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Pankratov D, Hidalgo Martinez S, Karman C, Gerzhik A, Gomila G, Trashin S, Boschker HTS, Geelhoed JS, Mayer D, De Wael K, J R Meysman F. The organo-metal-like nature of long-range conduction in cable bacteria. Bioelectrochemistry 2024; 157:108675. [PMID: 38422765 DOI: 10.1016/j.bioelechem.2024.108675] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Revised: 02/22/2024] [Accepted: 02/24/2024] [Indexed: 03/02/2024]
Abstract
Cable bacteria are filamentous, multicellular microorganisms that display an exceptional form of biological electron transport across centimeter-scale distances. Currents are guided through a network of nickel-containing protein fibers within the cell envelope. Still, the mechanism of long-range conduction remains unresolved. Here, we characterize the conductance of the fiber network under dry and wet, physiologically relevant, conditions. Our data reveal that the fiber conductivity is high (median value: 27 S cm-1; range: 2 to 564 S cm-1), does not show any redox signature, has a low thermal activation energy (Ea = 69 ± 23 meV), and is not affected by humidity or the presence of ions. These features set the nickel-based conduction mechanism in cable bacteria apart from other known forms of biological electron transport. As such, conduction resembles that of an organic semi-metal with a high charge carrier density. Our observation that biochemistry can synthesize an organo-metal-like structure opens the way for novel bio-based electronic technologies.
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Affiliation(s)
- Dmitrii Pankratov
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium; A-Sense Lab, Department of Bioscience Engineering, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerpen, Belgium
| | - Silvia Hidalgo Martinez
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium
| | - Cheryl Karman
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium; A-Sense Lab, Department of Bioscience Engineering, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerpen, Belgium
| | - Anastasia Gerzhik
- Institute of Biological Information Processing, Bioelectronics (IBI-3), Forschungszentrum Jülich, 52428 Jülich, Germany
| | - Gabriel Gomila
- Nanoscale Bioelectric Characterization Group, Institute for Bioengineering of Catalunya (IBEC), The Barcelona Institute of Science and Technology, Baldiri i Reixac 15-21, 08028 Barcelona, Spain; Department of Electronics and Biomedical Engineering, Universitat de Barcelona, Martí i Franqués 1, 08028 Barcelona, Spain
| | - Stanislav Trashin
- A-Sense Lab, Department of Bioscience Engineering, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerpen, Belgium
| | - Henricus T S Boschker
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium; Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629HZ Delft, the Netherlands
| | - Jeanine S Geelhoed
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium
| | - Dirk Mayer
- Institute of Biological Information Processing, Bioelectronics (IBI-3), Forschungszentrum Jülich, 52428 Jülich, Germany
| | - Karolien De Wael
- A-Sense Lab, Department of Bioscience Engineering, University of Antwerp, Groenenborgerlaan 171, B-2020 Antwerpen, Belgium
| | - Filip J R Meysman
- Geobiology Group, Microbial Systems Technology Excellence Centre, Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium; Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629HZ Delft, the Netherlands.
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Decorte T, Mortier S, Lembrechts JJ, Meysman FJR, Latré S, Mannens E, Verdonck T. Missing Value Imputation of Wireless Sensor Data for Environmental Monitoring. Sensors (Basel) 2024; 24:2416. [PMID: 38676032 PMCID: PMC11053546 DOI: 10.3390/s24082416] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/05/2024] [Revised: 04/04/2024] [Accepted: 04/08/2024] [Indexed: 04/28/2024]
Abstract
Over the past few years, the scale of sensor networks has greatly expanded. This generates extended spatiotemporal datasets, which form a crucial information resource in numerous fields, ranging from sports and healthcare to environmental science and surveillance. Unfortunately, these datasets often contain missing values due to systematic or inadvertent sensor misoperation. This incompleteness hampers the subsequent data analysis, yet addressing these missing observations forms a challenging problem. This is especially the case when both the temporal correlation of timestamps within a single sensor and the spatial correlation between sensors are important. Here, we apply and evaluate 12 imputation methods to complete the missing values in a dataset originating from large-scale environmental monitoring. As part of a large citizen science project, IoT-based microclimate sensors were deployed for six months in 4400 gardens across the region of Flanders, generating 15-min recordings of temperature and soil moisture. Methods based on spatial recovery as well as time-based imputation were evaluated, including Spline Interpolation, MissForest, MICE, MCMC, M-RNN, BRITS, and others. The performance of these imputation methods was evaluated for different proportions of missing data (ranging from 10% to 50%), as well as a realistic missing value scenario. Techniques leveraging the spatial features of the data tend to outperform the time-based methods, with matrix completion techniques providing the best performance. Our results therefore provide a tool to maximize the benefit from costly, large-scale environmental monitoring efforts.
