oldenburg, Germany
| | - David L Kirchman
- School of Marine Science and Policy, University of Delaware, Lewes, DE 19958, USA
| | - Jutta Niggemann
- ICBM-MPI Bridging Group for Marine Geochemistry, Institute for Chemistry and Biology of the Marine Environment, Carl von Ossietzky University, Oldenburg, Germany
| | - Thorsten Dittmar
- ICBM-MPI Bridging Group for Marine Geochemistry, Institute for Chemistry and Biology of the Marine Environment, Carl von Ossietzky University, Oldenburg, Germany
- Helmholtz Institute for Functional Marine Biodiversity, Carl von Ossietzky University, Oldenburg, Germany
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253
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Graeber D, Poulsen JR, Heinz M, Rasmussen JJ, Zak D, Gücker B, Kronvang B, Kamjunke N. Going with the flow: Planktonic processing of dissolved organic carbon in streams. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 625:519-530. [PMID: 29291566 DOI: 10.1016/j.scitotenv.2017.12.285] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/25/2017] [Revised: 12/22/2017] [Accepted: 12/23/2017] [Indexed: 06/07/2023]
Abstract
A large part of the organic carbon in streams is transported by pulses of terrestrial dissolved organic carbon (tDOC) during hydrological events, which is more pronounced in agricultural catchments due to their hydrological flashiness. The majority of the literature considers stationary benthic biofilms and hyporheic biofilms to dominate uptake and processing of tDOC. Here, we argue for expanding this viewpoint to planktonic bacteria, which are transported downstream together with tDOC pulses, and thus perceive them as a less variable resource relative to stationary benthic bacteria. We show that pulse DOC can contribute significantly to the annual DOC export of streams and that planktonic bacteria take up considerable labile tDOC from such pulses in a short time frame, with the DOC uptake being as high as that of benthic biofilm bacteria. Furthermore, we show that planktonic bacteria efficiently take up labile tDOC which strongly increases planktonic bacterial production and abundance. We found that the response of planktonic bacteria to tDOC pulses was stronger in smaller streams than in larger streams, which may be related to bacterial metacommunity dynamics. Furthermore, the response of planktonic bacterial abundance was influenced by soluble reactive phosphorus concentration, pointing to phosphorus limitation. Our data suggest that planktonic bacteria can efficiently utilize tDOC pulses and likely determine tDOC fate during downstream transport, influencing aquatic food webs and related biochemical cycles.
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Affiliation(s)
| | | | | | | | - Dominik Zak
- Aarhus University, Denmark; Leibniz-Institute of Freshwater Ecology and Inland Fisheries, Germany; University of Rostock, Germany
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254
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Wear EK, Wilbanks EG, Nelson CE, Carlson CA. Primer selection impacts specific population abundances but not community dynamics in a monthly time-series 16S rRNA gene amplicon analysis of coastal marine bacterioplankton. Environ Microbiol 2018. [PMID: 29521439 PMCID: PMC6175402 DOI: 10.1111/1462-2920.14091] [Citation(s) in RCA: 60] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/21/2023]
Abstract
Primers targeting the 16S small subunit ribosomal RNA marker gene, used to characterize bacterial and archaeal communities, have recently been re‐evaluated for marine planktonic habitats. To investigate whether primer selection affects the ecological interpretation of bacterioplankton populations and community dynamics, amplicon sequencing with four primer sets targeting several hypervariable regions of the 16S rRNA gene was conducted on both mock communities constructed from cloned 16S rRNA genes and a time‐series of DNA samples from the temperate coastal Santa Barbara Channel. Ecological interpretations of community structure (delineation of depth and seasonality, correlations with environmental factors) were similar across primer sets, while population dynamics varied. We observed substantial differences in relative abundances of taxa known to be poorly resolved by some primer sets, such as Thaumarchaeota and SAR11, and unexpected taxa including Roseobacter clades. Though the magnitude of relative abundances of common OTUs differed between primer sets, the relative abundances of the OTUs were nonetheless strongly correlated. We do not endorse one primer set but rather enumerate strengths and weaknesses to facilitate selection appropriate to a system or experimental goal. While 16S rRNA gene primer bias suggests caution in assessing quantitative population dynamics, community dynamics appear robust across studies using different primers.
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Affiliation(s)
- Emma K Wear
- Department of Ecology, Evolution and Marine Biology and Marine Science Institute; University of California, Santa Barbara, CA 93106, USA
| | - Elizabeth G Wilbanks
- Department of Ecology, Evolution and Marine Biology and Marine Science Institute; University of California, Santa Barbara, CA 93106, USA
| | - Craig E Nelson
- Center for Microbial Oceanography: Research and Education; Department of Oceanography and Sea Grant College Program, University of Hawai'i at Mānoa, Honolulu, HI 96822, USA
| | - Craig A Carlson
- Department of Ecology, Evolution and Marine Biology and Marine Science Institute; University of California, Santa Barbara, CA 93106, USA
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255
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Oleinikova OV, Shirokova LS, Drozdova OY, Lapitskiy SA, Pokrovsky OS. Low biodegradability of dissolved organic matter and trace metals from subarctic waters. THE SCIENCE OF THE TOTAL ENVIRONMENT 2018; 618:174-187. [PMID: 29128766 DOI: 10.1016/j.scitotenv.2017.10.340] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/24/2017] [Revised: 10/03/2017] [Accepted: 10/31/2017] [Indexed: 06/07/2023]
Abstract
The heterotrophic mineralization of dissolved organic matter (DOM) controls the CO2 flux from the inland waters to the atmosphere, especially in the boreal waters, although the mechanisms of this process and the fate of trace metals associated with DOM remain poorly understood. We studied the interaction of culturable aquatic (Pseudomonas saponiphila) and soil (Pseudomonas aureofaciens) Gammaproteobacteria with seven different organic substrates collected in subarctic settings. These included peat leachate, pine crown throughfall, fen, humic lake, stream, river, and oligotrophic lake with variable dissolved organic carbon (DOC) concentrations (from 4 to 60mgL-1). The highest removal of DOC over 4days of reaction was observed in the presence of P. aureofaciens (33±5%, 43±3% and 53±7% of the initial amount in fen water, humic lake and stream, respectively). P. saponiphila degraded only 5% of DOC in fen water but did not affect all other substrates. Trace elements (TE) were essentially controlled by short-term (0-1h) adsorption on the surface of cells. Regardless of the nature of organic substrate and the identity of bacteria, the degree of adsorption ranged from 20 to 60% for iron (Fe3+), 15 to 55% for aluminum (Al), 10 to 60% for manganese (Mn), 10 to 70% for nickel (Ni), 20 to 70% for copper (Cu), 10 to 60% for yttrium (Y), 30 to 80% for rare earth elements (REE), and 15 to 50% for uranium (UVI). Rapid adsorption of organic and organo-mineral colloids on bacterial cell surfaces is novel and potentially important process, which deserves special investigation. The long-term removal of dissolved Fe and Al was generally consistent with solution supersaturation degree with respect to Fe and Al hydroxides, calculated by visual Minteq model. Overall, the biomass-normalized biodegradability of various allochthonous substrates by culturable bacteria is much lower than that of boreal DOM by natural microbial consortia.
