1
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Groult B, Bredin P, Lazar CS. Ecological processes differ in community assembly of Archaea, Bacteria and Eukaryotes in a biogeographical survey of groundwater habitats in the Quebec region (Canada). Environ Microbiol 2022; 24:5898-5910. [PMID: 36135934 DOI: 10.1111/1462-2920.16219] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/03/2022] [Accepted: 09/19/2022] [Indexed: 01/12/2023]
Abstract
Aquifers are inhabited by microorganisms from the three major domains of life: Archaea, Eukaryotes and Bacteria. Although interest in the processes that govern the assembly of these microbial communities is growing, their study is almost systematically limited to one of the three domains of life. Archaea, Bacteria and Eukaryotes are however interconnected and essential to understand the functioning of their living ecosystems. We, therefore, conducted a spatial study of the distribution of microorganisms by sampling 35 wells spread over an area of 10,000 km2 in the Quebec region (Canada). The obtained data allowed us to define the impact of geographic distance and geochemical water composition on the microbial communities. A null model approach was used to infer the relative influence of stochastic and determinist ecological processes on the assembly of the microbial community from all three domains. We found that the organisms from these three groups are mainly governed by stochastic mechanisms. However, this apparent similarity does not reflect the differences in the processes that govern the phyla assembly. The results obtained highlight the importance of considering all the microorganisms without neglecting their individual specificities.
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Affiliation(s)
- Benjamin Groult
- Biological Sciences Department, University of Quebec in Montreal (UQAM), Montreal, Quebec, Canada
| | - Pascal Bredin
- Biological Sciences Department, University of Quebec in Montreal (UQAM), Montreal, Quebec, Canada
| | - Cassandre Sara Lazar
- Biological Sciences Department, University of Quebec in Montreal (UQAM), Montreal, Quebec, Canada
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2
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Brandani J, Peter H, Busi SB, Kohler TJ, Fodelianakis S, Ezzat L, Michoud G, Bourquin M, Pramateftaki P, Roncoroni M, Lane SN, Battin TJ. Spatial patterns of benthic biofilm diversity among streams draining proglacial floodplains. Front Microbiol 2022; 13:948165. [PMID: 36003939 PMCID: PMC9393633 DOI: 10.3389/fmicb.2022.948165] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/19/2022] [Accepted: 07/11/2022] [Indexed: 11/20/2022] Open
Abstract
Glacier shrinkage opens new proglacial terrain with pronounced environmental gradients along longitudinal and lateral chronosequences. Despite the environmental harshness of the streams that drain glacier forelands, their benthic biofilms can harbor astonishing biodiversity spanning all domains of life. Here, we studied the spatial dynamics of prokaryotic and eukaryotic photoautotroph diversity within braided glacier-fed streams and tributaries draining lateral terraces predominantly fed by groundwater and snowmelt across three proglacial floodplains in the Swiss Alps. Along the lateral chronosequence, we found that benthic biofilms in tributaries develop higher biomass than those in glacier-fed streams, and that their respective diversity and community composition differed markedly. We also found spatial turnover of bacterial communities in the glacier-fed streams along the longitudinal chronosequence. These patterns along the two chronosequences seem unexpected given the close spatial proximity and connectivity of the various streams, suggesting environmental filtering as an underlying mechanism. Furthermore, our results suggest that photoautotrophic communities shape bacterial communities across the various streams, which is understandable given that algae are the major source of organic matter in proglacial streams. Overall, our findings shed new light on benthic biofilms in proglacial streams now changing at rapid pace owing to climate-induced glacier shrinkage.