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Affiliation(s)
- Thomas Decorte
- Department of Mathematics, University of Antwerp-imec, Middelheimlaan 1, 2000 Antwerp, Belgium;
| | - Steven Mortier
- IDLab, Department of Computer Science, University of Antwerp-imec, Sint-Pietersvliet 7, 2000 Antwerp, Belgium; (S.M.); (S.L.); (E.M.)
| | - Jonas J. Lembrechts
- Plants and Ecosystems, Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Antwerp, Belgium;
| | - Filip J. R. Meysman
- Geobiology, Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Antwerp, Belgium;
| | - Steven Latré
- IDLab, Department of Computer Science, University of Antwerp-imec, Sint-Pietersvliet 7, 2000 Antwerp, Belgium; (S.M.); (S.L.); (E.M.)
| | - Erik Mannens
- IDLab, Department of Computer Science, University of Antwerp-imec, Sint-Pietersvliet 7, 2000 Antwerp, Belgium; (S.M.); (S.L.); (E.M.)
| | - Tim Verdonck
- Department of Mathematics, University of Antwerp-imec, Middelheimlaan 1, 2000 Antwerp, Belgium;
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3
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Burdorf LDW, van de Velde SJ, Hidalgo-Martinez S, Meysman FJR. Cable bacteria delay euxinia and modulate phosphorus release in coastal hypoxic systems. R Soc Open Sci 2024; 11:231991. [PMID: 38633354 PMCID: PMC11021937 DOI: 10.1098/rsos.231991] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 12/21/2023] [Revised: 03/01/2024] [Accepted: 03/01/2024] [Indexed: 04/19/2024]
Abstract
Cable bacteria are long, filamentous bacteria with a unique metabolism involving centimetre-scale electron transport. They are widespread in the sediment of seasonally hypoxic systems and their metabolic activity stimulates the dissolution of iron sulfides (FeS), releasing large quantities of ferrous iron (Fe2+) into the pore water. Upon contact with oxygen, Fe2+ oxidation forms a layer of iron(oxyhydr)oxides (FeOx), which in its turn can oxidize free sulfide (H2S) and trap phosphorus (P) diffusing upward. The metabolism of cable bacteria could thus prevent the release of H2S from the sediment and reduce the risk of euxinia, while at the same time modulating P release over seasonal timescales. However, experimental support for this so-called 'iron firewall hypothesis' is scarce. Here, we collected natural sediment in a seasonally hypoxic basin in three different seasons. Undisturbed sediment cores were incubated under anoxic conditions and the effluxes of H2S, dissolved iron (dFe) and phosphate (PO4 3-) were monitored for up to 140 days. Cores with recent cable bacterial activity revealed a high stock of sedimentary FeOx, which delayed the efflux of H2S for up to 102 days. Our results demonstrate that the iron firewall mechanism could exert an important control on the prevalence of euxinia and regulate the P release in coastal oceans.