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Affiliation(s)
- Olga V Oleinikova
- GET (Geosciences and Environment Toulouse) UMR 5563 CNRS, University Paul Sabatier, 14 Avenue Edouard Belin, 31400 Toulouse, France; Geological Faculty, Moscow State University, 1 Leninskie Gory, 119234 Moscow, Russia
| | - Liudmila S Shirokova
- GET (Geosciences and Environment Toulouse) UMR 5563 CNRS, University Paul Sabatier, 14 Avenue Edouard Belin, 31400 Toulouse, France; N. Laverov Federal Center for Integrated Arctic Research; IEPS, Russian Academy of Science, 23 Nab. Severnoi Dviny, 163000 Arkhangelsk, Russia
| | - Olga Y Drozdova
- Geological Faculty, Moscow State University, 1 Leninskie Gory, 119234 Moscow, Russia
| | - Sergey A Lapitskiy
- Geological Faculty, Moscow State University, 1 Leninskie Gory, 119234 Moscow, Russia
| | - Oleg S Pokrovsky
- GET (Geosciences and Environment Toulouse) UMR 5563 CNRS, University Paul Sabatier, 14 Avenue Edouard Belin, 31400 Toulouse, France.
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256
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Obrador B, von Schiller D, Marcé R, Gómez-Gener L, Koschorreck M, Borrego C, Catalán N. Dry habitats sustain high CO 2 emissions from temporary ponds across seasons. Sci Rep 2018; 8:3015. [PMID: 29445143 PMCID: PMC5813041 DOI: 10.1038/s41598-018-20969-y] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2017] [Accepted: 01/24/2018] [Indexed: 12/02/2022] Open
Abstract
Despite the increasing understanding of the magnitude and drivers of carbon gas emissions from inland waters, the relevance of water fluctuation and associated drying on their dynamics is rarely addressed. Here, we quantified CO2 and CH4 fluxes from a set of temporary ponds across seasons. The ponds were in all occasion net CO2 emitters irrespective of the presence or absence of water. While the CO2 fluxes were in the upper range of emissions for freshwater lentic systems, CH4 fluxes were mostly undetectable. Dry habitats substantially contributed to these emissions and were always a source of CO2, whereas inundated habitats acted either as a source or a sink of atmospheric CO2 along the year. Higher concentrations of coloured and humic organic matter in water and sediment were linked to higher CO2 emissions. Composition of the sediment microbial community was related both to dissolved organic matter concentration and composition, but we did not find a direct link with CO2 fluxes. The presence of methanogenic archaea in most ponds suggested the potential for episodic CH4 production and emission. Our results highlight the need for spatially and temporally inclusive approaches that consider the dry phases and habitats to characterize carbon cycling in temporary systems.
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Affiliation(s)
- Biel Obrador
- Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, Av. Diagonal 643, 08028, Barcelona, Spain.
| | - Daniel von Schiller
- Catalan Institute for Water Research (ICRA), Scientific and Technological Park of the University of Girona, Emili Grahit 101, 17003, Girona, Spain.,Department of Plant Biology and Ecology, Faculty of Science and Technology, University of the Basque Country, Apdo. 644, 48080, Bilbao, Spain
| | - Rafael Marcé
- Catalan Institute for Water Research (ICRA), Scientific and Technological Park of the University of Girona, Emili Grahit 101, 17003, Girona, Spain
| | - Lluís Gómez-Gener
- Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, Av. Diagonal 643, 08028, Barcelona, Spain.,Department of Ecology and Environmental Science, Umeå University, Linnaeus väg 6, 90187, Umeå, Sweden
| | - Matthias Koschorreck
- Department Lake Research, Helmholtz Centre for Environmental Research - UFZ, Brückstrasse 3a, 39114, Magdeburg, Germany
| | - Carles Borrego
- Catalan Institute for Water Research (ICRA), Scientific and Technological Park of the University of Girona, Emili Grahit 101, 17003, Girona, Spain.,Group of Molecular Microbial Ecology, Institute of Aquatic Ecology, University of Girona, Campus de Montilivi, 17071, Girona, Spain
| | - Núria Catalán
- Department of Evolutionary Biology, Ecology and Environmental Sciences, University of Barcelona, Av. Diagonal 643, 08028, Barcelona, Spain. .,Catalan Institute for Water Research (ICRA), Scientific and Technological Park of the University of Girona, Emili Grahit 101, 17003, Girona, Spain. .,Limnology, Department of Ecology and Genetics, Evolutionary Biology Centre, Uppsala University, Norbyvägen 18D, 75236, Uppsala, Sweden.