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Affiliation(s)
- Jade Brandani
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Hannes Peter
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Susheel Bhanu Busi
- Systems Ecology Group, Luxembourg Center for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg
| | - Tyler J. Kohler
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Stilianos Fodelianakis
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Leila Ezzat
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Grégoire Michoud
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Massimo Bourquin
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Paraskevi Pramateftaki
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
| | - Matteo Roncoroni
- Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Lausanne, Switzerland
| | - Stuart N. Lane
- Institute of Earth Surface Dynamics (IDYST), University of Lausanne, Lausanne, Switzerland
| | - Tom J. Battin
- River Ecosystems Laboratory, Alpine and Polar Environmental Research Center, Ecole Polytechnique Fédérale de Lausanne (EPFL), Lausanne, Switzerland
- *Correspondence: Tom J. Battin,
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3
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Doering M, Freimann R, Antenen N, Roschi A, Robinson CT, Rezzonico F, Smits THM, Tonolla D. Microbial communities in floodplain ecosystems in relation to altered flow regimes and experimental flooding. THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 788:147497. [PMID: 34134395 DOI: 10.1016/j.scitotenv.2021.147497] [Citation(s) in RCA: 7] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/20/2020] [Revised: 04/10/2021] [Accepted: 04/28/2021] [Indexed: 06/12/2023]
Abstract
River floodplains are spatially diverse ecosystems that respond quickly to flow variations and disturbance. However, it remains unclear how flow alteration and hydrological disturbance impacts the structure and biodiversity of complex microbial communities in these ecosystems. Here, we examined the spatial and seasonal dynamics of microbial communities in aquatic (benthic) and terrestrial habitats of three hydrologically contrasting (natural flow, residual flow, hydropeaking flow) floodplain systems. Microbial communities (alpha and beta diversity) differed more among floodplain habitats than between riverine floodplains. Microbial communities in all systems displayed congruent seasonal effects. In the residual and hydropeaking systems, an experimental flood was released from a reservoir to mimic a natural high flow event causing hydromorphological disturbance. The experimental flood caused a temporary shift in microbial communities by releasing microbes from the reservoir as well as redistributing communities among floodplain habitats. The flood-mediated shift in community structures had only a transient impact as pelagic bacteria did not persist within floodplain habitats over time after the flood. More frequent pulse disturbances might lead to an alternate structure of bacterial communities in floodplains over time.
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Affiliation(s)
- Michael Doering
- Ecohydrology Research Group, Institute of Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland; eQcharta GmbH, Wädenswil, Switzerland.
| | - Remo Freimann
- Institute of Molecular Health Science, ETH Zürich, Switzerland
| | - Nadine Antenen
- Ecohydrology Research Group, Institute of Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland
| | - Alexia Roschi
- Ecohydrology Research Group, Institute of Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland; Environmental Genomics and Systems Biology Research Group, Institute for Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland
| | - Christopher T Robinson
- Swiss Federal Institute of Aquatic Science and Technology (EAWAG), 8600 Dübendorf, Switzerland; Institute of Integrative Biology, ETH Zürich, 8092 Zürich, Switzerland
| | - Fabio Rezzonico
- Environmental Genomics and Systems Biology Research Group, Institute for Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland
| | - Theo H M Smits
- Environmental Genomics and Systems Biology Research Group, Institute for Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland
| | - Diego Tonolla
- Ecohydrology Research Group, Institute of Natural Resource Sciences, Zurich University of Applied Sciences (ZHAW), Wädenswil, Switzerland; eQcharta GmbH, Wädenswil, Switzerland
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4
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Lebon Y, Navel S, Moro M, Voisin J, Cournoyer B, François C, Volatier L, Mermillod-Blondin F. Influence of stormwater infiltration systems on the structure and the activities of groundwater biofilms: Are the effects restricted to rainy periods? THE SCIENCE OF THE TOTAL ENVIRONMENT 2021; 755:142451. [PMID: 33017764 DOI: 10.1016/j.scitotenv.2020.142451] [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: 06/29/2020] [Revised: 09/13/2020] [Accepted: 09/14/2020] [Indexed: 06/11/2023]
Abstract
Stormwater infiltration systems (SIS) have been set up to collect and infiltrate urban stormwater runoff in order to reduce flooding and to artificially recharge aquifers. Such practices produce environmental changes in shallow groundwater ecosystems like an increase in organic matter concentrations that could drive changes in structure and functions of groundwater microbial communities. Previous works suggested that SIS influence groundwater physico-chemistry during either rainy and dry period but no study has examined the impact of SIS on groundwater microorganisms during both periods. This study aimed to fill this gap by assessing SIS impacts on groundwater quality parameters in three SIS with vadose zone thickness < 3 m during two contrasting meteorological conditions (rainy/dry periods). Physicochemical (dissolved organic carbon and nutrient concentrations) and microbial variables (biomass, dehydrogenase and hydrolytic activities, and bacterial community structure) were assessed on SIS-impacted and non-SIS-impacted zones of the aquifers for the three SIS. Using clay beads incubated in the aquifer to collect microbial biofilm, we show that SIS increased microbial activities, bacterial richness and diversity in groundwater biofilms during the rainy period but not during the dry period. In contrast, the significant differences in dissolved organic carbon and nutrient concentrations, biofilm biomass and bacterial community structures (Bray-Curtis distances, relative abundances of main bacterial orders) measured between SIS-impacted and non-SIS-impacted zones of the aquifer were comparable during the two periods. These results suggest that structural indicators of biofilm like biomass were probably controlled by long-term effects of SIS on concentrations of dissolved organic matter and nutrients whereas biofilm activities and bacterial richness were temporally stimulated by stormwater runoff infiltrations during the rainy period. This decoupling between the structural and functional responses of groundwater biofilms to stormwater infiltration practices suggests that biofilms functions were highly reactive to fluxes associated with aquifer recharge events.