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Affiliation(s)
- Laurine D. W. Burdorf
- Geobiology Research Group, Department of Biology, University of Antwerp, Antwerp, Belgium
| | | | | | - Filip J. R. Meysman
- Geobiology Research Group, Department of Biology, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, The Netherlands
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Smets B, Boschker HTS, Wetherington MT, Lelong G, Hidalgo-Martinez S, Polerecky L, Nuyts G, De Wael K, Meysman FJR. Multi-wavelength Raman microscopy of nickel-based electron transport in cable bacteria. Front Microbiol 2024; 15:1208033. [PMID: 38525072 PMCID: PMC10959288 DOI: 10.3389/fmicb.2024.1208033] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2023] [Accepted: 02/26/2024] [Indexed: 03/26/2024] Open
Abstract
Cable bacteria embed a network of conductive protein fibers in their cell envelope that efficiently guides electron transport over distances spanning up to several centimeters. This form of long-distance electron transport is unique in biology and is mediated by a metalloprotein with a sulfur-coordinated nickel (Ni) cofactor. However, the molecular structure of this cofactor remains presently unknown. Here, we applied multi-wavelength Raman microscopy to identify cell compounds linked to the unique cable bacterium physiology, combined with stable isotope labeling, and orientation-dependent and ultralow-frequency Raman microscopy to gain insight into the structure and organization of this novel Ni-cofactor. Raman spectra of native cable bacterium filaments reveal vibrational modes originating from cytochromes, polyphosphate granules, proteins, as well as the Ni-cofactor. After selective extraction of the conductive fiber network from the cell envelope, the Raman spectrum becomes simpler, and primarily retains vibrational modes associated with the Ni-cofactor. These Ni-cofactor modes exhibit intense Raman scattering as well as a strong orientation-dependent response. The signal intensity is particularly elevated when the polarization of incident laser light is parallel to the direction of the conductive fibers. This orientation dependence allows to selectively identify the modes that are associated with the Ni-cofactor. We identified 13 such modes, some of which display strong Raman signals across the entire range of applied wavelengths (405-1,064 nm). Assignment of vibrational modes, supported by stable isotope labeling, suggest that the structure of the Ni-cofactor shares a resemblance with that of nickel bis(1,2-dithiolene) complexes. Overall, our results indicate that cable bacteria have evolved a unique cofactor structure that does not resemble any of the known Ni-cofactors in biology.
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Affiliation(s)
- Bent Smets
- Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Henricus T. S. Boschker
- Department of Biology, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | - Maxwell T. Wetherington
- Materials Characterization Laboratory, Pennsylvania State University, State College, PA, United States
| | - Gérald Lelong
- Institut de Minéralogie, de Physique des Matériaux et Cosmochimie (IMPMC), Sorbonne Universités, France—Muséum National d’Histoire Naturelle, Paris, France
| | | | - Lubos Polerecky
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
| | - Gert Nuyts
- Department of Bioscience Engineering, University of Antwerp, Antwerp, Belgium
- Department of Physics, University of Antwerp, Antwerp, Belgium
| | - Karolien De Wael
- Department of Bioscience Engineering, University of Antwerp, Antwerp, Belgium
| | - Filip J. R. Meysman
- Department of Biology, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
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5
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Hiralal A, Geelhoed JS, Hidalgo-Martinez S, Smets B, van Dijk JR, Meysman FJR. Closing the genome of unculturable cable bacteria using a combined metagenomic assembly of long and short sequencing reads. Microb Genom 2024; 10:001197. [PMID: 38376381 PMCID: PMC10926707 DOI: 10.1099/mgen.0.001197] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/13/2023] [Accepted: 01/23/2024] [Indexed: 02/21/2024] Open
Abstract
Many environmentally relevant micro-organisms cannot be cultured, and even with the latest metagenomic approaches, achieving complete genomes for specific target organisms of interest remains a challenge. Cable bacteria provide a prominent example of a microbial ecosystem engineer that is currently unculturable. They occur in low abundance in natural sediments, but due to their capability for long-distance electron transport, they exert a disproportionately large impact on the biogeochemistry of their environment. Current available genomes of marine cable bacteria are highly fragmented and incomplete, hampering the elucidation of their unique electrogenic physiology. Here, we present a metagenomic pipeline that combines Nanopore long-read and Illumina short-read shotgun sequencing. Starting from a clonal enrichment of a cable bacterium, we recovered a circular metagenome-assembled genome (5.09 Mbp in size), which represents a novel cable bacterium species with the proposed name Candidatus Electrothrix scaldis. The closed genome contains 1109 novel identified genes, including key metabolic enzymes not previously described in incomplete genomes of cable bacteria. We examined in detail the factors leading to genome closure. Foremost, native, non-amplified long reads are crucial to resolve the many repetitive regions within the genome of cable bacteria, and by analysing the whole metagenomic assembly, we found that low strain diversity is key for achieving genome closure. The insights and approaches presented here could help achieve genome closure for other keystone micro-organisms present in complex environmental samples at low abundance.