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257
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Yu X, Cai G, Wang H, Hu Z, Zheng W, Lei X, Zhu X, Chen Y, Chen Q, Din H, Xu H, Tian Y, Fu L, Zheng T. Fast-growing algicidal Streptomyces sp. U3 and its potential in harmful algal bloom controls. JOURNAL OF HAZARDOUS MATERIALS 2018; 341:138-149. [PMID: 28777959 DOI: 10.1016/j.jhazmat.2017.06.046] [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: 01/27/2017] [Revised: 06/18/2017] [Accepted: 06/20/2017] [Indexed: 06/07/2023]
Abstract
To find the potential algicidal microorganisms and apply them to prevent and terminate harmful algal blooms (HABs), we isolated an actinomycete U3 from Mangrove, which had a potent algicidal effect on the harmful alga Heterosigma akashiwo. It could completely lyse the algal cells by producing active compounds, which were highly sensitive to high temperature and strong alkaline, but resistant to acid. One μg/mL of crude extract of the fermentation supernatant could kill 70% of H. akashiwo cells in 3 d. Unlike most of the other known algicidal Streptomyces, U3 showed strong ability of proliferation with the algal inclusion as the nutrient source. The washed mycelial pellets also gradually exhibited significant algicidal effect during the visible growth in the algal culture. It suggests that U3 could efficiently absorb nutrients from algal culture to support its growth and produce algicidal compounds that might cause the autophagy of algal cells. Therefore, applying U3, as a long-term and environmentally friendly bio-agent to control the harmful blooms of H. akashiwo, would be effective and promising. And the decrease of bioavailable DOM and increase of bio-refractory DOM during the algicidal process of U3 provided new insights into the ecological influence of algicial microorganisms on marine ecosystem.
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Affiliation(s)
- Xiaoqi Yu
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Guanjing Cai
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Hui Wang
- Biology Department, College of Life Science, Shantou University, Shantou 515063, China
| | - Zhong Hu
- Biology Department, College of Life Science, Shantou University, Shantou 515063, China
| | - Wei Zheng
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Xueqian Lei
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Xiaoying Zhu
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Yao Chen
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Qiuliang Chen
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Hongyan Din
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Hong Xu
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Yun Tian
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China
| | - Lijun Fu
- Fujian Provincial Key Laboratory of Ecology-Toxicological Effects & Control for Emerging Contaminants, Putian University, Putian 351100, China.
| | - Tianling Zheng
- State Key Laboratory of Marine Environmental Science and Key Laboratory of the Ministry of Education for Coastal and Wetland Ecosystems, School of Life Sciences, Xiamen University, Xiamen 361102, China.
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258
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LeBrun ES, King RS, Back JA, Kang S. Microbial Community Structure and Function Decoupling Across a Phosphorus Gradient in Streams. MICROBIAL ECOLOGY 2018; 75:64-73. [PMID: 28721504 DOI: 10.1007/s00248-017-1039-2] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/03/2017] [Accepted: 07/06/2017] [Indexed: 06/07/2023]
Abstract
Phosphorus (P) is a key biological element with important and unique biogeochemical cycling in natural ecosystems. Anthropogenic phosphorus inputs have been shown to greatly affect natural ecosystems, and this has been shown to be especially true of freshwater systems. While the importance of microbial communities in the P cycle is widely accepted, the role, composition, and relationship to P of these communities in freshwater systems still hold many secrets. Here, we investigated combined bacterial and archaeal communities utilizing 16S ribosomal RNA (rRNA) gene sequencing and computationally predicted functional metagenomes (PFMs) in 25 streams representing a strong P gradient. We discovered that 16S rRNA community structure and PFMs demonstrate a degree of decoupling between structure and function in the system. While we found that total phosphorus (TP) was correlated to the structure and functional capability of bacterial and archaeal communities in the system, turbidity had a stronger, but largely independent, correlation. At TP levels of approximately 55 μg/L, we see sharp differences in the abundance of numerous ecologically important taxa related to vegetation, agriculture, sediment, and other ecosystem inhabitants.
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Affiliation(s)
- Erick S LeBrun
- Department of Biology, Center for Reservoir and Aquatic Systems Research, Baylor University, One Bear Place 97388, Waco, TX, 76798-7388, USA
| | - Ryan S King
- Department of Biology, Center for Reservoir and Aquatic Systems Research, Baylor University, One Bear Place 97388, Waco, TX, 76798-7388, USA
| | - Jeffrey A Back
- Department of Biology, Center for Reservoir and Aquatic Systems Research, Baylor University, One Bear Place 97388, Waco, TX, 76798-7388, USA
| | - Sanghoon Kang
- Department of Biology, Center for Reservoir and Aquatic Systems Research, Baylor University, One Bear Place 97388, Waco, TX, 76798-7388, USA.
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259
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The sensitivity and stability of bacterioplankton community structure to wind-wave turbulence in a large, shallow, eutrophic lake. Sci Rep 2017; 7:16850. [PMID: 29203907 PMCID: PMC5715125 DOI: 10.1038/s41598-017-17242-z] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/22/2017] [Accepted: 11/05/2017] [Indexed: 12/03/2022] Open
Abstract
Lakes are strongly influenced by wind-driven wave turbulence. The direct physical effects of turbulence on bacterioplankton community structure however, have not yet been addressed and remains poorly understood. To examine the stability of bacterioplankton communities under turbulent conditions, we simulated conditions in the field to evaluate the responses of the bacterioplankton community to physical forcing in Lake Taihu, using high-throughput sequencing and flow cytometry. A total of 4,520,231 high quality sequence reads and 74,842 OTUs were obtained in all samples with α-proteobacteria, γ-proteobacteria and Actinobacteria being the most dominant taxa. The diversity and structure of bacterioplankton communities varied during the experiment, but were highly similar based on the same time of sampling, suggesting that bacterioplankton communities are insensitive to wind wave turbulence in the lake. This stability could be associated with the traits associated with bacteria. In particular, turbulence favored the growth of bacterioplankton, which enhanced biogeochemical cycling of nutrients in the lake. This study provides a better understanding of bacterioplankton communities in lake ecosystems exposed to natural mixing/disturbances.