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Affiliation(s)
- Yohan Lebon
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France.
| | - Simon Navel
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France
| | - Maylis Moro
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France
| | - Jérémy Voisin
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France; Univ Lyon, UMR Ecologie Microbienne (LEM), Université Claude Bernard Lyon 1, CNRS 5557, INRA 1418, VetAgro Sup, 69680 Marcy L'Etoile, France
| | - Benoit Cournoyer
- Univ Lyon, UMR Ecologie Microbienne (LEM), Université Claude Bernard Lyon 1, CNRS 5557, INRA 1418, VetAgro Sup, 69680 Marcy L'Etoile, France
| | - Clémentine François
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France
| | - Laurence Volatier
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France
| | - Florian Mermillod-Blondin
- Univ Lyon, Université Claude Bernard Lyon 1, CNRS, ENTPE, UMR5023 LEHNA, F-69622 Villeurbanne, France
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5
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Wisnoski NI, Lennon JT. Microbial community assembly in a multi-layer dendritic metacommunity. Oecologia 2020; 195:13-24. [PMID: 33040164 DOI: 10.1007/s00442-020-04767-w] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/17/2020] [Accepted: 09/21/2020] [Indexed: 01/22/2023]
Abstract
A major goal of metacommunity ecology is to infer the local- and regional-scale processes that underlie community assembly. In dendritic ecological networks, branching patterns and directional flow can alter the balance between local and regional factors during assembly. Vertical habitat structure may further affect community assembly in dendritic metacommunities. In this study, we analyzed the bacterial metacommunity of a fifth-order mountain stream network to assess differences in community assembly (1) between planktonic and benthic habitats, (2) across spatial scales, and (3) between headwater and downstream regions of the network. Using taxonomic and phylogenetic null modeling, we found habitat-specific spatial patterns of community assembly across the dendritic network. Compositional differences between planktonic and benthic communities were maintained by variable selection, but we also found evidence of local dispersal limitation between the two habitats. Planktonic community assembly was scale dependent, transitioning from homogeneous selection at local scales to variable selection at regional scales, while benthic community assembly was less scale dependent. Variable selection structured headwaters in both habitat types, but downstream communities were primarily structured by homogeneous selection, especially in sediments. Taken together, our results show that vertical habitat structure contributes to the scale-dependent processes of community assembly across the dendritic metacommunity.
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Affiliation(s)
| | - Jay T Lennon
- Department of Biology, Indiana University, Bloomington, IN, USA
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6
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Fillinger L, Hug K, Griebler C. Selection imposed by local environmental conditions drives differences in microbial community composition across geographically distinct groundwater aquifers. FEMS Microbiol Ecol 2020; 95:5584335. [PMID: 31598689 PMCID: PMC6821248 DOI: 10.1093/femsec/fiz160] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/07/2019] [Accepted: 10/06/2019] [Indexed: 12/21/2022] Open
Abstract
Several studies have analyzed biogeographic distribution patterns of microbial communities across broad spatial scales. However, it is often unclear to what extent differences in community composition across different regions are caused by dispersal limitation or selection, and if selection is caused by local environmental conditions alone or additional broad-scale region-specific factors. This is especially true for groundwater environments, which have been understudied in this context relative to other non-subsurface habitats. Here, we analyzed microbial community composition based on exact 16S rRNA amplicon sequence variants (ASVs) from four geographically separated aquifers located in different regions along a latitudinal transect of ∼700 km across Germany. Using a combination of variation partitioning and ecological null models revealed that differences in microbial community composition were mainly the product of selection imposed by local environmental conditions and to a smaller but still significant extent dispersal limitation and drift across regions. Only ∼23% of the total variation in microbial community composition remained unexplained, possibly due to underestimated effects of dispersal limitation among local communities within regions and temporal drift. No evidence was found for selection due to region-specific factors independent of local environmental conditions.