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Affiliation(s)
- Anwar Hiralal
- Geobiology Research Group, University of Antwerp, Antwerp, Belgium
| | | | | | - Bent Smets
- Geobiology Research Group, University of Antwerp, Antwerp, Belgium
| | | | - Filip J. R. Meysman
- Geobiology Research Group, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
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van der Veen JR, Valianti S, van der Zant HSJ, Blanter YM, Meysman FJR. A model analysis of centimeter-long electron transport in cable bacteria. Phys Chem Chem Phys 2024; 26:3139-3151. [PMID: 38189548 DOI: 10.1039/d3cp04466a] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/09/2024]
Abstract
The recent discovery of cable bacteria has greatly expanded the known length scale of biological electron transport, as these multi-cellular bacteria are capable of mediating electrical currents across centimeter-scale distances. To enable such long-range conduction, cable bacteria embed a network of regularly spaced, parallel protein fibers in their cell envelope. These fibers exhibit extraordinary electrical properties for a biological material, including an electrical conductivity that can exceed 100 S cm-1. Traditionally, long-range electron transport through proteins is described as a multi-step hopping process, in which the individual hopping steps are described by Marcus electron transport theory. Here, we investigate to what extent such a classical hopping model can explain the conductance data recorded for individual cable bacterium filaments. To this end, the conductive fiber network in cable bacteria is modelled as a set of parallel one-dimensional hopping chains. Comparison of model simulated and experimental current(I)/voltage(V) curves, reveals that the charge transport is field-driven rather than concentration-driven, and there is no significant injection barrier between electrodes and filaments. However, the observed high conductivity levels (>100 S cm-1) can only be reproduced, if we include much longer hopping distances (a > 10 nm) and lower reorganisation energies (λ < 0.2 eV) than conventionally used in electron relay models of protein structures. Overall, our model analysis suggests that the conduction mechanism in cable bacteria is markedly distinct from other known forms of long-range biological electron transport, such as in multi-heme cytochromes.
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Affiliation(s)
- Jasper R van der Veen
- Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, Delft, 2628CJ, The Netherlands.
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, Delft, 2629HZ, The Netherlands
| | - Stephanie Valianti
- Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, Delft, 2628CJ, The Netherlands.
| | - Herre S J van der Zant
- Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, Delft, 2628CJ, The Netherlands.
| | - Yaroslav M Blanter
- Kavli Institute of Nanoscience, Delft University of Technology, Lorentzweg 1, Delft, 2628CJ, The Netherlands.
| | - Filip J R Meysman
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, Delft, 2629HZ, The Netherlands
- Excellence center for Microbial Systems Technology, University of Antwerp, Universiteitsplein 1, Wilrijk, 2610, Belgium.