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260
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Chen Y, Yu K, Zhou Y, Ren L, Kirumba G, Zhang B, He Y. Characterizing spatiotemporal variations of chromophoric dissolved organic matter in headwater catchment of a key drinking water source in China. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2017; 24:27799-27812. [PMID: 28983847 DOI: 10.1007/s11356-017-0307-5] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/09/2017] [Accepted: 09/21/2017] [Indexed: 06/07/2023]
Abstract
Natural surface drinking water sources with the increasing chromophoric dissolved organic matter (CDOM) have profound influences on the aquatic environment and drinking water safety. Here, this study investigated the spatiotemporal variations of CDOM in Fengshuba Reservoir and its catchments in China. Twenty-four surface water samples, 45 water samples (including surface water, middle water, and bottom water), and 15 pore water samples were collected from rivers, reservoir, and sediment of the reservoir, respectively. Then, three fluorescent components, namely two humic-like components (C1 and C2) and a tryptophan-like component (C3), were identified from the excitation-emission matrix coupled with parallel factor analysis (EEM-PARAFAC) for all samples. For spatial distributions, the levels of CDOM and two humic-like components in the reservoir were significantly lower than those in the upstream rivers (p < 0.01), indicating that the reservoir may act as a reactor to partly reduce the levels of exogenous input including CDOM and humic-like matters from the surrounding catchment. For temporal variations, the mean levels of CDOM and three fluorescent components did not significantly change in rivers, suggesting that perennial anthropic activity maybe an important factor impacting the concentration and composition of river CDOM but not the precipitation and runoff. However, these mean values of CDOM for the bulk waters of the reservoir changed markedly along with seasonal variations, indicating that the hydrological processes in the reservoir could control the quality and quantity of CDOM. The different correlations between the fluorescent components and primary water parameters in the river, reservoir, and pore water samples further suggest that the reservoir is an important factor regulating the migration and transformation of FDOM along with the variations of different environmental gradients.
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Affiliation(s)
- Yihan Chen
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Kaifeng Yu
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yongqiang Zhou
- Taihu Laboratory for Lake Ecosystem Research, State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences, Nanjing, 210008, China
- University of Chinese Academy of Sciences, Beijing, 100049, China
| | - Longfei Ren
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - George Kirumba
- Department of Civil and Construction Engineering, Technical University of Kenya, Nairobi, 52428-00200, Kenya
| | - Bo Zhang
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China
| | - Yiliang He
- School of Environmental Science and Engineering, Shanghai Jiao Tong University, 800 Dongchuan Road, Shanghai, 200240, China.
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261
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Blasche S, Kim Y, Oliveira AP, Patil KR. Model microbial communities for ecosystems biology. ACTA ACUST UNITED AC 2017. [DOI: 10.1016/j.coisb.2017.09.002] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/24/2022]
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262
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Ward CP, Nalven SG, Crump BC, Kling GW, Cory RM. Photochemical alteration of organic carbon draining permafrost soils shifts microbial metabolic pathways and stimulates respiration. Nat Commun 2017; 8:772. [PMID: 28974688 PMCID: PMC5626735 DOI: 10.1038/s41467-017-00759-2] [Citation(s) in RCA: 70] [Impact Index Per Article: 10.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/07/2017] [Accepted: 07/25/2017] [Indexed: 11/10/2022] Open
Abstract
In sunlit waters, photochemical alteration of dissolved organic carbon (DOC) impacts the microbial respiration of DOC to CO2. This coupled photochemical and biological degradation of DOC is especially critical for carbon budgets in the Arctic, where thawing permafrost soils increase opportunities for DOC oxidation to CO2 in surface waters, thereby reinforcing global warming. Here we show how and why sunlight exposure impacts microbial respiration of DOC draining permafrost soils. Sunlight significantly increases or decreases microbial respiration of DOC depending on whether photo-alteration produces or removes molecules that native microbial communities used prior to light exposure. Using high-resolution chemical and microbial approaches, we show that rates of DOC processing by microbes are likely governed by a combination of the abundance and lability of DOC exported from land to water and produced by photochemical processes, and the capacity and timescale that microbial communities have to adapt to metabolize photo-altered DOC. The role of dissolved organic carbon (DOC) photo-alteration in the microbial respiration of DOC to CO2 is unclear. Here, the authors show that the impact of this mechanism depends on whether photo-alteration of DOC produces or removes molecules used by native microbial communities prior to light exposure.
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Affiliation(s)
- Collin P Ward
- Earth and Environmental Sciences, University of Michigan, Ann Arbor, MI, 48109-1048, USA.,Marine Chemistry and Geochemistry, Woods Hole Oceanographic Institution, Woods Hole, MA, 02543-1050, USA
| | - Sarah G Nalven
- Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvallis, OR, 97331-5503, USA
| | - Byron C Crump
- Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvallis, OR, 97331-5503, USA
| | - George W Kling
- Department of Ecology and Evolutionary Biology, University of Michigan, Ann Arbor, MI, 48109-1048, USA
| | - Rose M Cory
- Earth and Environmental Sciences, University of Michigan, Ann Arbor, MI, 48109-1048, USA.
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263
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Unravelling riverine microbial communities under wastewater treatment plant effluent discharge in large urban areas. Appl Microbiol Biotechnol 2017; 101:6755-6764. [DOI: 10.1007/s00253-017-8384-4] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2017] [Revised: 06/04/2017] [Accepted: 06/09/2017] [Indexed: 11/25/2022]
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264
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Bai L, Cao C, Wang C, Xu H, Zhang H, Slaveykova VI, Jiang H. Toward Quantitative Understanding of the Bioavailability of Dissolved Organic Matter in Freshwater Lake during Cyanobacteria Blooming. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:6018-6026. [PMID: 28466638 DOI: 10.1021/acs.est.7b00826] [Citation(s) in RCA: 57] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/07/2023]
Abstract
Occurrence of cyanobacterial harmful algal blooms (CyanoHAB) can induce considerable patchiness in the concentration and bioavailability of dissolved organic matter (DOM), which could influence biogeochemical processes and fuel microbial metabolism. In the present study, a laboratory 4-stage plug-flow bioreactor was used to successfully separate the CyanoHAB-derived DOM isolated from the eutrophic Lake Taihu (China) into continuum classes of bioavailable compounds. A combination of new state-of-the-art tools borrowed from analytical chemistry and microbial ecology were used to characterize quantitatively the temporary evolution of DOM and to get deeper insights into its bioavailability. The results showed a total 79% dissolved organic carbon loss over time accompanied by depletion of protein-like fluorescent components, especially the relatively hydrophilic ones. However, hydrophilic humic-like fluorescent components exhibited bioresistant behavior. Consistently, ultrahigh resolution mass spectrometry (FTICR-MS) revealed that smaller, less aromatic, more oxygenated, and nitrogen-rich molecules were preferentially consumed by microorganisms with the production of lipid-like species, whereas recalcitrant molecules were primarily composed of carboxylic-rich alicyclic compounds. Moreover, the bioavailability of DOM was negatively correlated with microbial community diversity in the bioreactor. Results from this study provide deeper insights into the fate of DOM and relevant biogeochemical processes in eutrophic lakes.