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Affiliation(s)
- Lucas Fillinger
- Helmholtz Zentrum München, Institute of Groundwater Ecology, Ingolstädter Landstrasse 1, Neuherberg 85764, Germany
| | - Katrin Hug
- Helmholtz Zentrum München, Institute of Groundwater Ecology, Ingolstädter Landstrasse 1, Neuherberg 85764, Germany
| | - Christian Griebler
- Helmholtz Zentrum München, Institute of Groundwater Ecology, Ingolstädter Landstrasse 1, Neuherberg 85764, Germany.,Department of Limnology & Bio-Oceanography, Centre of Functional Ecology, University of Vienna, Althanstrasse 14, Vienna 1090, Austria
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7
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Geographic Patterns of Bacterioplankton among Lakes of the Middle and Lower Reaches of the Yangtze River Basin, China. Appl Environ Microbiol 2020; 86:AEM.02423-19. [PMID: 31924617 DOI: 10.1128/aem.02423-19] [Citation(s) in RCA: 18] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2019] [Accepted: 12/17/2019] [Indexed: 02/01/2023] Open
Abstract
The revolution of molecular techniques has revealed that the composition of natural bacterial communities normally includes a few abundant taxa and many rare taxa. Unraveling the mechanisms underlying the spatial assembly process of both abundant and rare bacterial taxa has become a central goal in microbial ecology. Here, we used high-throughput sequencing to explore geographic patterns and the relative importance of ecological processes in the assembly of abundant and rare bacterial subcommunities from 25 lakes across the middle and lower reaches of Yangtze River basin (MLYB), located in Southeast China, where most of the lakes are interconnected by river networks. We found similar biogeographic patterns of abundant and rare subcommunities which could significantly distinguish the community compositions of the two lake groups that were far from each other but which could not distinguish the community compositions of the nearby lakes. Both abundant and rare bacteria followed a strong distance-decay relationship. These findings suggest that the interconnectivity between lakes homogenizes the bacterial communities in local areas, and the abundant and rare taxa therein may be affected by the same ecological process. In addition, based on the measured environmental variables, the deterministic processes explain a small fraction of variation within both abundant and rare subcommunities, while both neutral and null models revealed a high stochasticity ratio for the spatial distribution patterns of both abundant and rare taxa. These findings indicate that the stochastic processes exhibited a greater influence on both abundant and rare bacterial subcommunity assemblies among interconnected lakes.IMPORTANCE The middle and lower Yangtze Plain is a typical floodplain in which many lakes connect with each other, especially in the wet season. More importantly, with the frequent change of regional water level in the wet season, there is a mutual hydrodynamic exchange among these lakes. The microbial biogeography among these interconnected lakes is still poorly understood. This study aims to unravel the mechanisms underlying the assembly process of abundant and rare bacteria among the interconnected lakes in the middle and lower Yangtze Plain. Our findings will provide a deeper understanding of the biogeographic patterns of rare and abundant bacterial taxa and their determined processes among interconnected aquatic habitats.
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8
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Mayr MJ, Besemer K, Sieczko A, Demeter K, Peduzzi P. Bacterial community composition and function along spatiotemporal connectivity gradients in the Danube floodplain (Vienna, Austria). AQUATIC SCIENCES 2020; 82:28. [PMID: 32165802 PMCID: PMC7045780 DOI: 10.1007/s00027-020-0700-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/08/2019] [Accepted: 01/02/2020] [Indexed: 05/25/2023]
Abstract
It is well recognized that river-floodplain systems contribute significantly to riverine ecosystem metabolism, and that bacteria are key players in the aquatic organic carbon cycle, but surprisingly few studies have linked bacterial community composition (BCC), function and carbon quality in these hydrologically highly dynamic habitats. We investigated aquatic BCC and extracellular enzymatic activity (EEA) related to dissolved organic carbon quality and algae composition, including the impact of a major flood event in one of the last remaining European semi-natural floodplain-systems. We found that surface connectivity of floodplain pools homogenizes BCC and EEA, whereas low connectivity led to increased BCC and EEA heterogeneity, supported by their relationship to electrical conductivity, an excellent indicator for surface connection strength. Hydrogeochemical parameters best explained variation of both BCC and EEA, while the algal community and chromophoric DOM properties explained only minor fractions of BCC variation. We conclude that intermittent surface connectivity and especially permanent isolation of floodplain pools from the main river channel may severely alter BCC and EEA, with potential consequences for nutrient cycling, ecological services and greenhouse gas emissions. Disentangling microbial structure-function coupling is therefore crucial, if we are to understand and predict the consequences of human alterations on these dynamic systems.