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Geelhoed JS, Thorup CA, Bjerg JJ, Schreiber L, Nielsen LP, Schramm A, Meysman FJR, Marshall IPG. Indications for a genetic basis for big bacteria and description of the giant cable bacterium Candidatus Electrothrix gigas sp. nov. Microbiol Spectr 2023; 11:e0053823. [PMID: 37732806 PMCID: PMC10580974 DOI: 10.1128/spectrum.00538-23] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2023] [Accepted: 07/21/2023] [Indexed: 09/22/2023] Open
Abstract
Bacterial cells can vary greatly in size, from a few hundred nanometers to hundreds of micrometers in diameter. Filamentous cable bacteria also display substantial size differences, with filament diameters ranging from 0.4 to 8 µm. We analyzed the genomes of cable bacterium filaments from 11 coastal environments of which the resulting 23 new genomes represent 10 novel species-level clades of Candidatus Electrothrix and two clades that putatively represent novel genus-level diversity. Fluorescence in situ hybridization with a species-level probe showed that large-sized cable bacteria belong to a novel species with the proposed name Ca. Electrothrix gigas. Comparative genome analysis suggests genes that play a role in the construction or functioning of large cable bacteria cells: the genomes of Ca. Electrothrix gigas encode a novel actin-like protein as well as a species-specific gene cluster encoding four putative pilin proteins and a putative type II secretion platform protein, which are not present in other cable bacteria. The novel actin-like protein was also found in a number of other giant bacteria, suggesting there could be a genetic basis for large cell size. This actin-like protein (denoted big bacteria protein, Bbp) may have a function analogous to other actin proteins in cell structure or intracellular transport. We contend that Bbp may help overcome the challenges of diffusion limitation and/or morphological complexity presented by the large cells of Ca. Electrothrix gigas and other giant bacteria. IMPORTANCE In this study, we substantially expand the known diversity of marine cable bacteria and describe cable bacteria with a large diameter as a novel species with the proposed name Candidatus Electrothrix gigas. In the genomes of this species, we identified a gene that encodes a novel actin-like protein [denoted big bacteria protein (Bbp)]. The bbp gene was also found in a number of other giant bacteria, predominantly affiliated to Desulfobacterota and Gammaproteobacteria, indicating that there may be a genetic basis for large cell size. Thus far, mostly structural adaptations of giant bacteria, vacuoles, and other inclusions or organelles have been observed, which are employed to overcome nutrient diffusion limitation in their environment. In analogy to other actin proteins, Bbp could fulfill a structural role in the cell or potentially facilitate intracellular transport.
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Affiliation(s)
- Jeanine S. Geelhoed
- Department of Biology, Research Group Geobiology, University of Antwerp, Wilrijk, Belgium
| | - Casper A. Thorup
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
| | - Jesper J. Bjerg
- Department of Biology, Research Group Geobiology, University of Antwerp, Wilrijk, Belgium
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
| | - Lars Schreiber
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
| | - Lars Peter Nielsen
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
| | - Andreas Schramm
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
| | - Filip J. R. Meysman
- Department of Biology, Research Group Geobiology, University of Antwerp, Wilrijk, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, the Netherlands
| | - Ian P. G. Marshall
- Department of Biology, Center for Electromicrobiology, Aarhus University, Aarhus, Denmark
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Vasquez-Cardenas D, Hidalgo-Martinez S, Hulst L, Thorleifsdottir T, Helgason GV, Eiriksson T, Geelhoed JS, Agustsson T, Moodley L, Meysman FJR. Biogeochemical impacts of fish farming on coastal sediments: Insights into the functional role of cable bacteria. Front Microbiol 2022; 13:1034401. [PMID: 36620049 PMCID: PMC9814725 DOI: 10.3389/fmicb.2022.1034401] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2022] [Accepted: 12/05/2022] [Indexed: 12/24/2022] Open
Abstract
Fish farming in sea cages is a growing component of the global food industry. A prominent ecosystem impact of this industry is the increase in the downward flux of organic matter, which stimulates anaerobic mineralization and sulfide production in underlying sediments. When free sulfide is released to the overlying water, this can have a toxic effect on local marine ecosystems. The microbially-mediated process of sulfide oxidation has the potential to be an important natural mitigation and prevention strategy that has not been studied in fish farm sediments. We examined the microbial community composition (DNA-based 16S rRNA gene) underneath two active fish farms on the Southwestern coast of Iceland and performed laboratory incubations of resident sediment. Field observations confirmed the strong geochemical impact of fish farming on the sediment (up to 150 m away from cages). Sulfide accumulation was evidenced under the cages congruent with a higher supply of degradable organic matter from the cages. Phylogenetically diverse microbes capable of sulfide detoxification were present in the field sediment as well as in lab incubations, including cable bacteria (Candidatus Electrothrix), which display a unique metabolism based on long-distance electron transport. Microsensor profiling revealed that the activity of cable bacteria did not exert a dominant impact on the geochemistry of fish farm sediment at the time of sampling. However, laboratory incubations that mimic the recovery process during fallowing, revealed successful enrichment of cable bacteria within weeks, with concomitant high sulfur-oxidizing activity. Overall our results give insight into the role of microbially-mediated sulfide detoxification in aquaculture impacted sediments.