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Affiliation(s)
- Leilei Bai
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences , Nanjing 210008, China
- Graduate University of Chinese Academy of Sciences , Beijing 100049, China
| | - Chicheng Cao
- Key Laboratory of Environmental Medicine Engineering of Ministry of Education, School of Public Health, Southeast University , Nanjing, 210009, China
| | - Changhui Wang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences , Nanjing 210008, China
| | - Huacheng Xu
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences , Nanjing 210008, China
| | - Hui Zhang
- Key Laboratory of Environmental Medicine Engineering of Ministry of Education, School of Public Health, Southeast University , Nanjing, 210009, China
| | - Vera I Slaveykova
- Department F.-A. Forel for Environmental and Aquatic Sciences, Faculty of Sciences, University of Geneva , Geneva CH-1211, Switzerland
| | - Helong Jiang
- State Key Laboratory of Lake Science and Environment, Nanjing Institute of Geography and Limnology, Chinese Academy of Sciences , Nanjing 210008, China
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265
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Rofner C, Peter H, Catalán N, Drewes F, Sommaruga R, Pérez MT. Climate-related changes of soil characteristics affect bacterial community composition and function of high altitude and latitude lakes. GLOBAL CHANGE BIOLOGY 2017; 23:2331-2344. [PMID: 27801530 PMCID: PMC5434934 DOI: 10.1111/gcb.13545] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2016] [Revised: 10/17/2016] [Accepted: 10/25/2016] [Indexed: 05/25/2023]
Abstract
Lakes at high altitude and latitude are typically unproductive ecosystems where external factors outweigh the relative importance of in-lake processes, making them ideal sentinels of climate change. Climate change is inducing upward vegetation shifts at high altitude and latitude regions that translate into changes in the pools of soil organic matter. Upon mobilization, this allochthonous organic matter may rapidly alter the composition and function of lake bacterial communities. Here, we experimentally simulate this potential climate-change effect by exposing bacterioplankton of two lakes located above the treeline, one in the Alps and one in the subarctic region, to soil organic matter from below and above the treeline. Changes in bacterial community composition, diversity and function were followed for 72 h. In the subarctic lake, soil organic matter from below the treeline reduced bulk and taxon-specific phosphorus uptake, indicating that bacterial phosphorus limitation was alleviated compared to organic matter from above the treeline. These effects were less pronounced in the alpine lake, suggesting that soil properties (phosphorus and dissolved organic carbon availability) and water temperature further shaped the magnitude of response. The rapid bacterial succession observed in both lakes indicates that certain taxa directly benefited from soil sources. Accordingly, the substrate uptake profiles of initially rare bacteria (copiotrophs) indicated that they are one of the main actors cycling soil-derived carbon and phosphorus. Our work suggests that climate-induced changes in soil characteristics affect bacterioplankton community structure and function, and in turn, the cycling of carbon and phosphorus in high altitude and latitude aquatic ecosystems.
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Affiliation(s)
- Carina Rofner
- Lake and Glacier Ecology Research GroupInstitute of EcologyUniversity of InnsbruckTechnikerstraße 25InnsbruckAustria
| | - Hannes Peter
- Lake and Glacier Ecology Research GroupInstitute of EcologyUniversity of InnsbruckTechnikerstraße 25InnsbruckAustria
- Present address: Stream Biofilm and Ecosystem Research LaboratoryÉcole Polytechnique Fédérale de Lausanne (EPFL)LausanneSwitzerland
| | - Núria Catalán
- Limnology, Department of Ecology and GeneticsUniversity of UppsalaUppsalaSweden
- Catalan Institute for Water Research (ICRA)Emili Grahit 101Girona17003Spain
| | - Fabian Drewes
- Lake and Glacier Ecology Research GroupInstitute of EcologyUniversity of InnsbruckTechnikerstraße 25InnsbruckAustria
- Present address: ARGE LimnologieAngewandte Gewässerökologie GesmbHInnsbruckAustria
| | - Ruben Sommaruga
- Lake and Glacier Ecology Research GroupInstitute of EcologyUniversity of InnsbruckTechnikerstraße 25InnsbruckAustria
| | - María Teresa Pérez
- Lake and Glacier Ecology Research GroupInstitute of EcologyUniversity of InnsbruckTechnikerstraße 25InnsbruckAustria
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266
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Herlemann DPR, Manecki M, Dittmar T, Jürgens K. Differential responses of marine, mesohaline and oligohaline bacterial communities to the addition of terrigenous carbon. Environ Microbiol 2017; 19:3098-3117. [PMID: 28474480 DOI: 10.1111/1462-2920.13784] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/07/2016] [Revised: 04/13/2017] [Accepted: 04/26/2017] [Indexed: 12/21/2022]
Abstract
In response to global warming, increasing quantities of tDOM are transported through estuaries from land to the sea. In this study, we investigated microbial responses to increased tDOM concentrations in three salinity regimes (salinity: 32, 7 and 3) characteristic of the Baltic Sea. Mesocosm experiments performed in May and November revealed low (0-6%) dissolved organic carbon (DOC) utilisation. Molecular DOM analyses using ultrahigh-resolution mass spectrometry identified the terrigenous signal in the tDOM manipulation, but the molecular changes in DOM levels over the course of the experiment were subtle. However, tDOM had significant stimulatory effects on bacterial production in the oligohaline mesocosms. The shift in the bacterial community composition was especially prominent in the tDOM-amended marine and mesohaline mesocosms, but not in the oligohaline mesocosms after 7 and 11 days of incubation. These results suggested the inherent ability of oligohaline bacterial communities to adapt to high tDOM concentrations and therefore to use tDOM. The higher rates of bacterial activity and DOC removal in mesocosms containing UV-pretreated tDOM supported the increased bioavailability of photoinduced, modified tDOM. The overall low rates of microbial tDOM utilisation highlights the importance of abiotic factors in determining the distribution and dynamics of tDOM in estuaries.