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Affiliation(s)
- Magdalena J. Mayr
- Department of Limnology and Oceanography, University of Vienna, Althanstrasse 14, 1090 Wien, Austria
| | - Katharina Besemer
- WasserCluster Lunz, Dr. Carl Kupelwieser Promenade 5, 3293 Lunz Am See, Austria
| | - Anna Sieczko
- Department of Limnology and Oceanography, University of Vienna, Althanstrasse 14, 1090 Wien, Austria
- Department of Thematic Studies–Environmental Change, Linköping University, Tema M, Campus Valla, 581 83 Linköping, Sweden
| | - Katalin Demeter
- Department of Limnology and Oceanography, University of Vienna, Althanstrasse 14, 1090 Wien, Austria
| | - Peter Peduzzi
- Department of Limnology and Oceanography, University of Vienna, Althanstrasse 14, 1090 Wien, Austria
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9
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Langenheder S, Lindström ES. Factors influencing aquatic and terrestrial bacterial community assembly. ENVIRONMENTAL MICROBIOLOGY REPORTS 2019; 11:306-315. [PMID: 30618071 DOI: 10.1111/1758-2229.12731] [Citation(s) in RCA: 87] [Impact Index Per Article: 17.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/22/2017] [Accepted: 12/26/2018] [Indexed: 05/12/2023]
Abstract
During recent years, many studies have shown that different processes including drift, environmental selection and dispersal can be important for the assembly of bacterial communities in aquatic and terrestrial ecosystems. However, we lack a conceptual overview about the ecological context and factors that influence the relative importance of the different assembly mechanisms and determine their dynamics in time and space. Focusing on free-living, i.e., nonhost associated, bacterial communities, this minireview, therefore, summarizes and conceptualizes findings from empirical studies about how (i) environmental factors, such as environmental heterogeneity, disturbances, productivity and trophic interactions; (ii) connectivity and dispersal rates (iii) spatial scale, (iv) community properties and traits and (v) the use of taxonomic/phylogenetic or functional metrics influence the relative importance of different community assembly processes. We find that there is to-date little consistency among studies and suggest that future studies should now address how (i)-(v) differ between habitats and organisms and how this, in turn, influences the temporal and spatial-scale dependency of community assembly processes in microorganisms.
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Affiliation(s)
- Silke Langenheder
- Department of Ecology and Genetics/Limnology, Uppsala University, Norbyvägen 18D, 75236 Uppsala, Sweden
| | - Eva S Lindström
- Department of Ecology and Genetics/Limnology, Uppsala University, Norbyvägen 18D, 75236 Uppsala, Sweden
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10
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Le HT, Rochelle-Newall E, Auda Y, Ribolzi O, Sengtaheuanghoung O, Thébault E, Soulileuth B, Pommier T. Vicinal land use change strongly drives stream bacterial community in a tropical montane catchment. FEMS Microbiol Ecol 2018; 94:5068686. [DOI: 10.1093/femsec/fiy155] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/20/2018] [Accepted: 08/08/2018] [Indexed: 11/13/2022] Open
Affiliation(s)
- Huong T Le
- Ecologie Microbienne, UMR1418 INRA, UMR 5557 CNRS, UCBL, VetAgro Sup, Université de Lyon, 43 boulevard du 11 novembre 1918, F-69622 Villeurbanne Cedex, France
- Institute of Environmental Technology, Vietnam Academy of Science and Technology, Building A30, 18 Hoang Quoc Viet, Cau Giay, Ha Noi, Vietnam
- iEES-Paris Institut d'Ecologie et des Sciences de l'Environnement de Paris (Sorbonne Universités, CNRS, IRD, INRA, UPEC, Université Paris Diderot), CC237, 4 place Jussieu, 75005 Paris, France
| | - Emma Rochelle-Newall
- iEES-Paris Institut d'Ecologie et des Sciences de l'Environnement de Paris (Sorbonne Universités, CNRS, IRD, INRA, UPEC, Université Paris Diderot), CC237, 4 place Jussieu, 75005 Paris, France
| | - Yves Auda
- Géosciences Environnement Toulouse (GET Université de Toulouse, CNRS, IRD, UPS - 14, avenue Edouard Belin, F-31400 Toulouse, France
| | - Olivier Ribolzi
- Géosciences Environnement Toulouse (GET Université de Toulouse, CNRS, IRD, UPS - 14, avenue Edouard Belin, F-31400 Toulouse, France
| | - Oloth Sengtaheuanghoung
- Department of Agricultural Land Management (DALaM), Ministry of Agriculture and Forestry, P.O Box 4195, Ban Nogviengkham, Xaythany District, BP 7170 Vientiane, Laos PDR