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Affiliation(s)
- Diana Vasquez-Cardenas
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands,Geobiology, Department of Biology, University of Antwerp, Antwerp, Belgium,*Correspondence: Diana Vasquez-Cardenas,
| | | | - Lucas Hulst
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | | | | | | | | | | | - Leon Moodley
- NORCE Norwegian Research Centre, Randaberg, Norway
| | - Filip J. R. Meysman
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands,Geobiology, Department of Biology, University of Antwerp, Antwerp, Belgium
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9
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van de Velde SJ, Burdorf LDW, Hidalgo-Martinez S, Leermakers M, Meysman FJR. Cable Bacteria Activity Modulates Arsenic Release From Sediments in a Seasonally Hypoxic Marine Basin. Front Microbiol 2022; 13:907976. [PMID: 35910627 PMCID: PMC9329047 DOI: 10.3389/fmicb.2022.907976] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/30/2022] [Accepted: 05/30/2022] [Indexed: 12/01/2022] Open
Abstract
Eutrophication and global change are increasing the occurrence of seasonal hypoxia (bottom-water oxygen concentration <63 μM) in coastal systems worldwide. In extreme cases, the bottom water can become completely anoxic, allowing sulfide to escape from the sediments and leading to the development of bottom-water euxinia. In seasonally hypoxic coastal basins, electrogenic sulfur oxidation by long, filamentous cable bacteria has been shown to stimulate the formation of an iron oxide layer near the sediment-water interface, while the bottom waters are oxygenated. Upon the development of bottom-water anoxia, this iron oxide “firewall” prevents the sedimentary release of sulfide. Iron oxides also act as an adsorption trap for elements such as arsenic. Arsenic is a toxic trace metal, and its release from sediments can have a negative impact on marine ecosystems. Yet, it is currently unknown how electrogenic sulfur oxidation impacts arsenic cycling in seasonally hypoxic basins. In this study, we presented results from a seasonal field study of an uncontaminated marine lake, complemented with a long-term sediment core incubation experiment, which reveals that cable bacteria have a strong impact on the arsenic cycle in a seasonally hypoxic system. Electrogenic sulfur oxidation significantly modulates the arsenic fluxes over a seasonal time scale by enriching arsenic in the iron oxide layer near the sediment-water interface in the oxic period and pulse-releasing arsenic during the anoxic period. Fluxes as large as 20 μmol m−2 day−1 were measured, which are comparable to As fluxes reported from highly contaminated sediments. Since cable bacteria are recognized as active components of the microbial community in seasonally hypoxic systems worldwide, this seasonal amplification of arsenic fluxes is likely a widespread phenomenon.