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Affiliation(s)
- D P R Herlemann
- Leibniz Institute for Baltic Sea Research Warnemünde (IOW), Biological Oceanography, Seestrasse 15, Rostock, D-18119, Germany
| | - M Manecki
- Research Group for Marine Geochemistry, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl von Ossietzky University Oldenburg, Carl-von-Ossietzky-Str, Oldenburg, 9-11 D-26129, Germany.,Leibniz Institute for Baltic Sea Research Warnemünde (IOW), Marine Chemistry, Seestrasse 15, Rostock, D-18119, Germany
| | - T Dittmar
- Research Group for Marine Geochemistry, Institute for Chemistry and Biology of the Marine Environment (ICBM), Carl von Ossietzky University Oldenburg, Carl-von-Ossietzky-Str, Oldenburg, 9-11 D-26129, Germany
| | - K Jürgens
- Leibniz Institute for Baltic Sea Research Warnemünde (IOW), Biological Oceanography, Seestrasse 15, Rostock, D-18119, Germany
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267
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Goetghebuer L, Servais P, George IF. Carbon utilization profiles of river bacterial strains facing sole carbon sources suggest metabolic interactions. FEMS Microbiol Lett 2017; 364:3814097. [DOI: 10.1093/femsle/fnx098] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2017] [Accepted: 05/10/2017] [Indexed: 11/13/2022] Open
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268
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Wurzbacher C, Nilsson RH, Rautio M, Peura S. Poorly known microbial taxa dominate the microbiome of permafrost thaw ponds. ISME JOURNAL 2017; 11:1938-1941. [PMID: 28430187 DOI: 10.1038/ismej.2017.54] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/10/2016] [Revised: 02/16/2017] [Accepted: 03/03/2017] [Indexed: 11/09/2022]
Abstract
In the transition zone of the shifting permafrost border, thaw ponds emerge as hotspots of microbial activity, processing the ancient carbon freed from the permafrost. We analyzed the microbial succession across a gradient of recently emerged to older ponds using three molecular markers: one universal, one bacterial and one fungal. Age was a major modulator of the microbial community of the thaw ponds. Surprisingly, typical freshwater taxa comprised only a small fraction of the community. Instead, thaw ponds of all age classes were dominated by enigmatic bacterial and fungal phyla. Our results on permafrost thaw ponds lead to a revised perception of the thaw pond ecosystem and their microbes, with potential implications for carbon and nutrient cycling in this increasingly important class of freshwaters.
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Affiliation(s)
- Christian Wurzbacher
- Department of Biological and Environmental Sciences, University of Gothenburg, Göteborg, Sweden.,Gothenburg Global Biodiversity Centre, Göteborg, Sweden
| | - R Henrik Nilsson
- Department of Biological and Environmental Sciences, University of Gothenburg, Göteborg, Sweden.,Gothenburg Global Biodiversity Centre, Göteborg, Sweden
| | - Milla Rautio
- Département des sciences fondamentales and Centre for Northern Studies (CEN), Université du Québec á Chicoutimi, Chicoutimi, QC, Canada
| | - Sari Peura
- Limnology, Department of Ecology and Genetics, Uppsala University, Uppsala, Sweden.,Molecular Epidemiology, Department of Medical Sciences, Uppsala University, Uppsala, Sweden
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269
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Limberger R, Birtel J, Farias DDS, Matthews B. Ecosystem flux and biotic modification as drivers of metaecosystem dynamics. Ecology 2017; 98:1082-1092. [PMID: 28112404 DOI: 10.1002/ecy.1742] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 07/03/2016] [Revised: 12/11/2016] [Accepted: 01/04/2017] [Indexed: 11/07/2022]
Abstract
The fluxes of energy, matter, and organisms are important structuring forces of metaecosystems. Such ecosystem fluxes likely interact with environmental heterogeneity and differentially affect the diversity of multiple communities. In an aquatic mesocosm experiment, we tested how ecosystem flux and patch heterogeneity affected the diversity of bacteria, phytoplankton, and zooplankton metacommunities, and the structure and functioning of metaecosystems. We built metaecosystems consisting of three mesocosms that were either connected by flux of living organisms, organic material, and nutrients (alive ecosystem flux) or only by flux of organic material and nutrients (dead ecosystem flux). The three patches of each metaecosystem were either homogeneous or heterogeneous in nutrient loading. We found that the three groups of organisms responded differently to our treatments: flux of living organisms increased bacterial diversity irrespective of nutrient heterogeneity, while flux effects on phytoplankton diversity depended on nutrient heterogeneity, potentially indicating source-sink effects. Although zooplankton diversity was largely unaffected by our manipulations, subtle changes of community composition in response to ecosystem flux had strong effects on lower trophic levels, highlighting the importance of indirect flux effects via alterations in trophic interactions. Furthermore, differential effects of communities on the mean and spatial variability of local abiotic environments influenced the development of metaecosystem heterogeneity through time. Despite identical nutrient loading at the scale of the metaecosystem, abiotic conditions diverged between homogeneous and heterogeneous metaecosystems. For example, concentrations in dissolved organic carbon (DOC) were higher in homogeneous than heterogeneous metaecosystems, possibly because of differential responses of the algal community to local environmental conditions. Similarly, we found that flux effects on organisms translated into effects on DOC concentrations at the patch level, suggesting that flux-mediated changes in abundances of species can alter abiotic conditions. Our study shows that the dynamics of biotic and abiotic compartments of spatially structured ecosystems are intricately linked, highlighting the importance of integrating metacommunity and metaecosystem perspectives.