| | - Elisa Thébault
- iEES-Paris Institut d'Ecologie et des Sciences de l'Environnement de Paris (Sorbonne Universités, CNRS, IRD, INRA, UPEC, Université Paris Diderot), CC237, 4 place Jussieu, 75005 Paris, France
| | - Bounsamay Soulileuth
- Institut pour la Recherche et le Développement (IRD), Ban Sisangvone, BP5992, Vientiane, Laos PDR
| | - Thomas Pommier
- Ecologie Microbienne, UMR1418 INRA, UMR 5557 CNRS, UCBL, VetAgro Sup, Université de Lyon, 43 boulevard du 11 novembre 1918, F-69622 Villeurbanne Cedex, France
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11
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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: 64] [Impact Index Per Article: 10.7] [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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12
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Yabusaki SB, Wilkins MJ, Fang Y, Williams KH, Arora B, Bargar J, Beller HR, Bouskill NJ, Brodie EL, Christensen JN, Conrad ME, Danczak RE, King E, Soltanian MR, Spycher NF, Steefel CI, Tokunaga TK, Versteeg R, Waichler SR, Wainwright HM. Water Table Dynamics and Biogeochemical Cycling in a Shallow, Variably-Saturated Floodplain. ENVIRONMENTAL SCIENCE & TECHNOLOGY 2017; 51:3307-3317. [PMID: 28218533 DOI: 10.1021/acs.est.6b04873] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Three-dimensional variably saturated flow and multicomponent biogeochemical reactive transport modeling, based on published and newly generated data, is used to better understand the interplay of hydrology, geochemistry, and biology controlling the cycling of carbon, nitrogen, oxygen, iron, sulfur, and uranium in a shallow floodplain. In this system, aerobic respiration generally maintains anoxic groundwater below an oxic vadose zone until seasonal snowmelt-driven water table peaking transports dissolved oxygen (DO) and nitrate from the vadose zone into the alluvial aquifer. The response to this perturbation is localized due to distinct physico-biogeochemical environments and relatively long time scales for transport through the floodplain aquifer and vadose zone. Naturally reduced zones (NRZs) containing sediments higher in organic matter, iron sulfides, and non-crystalline U(IV) rapidly consume DO and nitrate to maintain anoxic conditions, yielding Fe(II) from FeS oxidative dissolution, nitrite from denitrification, and U(VI) from nitrite-promoted U(IV) oxidation. Redox cycling is a key factor for sustaining the observed aquifer behaviors despite continuous oxygen influx and the annual hydrologically induced oxidation event. Depth-dependent activity of fermenters, aerobes, nitrate reducers, sulfate reducers, and chemolithoautotrophs (e.g., oxidizing Fe(II), S compounds, and ammonium) is linked to the presence of DO, which has higher concentrations near the water table.
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Affiliation(s)
- Steven B Yabusaki
- Pacific Northwest National Laboratory , Richland, Washington 99354, United States
| | | | - Yilin Fang
- Pacific Northwest National Laboratory , Richland, Washington 99354, United States
| | - Kenneth H Williams
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Bhavna Arora
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - John Bargar
- Stanford Synchrotron Radiation Lightsource, SLAC National Accelerator Laboratory , Menlo Park, California 94025, United States
| | - Harry R Beller
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Nicholas J Bouskill
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Eoin L Brodie
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - John N Christensen
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Mark E Conrad
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | | | - Eric King
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | | | - Nicolas F Spycher
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Carl I Steefel
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Tetsu K Tokunaga
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
| | - Roelof Versteeg
- Subsurface Insights , Hanover, New Hampshire 03755, United States
| | - Scott R Waichler
- Pacific Northwest National Laboratory , Richland, Washington 99354, United States
| | - Haruko M Wainwright
- Lawrence Berkeley National Laboratory , Berkeley, California 94720, United States
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