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Affiliation(s)
- Sebastiaan J. van de Velde
- Department of Geoscience, Environment and Society, Université Libre de Bruxelles, Brussels, Belgium
- Operational Directorate Natural Environment, Royal Belgian Institute of Natural Sciences, Brussels, Belgium
- *Correspondence: Sebastiaan J. van de Velde
| | - Laurine D. W. Burdorf
- Microbial Systems Technology, Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Silvia Hidalgo-Martinez
- Microbial Systems Technology, Department of Biology, University of Antwerp, Antwerp, Belgium
| | - Martine Leermakers
- Analytical, Environmental and Geo-Chemistry, Department of Chemistry, Vrije Universiteit Brussel, Brussels, Belgium
| | - Filip J. R. Meysman
- Microbial Systems Technology, Department of Biology, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
- Filip J. R. Meysman
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10
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de Bruin S, Vasquez-Cardenas D, Sarbu SM, Meysman FJR, Sousa DZ, van Loosdrecht MCM, Lin Y. Sulfated glycosaminoglycan-like polymers are present in an acidophilic biofilm from a sulfidic cave. Sci Total Environ 2022; 829:154472. [PMID: 35276175 DOI: 10.1016/j.scitotenv.2022.154472] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/22/2021] [Revised: 02/21/2022] [Accepted: 03/07/2022] [Indexed: 06/14/2023]
Abstract
Sulfated glycosaminoglycans (sGAG) are negatively charged extracellular polymeric substances that occur in biofilms from various environments. Yet, it remains unclear whether these polymers are acquired from the external environment or produced by microbes in the biofilm. To resolve this, we analyzed the presence of sGAGs in samples of an acidophilic biofilm collected from Sulfur Cave in Puturosu Mountain (Romania), an environment that is largely inaccessible to contamination. A maximum of 55.16 ± 2.06 μg sGAG-like polymers were recovered per mg of EPS. Enzymatic treatment with chondroitinase ABC resulted in a decrease of the mass of these polymers, suggesting the structure of the recovered sGAG is similar to chondroitin. Subsequent FT-IR analysis of these polymers revealed absorbance bands at 1230 cm-1, 1167 cm-1 and 900 cm-1, indicating a possible presence of polysaccharides and sulfate. Analysis of genomic sequences closely related to those predominant in the acidophilic biofilm, contained genes coding for sulfotransferase (an enzyme needed for the production of sGAG), which supports the hypothesis of microbial synthesis of sGAGs within the biofilm.
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Affiliation(s)
- S de Bruin
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands.
| | - D Vasquez-Cardenas
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands; Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium
| | - S M Sarbu
- Department of Biological Sciences, California State University, 400 West 1st St, Chico, CA 95926-515, USA; Emil G. Racoviță Institute, Babeș-Bolyai University, Clinicilor 5-7, 400006 Cluj-Napoca, Romania
| | - F J R Meysman
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands; Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium
| | - D Z Sousa
- Laboratory of Microbiology, Wageningen University & Research, Stippeneng 4, 6708 WE Wageningen, the Netherlands
| | - M C M van Loosdrecht
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands
| | - Y Lin
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, the Netherlands
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11
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Geerlings NMJ, Kienhuis MVM, Hidalgo-Martinez S, Hageman R, Vasquez-Cardenas D, Middelburg JJ, Meysman FJR, Polerecky L. Polyphosphate Dynamics in Cable Bacteria. Front Microbiol 2022; 13:883807. [PMID: 35663875 PMCID: PMC9159916 DOI: 10.3389/fmicb.2022.883807] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2022] [Accepted: 04/18/2022] [Indexed: 11/14/2022] Open
Abstract