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Affiliation(s)
- Romana Limberger
- Department of Aquatic Ecology, Eawag, Kastanienbaum, 6047 Switzerland
| | - Julia Birtel
- Department of Aquatic Ecology, Eawag, Kastanienbaum, 6047 Switzerland
| | - Daniel D S Farias
- Programa de Pós-Graduação em Ciências Biológicas (Biodiversidade Neotropical), Universidade Federal do Estado Rio de Janeiro, Rio de Janeiro, RJ, 22290-240 Brazil
| | - Blake Matthews
- Department of Aquatic Ecology, Eawag, Kastanienbaum, 6047 Switzerland
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270
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Lindh MV, Sjöstedt J, Ekstam B, Casini M, Lundin D, Hugerth LW, Hu YOO, Andersson AF, Andersson A, Legrand C, Pinhassi J. Metapopulation theory identifies biogeographical patterns among core and satellite marine bacteria scaling from tens to thousands of kilometers. Environ Microbiol 2017; 19:1222-1236. [PMID: 28028880 DOI: 10.1111/1462-2920.13650] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2016] [Revised: 12/10/2016] [Accepted: 12/18/2016] [Indexed: 12/11/2022]
Abstract
Metapopulation theory developed in terrestrial ecology provides applicable frameworks for interpreting the role of local and regional processes in shaping species distribution patterns. Yet, empirical testing of metapopulation models on microbial communities is essentially lacking. We determined regional bacterioplankton dynamics from monthly transect sampling in the Baltic Sea Proper using 16S rRNA gene sequencing. A strong positive trend was found between local relative abundance and occupancy of populations. Notably, the occupancy-frequency distributions were significantly bimodal with a satellite mode of rare endemic populations and a core mode of abundant cosmopolitan populations (e.g. Synechococcus, SAR11 and SAR86 clade members). Temporal changes in population distributions supported several theoretical frameworks. Still, bimodality was found among bacterioplankton communities across the entire Baltic Sea, and was also frequent in globally distributed datasets. Datasets spanning waters with widely different physicochemical characteristics or environmental gradients typically lacked significant bimodal patterns. When such datasets were divided into subsets with coherent environmental conditions, bimodal patterns emerged, highlighting the importance of positive feedbacks between local abundance and occupancy within specific biomes. Thus, metapopulation theory applied to microbial biogeography can provide novel insights into the mechanisms governing shifts in biodiversity resulting from natural or anthropogenically induced changes in the environment.
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Affiliation(s)
- Markus V Lindh
- Centre for Ecology and Evolution in Microbial model Systems - EEMiS, Linnaeus University, Kalmar, SE-39182, Sweden
| | - Johanna Sjöstedt
- Centre for Ecology and Evolution in Microbial model Systems - EEMiS, Linnaeus University, Kalmar, SE-39182, Sweden
| | - Börje Ekstam
- Department of Biology and Environmental Science, Linnaeus University, Kalmar, SE-39182, Sweden
| | - Michele Casini
- Department of Aquatic Resources, Institute of Marine Research, Swedish University of Agricultural Sciences, Lysekil, SE-45330, Sweden
| | - Daniel Lundin
- Centre for Ecology and Evolution in Microbial model Systems - EEMiS, Linnaeus University, Kalmar, SE-39182, Sweden
| | - Luisa W Hugerth
- Science for Life Laboratory School of Biotechnology, KTH Royal Institute of Technology, Stockholm, SE-10691, Sweden
| | - Yue O O Hu
- Science for Life Laboratory School of Biotechnology, KTH Royal Institute of Technology, Stockholm, SE-10691, Sweden
| | - Anders F Andersson
- Science for Life Laboratory School of Biotechnology, KTH Royal Institute of Technology, Stockholm, SE-10691, Sweden
| | - Agneta Andersson
- Department of Ecology and Environmental Science, Umeå University, Umeå, SE-90187, Sweden
| | - Catherine Legrand
- Centre for Ecology and Evolution in Microbial model Systems - EEMiS, Linnaeus University, Kalmar, SE-39182, Sweden
| | - Jarone Pinhassi
- Centre for Ecology and Evolution in Microbial model Systems - EEMiS, Linnaeus University, Kalmar, SE-39182, Sweden
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271
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Locey KJ, Fisk MC, Lennon JT. Microscale Insight into Microbial Seed Banks. Front Microbiol 2017; 7:2040. [PMID: 28119666 PMCID: PMC5220057 DOI: 10.3389/fmicb.2016.02040] [Citation(s) in RCA: 16] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2016] [Accepted: 12/05/2016] [Indexed: 11/24/2022] Open
Abstract
Microbial dormancy leads to the emergence of seed banks in environmental, engineered, and host-associated ecosystems. These seed banks act as reservoirs of diversity that allow microbes to persist under adverse conditions, including extreme limitation of resources. While microbial seed banks may be influenced by macroscale factors, such as the supply of resources, the importance of microscale encounters between organisms and resource particles is often overlooked. We hypothesized that dimensions of spatial, trophic, and resource complexity determine rates of encounter, which in turn, drive the abundance, productivity, and size of seed banks. We tested this using >10,000 stochastic individual based models (IBMs) that simulated energetic, physiological, and ecological processes across combinations of resource, spatial, and trophic complexity. These IBMs allowed realistic dynamics and the emergence of seed banks from ecological selection on random variation in species traits. Macroscale factors like the supply and concentration of resources had little effect on resource encounter rates. In contrast, encounter rates were strongly influenced by interactions between dispersal mode and spatial structure, and also by the recalcitrance of resources. In turn, encounter rates drove abundance, productivity, and seed bank dynamics. Time series revealed that energetically costly traits can lead to large seed banks and that recalcitrant resources can lead to greater stability through the formation of seed banks and the slow consumption of resources. Our findings suggest that microbial seed banks emerge from microscale dimensions of ecological complexity and their influence on resource limitation and energetic costs.
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Affiliation(s)
| | | | - J. T. Lennon
- Department of Biology, Indiana UniversityBloomington, IN, USA
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272
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Lindh MV, Sjöstedt J, Casini M, Andersson A, Legrand C, Pinhassi J. Local Environmental Conditions Shape Generalist But Not Specialist Components of Microbial Metacommunities in the Baltic Sea. Front Microbiol 2016; 7:2078. [PMID: 28066392 PMCID: PMC5180196 DOI: 10.3389/fmicb.2016.02078] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/13/2016] [Accepted: 12/08/2016] [Indexed: 01/06/2023] Open
Abstract
Marine microbes exhibit biogeographical patterns linked with fluxes of matter and energy. Yet, knowledge of the mechanisms shaping bacterioplankton community assembly across temporal scales remains poor. We examined bacterioplankton 16S rRNA gene fragments obtained from Baltic Sea transects to determine phylogenetic relatedness and assembly processes coupled with niche breadth. Communities were phylogenetically more related over time than expected by chance, albeit with considerable temporal variation. Hence, habitat filtering, i.e., local environmental conditions, rather than competition structured bacterioplankton communities in summer but not in spring or autumn. Species sorting (SS) was the dominant assembly process, but temporal and taxonomical variation in mechanisms was observed. For May communities, Cyanobacteria, Actinobacteria, Alpha- and Betaproteobacteria exhibited SS while Bacteroidetes and Verrucomicrobia were assembled by SS and mass effect. Concomitantly, Gammaproteobacteria were assembled by the neutral model and patch dynamics. Temporal variation in habitat filtering and dispersal highlights the impact of seasonally driven reorganization of microbial communities. Typically abundant Baltic Sea populations such as the NS3a marine group (Bacteroidetes) and the SAR86 and SAR11 clade had the highest niche breadth. The verrucomicrobial Spartobacteria population also exhibited high niche breadth. Surprisingly, variation in bacterioplankton community composition was regulated by environmental factors for generalist taxa but not specialists. Our results suggest that generalists such as NS3a, SAR86, and SAR11 are reorganized to a greater extent by changes in the environment compared to specialists and contribute more strongly to determining overall biogeographical patterns of marine bacterial communities.
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Affiliation(s)
- Markus V Lindh
- Centre for Ecology and Evolution in Microbial Model Systems, Linnaeus University Kalmar, Sweden
| | - Johanna Sjöstedt
- Centre for Ecology and Evolution in Microbial Model Systems, Linnaeus University Kalmar, Sweden
| | - Michele Casini
- Department of Aquatic Resources, Institute of Marine Research, Swedish University of Agricultural Sciences (SLU) Lysekil, Sweden
| | - Agneta Andersson
- Department of Ecology and Environmental Science, Umeå University Umeå, Sweden
| | - Catherine Legrand
- Centre for Ecology and Evolution in Microbial Model Systems, Linnaeus University Kalmar, Sweden
| | - Jarone Pinhassi
- Centre for Ecology and Evolution in Microbial Model Systems, Linnaeus University Kalmar, Sweden
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273
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Xiong J, Xiong S, Qian P, Zhang D, Liu L, Fei Y. Thermal discharge-created increasing temperatures alter the bacterioplankton composition and functional redundancy. AMB Express 2016; 6:68. [PMID: 27620732 PMCID: PMC5016491 DOI: 10.1186/s13568-016-0238-4] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2016] [Accepted: 08/30/2016] [Indexed: 01/07/2023] Open
Abstract
Elevated seawater temperature has altered the coupling between coastal primary production and heterotrophic bacterioplankton respiration. This shift, in turn, could influence the feedback of ocean ecosystem to climate warming. However, little is known about how natural bacterioplankton community responds to increasing seawater temperature. To investigate warming effects on the bacterioplankton community, we collected water samples from temperature gradients (ranged from 15.0 to 18.6 °C) created by a thermal flume of a coal power plant. The results showed that increasing temperatures significantly stimulated bacterial abundance, grazing rate, and altered bacterioplankton community compositions (BCCs). The spatial distribution of bacterioplankton community followed a distance similarity decay relationship, with a turnover of 0.005. A variance partitioning analysis showed that temperature directly constrained 2.01 % variation in BCCs, while temperature-induced changes in water geochemical and grazing rate indirectly accounted for 4.03 and 12.8 % of the community variance, respectively. Furthermore, the relative abundances of 24 bacterial families were linearly increased or decreased (P < 0.05 in all cases) with increasing temperatures. Notably, the change pattern for a given bacterial family was in concert with its known functions. In addition, community functional redundancy consistently decreased along the temperature gradient. This study demonstrates that elevated temperature, combined with substrate supply and trophic interactions, dramatically alters BCCs, concomitant with decreases in functional redundancy. The responses of sensitive assemblages are temperature dependent, which could indicate temperature departures.
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274
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Traving SJ, Bentzon-Tilia M, Knudsen-Leerbeck H, Mantikci M, Hansen JLS, Stedmon CA, Sørensen H, Markager S, Riemann L. Coupling Bacterioplankton Populations and Environment to Community Function in Coastal Temperate Waters. Front Microbiol 2016; 7:1533. [PMID: 27729909 PMCID: PMC5037133 DOI: 10.3389/fmicb.2016.01533] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/21/2016] [Accepted: 09/13/2016] [Indexed: 12/05/2022] Open
Abstract
Bacterioplankton play a key role in marine waters facilitating processes important for carbon cycling. However, the influence of specific bacterial populations and environmental conditions on bacterioplankton community performance remains unclear. The aim of the present study was to identify drivers of bacterioplankton community functions, taking into account the variability in community composition and environmental conditions over seasons, in two contrasting coastal systems. A Least Absolute Shrinkage and Selection Operator (LASSO) analysis of the biological and chemical data obtained from surface waters over a full year indicated that specific bacterial populations were linked to measured functions. Namely, Synechococcus (Cyanobacteria) was strongly correlated with protease activity. Both function and community composition showed seasonal variation. However, the pattern of substrate utilization capacity could not be directly linked to the community dynamics. The overall importance of dissolved organic matter (DOM) parameters in the LASSO models indicate that bacterioplankton respond to the present substrate landscape, with a particular importance of nitrogenous DOM. The identification of common drivers of bacterioplankton community functions in two different systems indicates that the drivers may be of broader relevance in coastal temperate waters.
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Affiliation(s)
- Sachia J Traving
- Centre for Ocean Life, Marine Biological Section, University of Copenhagen Helsingør, Denmark
| | | | | | | | | | - Colin A Stedmon
- Centre for Ocean Life, National Institute of Aquatic Resources, Technical University of Denmark Charlottenlund, Denmark
| | - Helle Sørensen
- Laboratory for Applied Statistics, Department of Mathematical Sciences, University of Copenhagen Copenhagen, Denmark
| | - Stiig Markager
- Department of Bioscience, Aarhus University Roskilde, Denmark
| | - Lasse Riemann
- Centre for Ocean Life, Marine Biological Section, University of CopenhagenHelsingør, Denmark; Marine Biological Section, University of CopenhagenHelsingør, Denmark
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