Cable bacteria are multicellular sulfide oxidizing bacteria that display a unique metabolism based on long-distance electron transport. Cells in deeper sediment layers perform the sulfide oxidizing half-reaction whereas cells in the surface layers of the sediment perform the oxygen-reducing half-reaction. These half-reactions are coupled via electron transport through a conductive fiber network that runs along the shared cell envelope. Remarkably, only the sulfide oxidizing half-reaction is coupled to biosynthesis and growth whereas the oxygen reducing half-reaction serves to rapidly remove electrons from the conductive fiber network and is not coupled to energy generation and growth. Cells residing in the oxic zone are believed to (temporarily) rely on storage compounds of which polyphosphate (poly-P) is prominently present in cable bacteria. Here we investigate the role of poly-P in the metabolism of cable bacteria within the different redox environments. To this end, we combined nanoscale secondary ion mass spectrometry with dual-stable isotope probing (13C-DIC and 18O-H2O) to visualize the relationship between growth in the cytoplasm (13C-enrichment) and poly-P activity (18O-enrichment). We found that poly-P was synthesized in almost all cells, as indicated by 18O enrichment of poly-P granules. Hence, poly-P must have an important function in the metabolism of cable bacteria. Within the oxic zone of the sediment, where little growth is observed, 18O enrichment in poly-P granules was significantly lower than in the suboxic zone. Thus, both growth and poly-P metabolism appear to be correlated to the redox environment. However, the poly-P metabolism is not coupled to growth in cable bacteria, as many filaments from the suboxic zone showed poly-P activity but did not grow. We hypothesize that within the oxic zone, poly-P is used to protect the cells against oxidative stress and/or as a resource to support motility, while within the suboxic zone, poly-P is involved in the metabolic regulation before cells enter a non-growing stage.
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Affiliation(s)
- Nicole M. J. Geerlings
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
- *Correspondence: Nicole M. J. Geerlings,
| | | | - Silvia Hidalgo-Martinez
- Excellence centre for Microbial Systems Technology, University of Antwerp, Wilrijk, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | - Renee Hageman
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
| | - Diana Vasquez-Cardenas
- Excellence centre for Microbial Systems Technology, University of Antwerp, Wilrijk, Belgium
| | | | - Filip J. R. Meysman
- Excellence centre for Microbial Systems Technology, University of Antwerp, Wilrijk, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | - Lubos Polerecky
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
- Lubos Polerecky,
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12
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Lembrechts JJ, van den Hoogen J, Aalto J, Ashcroft MB, De Frenne P, Kemppinen J, Kopecký M, Luoto M, Maclean IMD, Crowther TW, Bailey JJ, Haesen S, Klinges DH, Niittynen P, Scheffers BR, Van Meerbeek K, Aartsma P, Abdalaze O, Abedi M, Aerts R, Ahmadian N, Ahrends A, Alatalo JM, Alexander JM, Allonsius CN, Altman J, Ammann C, Andres C, Andrews C, Ardö J, Arriga N, Arzac A, Aschero V, Assis RL, Assmann JJ, Bader MY, Bahalkeh K, Barančok P, Barrio IC, Barros A, Barthel M, Basham EW, Bauters M, Bazzichetto M, Marchesini LB, Bell MC, Benavides JC, Benito Alonso JL, Berauer BJ, Bjerke JW, Björk RG, Björkman MP, Björnsdóttir K, Blonder B, Boeckx P, Boike J, Bokhorst S, Brum BNS, Brůna J, Buchmann N, Buysse P, Camargo JL, Campoe OC, Candan O, Canessa R, Cannone N, Carbognani M, Carnicer J, Casanova‐Katny A, Cesarz S, Chojnicki B, Choler P, Chown SL, Cifuentes EF, Čiliak M, Contador T, Convey P, Cooper EJ, Cremonese E, Curasi SR, Curtis R, Cutini M, Dahlberg CJ, Daskalova GN, de Pablo MA, Della Chiesa S, Dengler J, Deronde B, Descombes P, Di Cecco V, Di Musciano M, Dick J, Dimarco RD, Dolezal J, Dorrepaal E, Dušek J, Eisenhauer N, Eklundh L, Erickson TE, Erschbamer B, Eugster W, Ewers RM, Exton DA, Fanin N, Fazlioglu F, Feigenwinter I, Fenu G, Ferlian O, Fernández Calzado MR, Fernández‐Pascual E, Finckh M, Higgens RF, Forte TGW, Freeman EC, Frei ER, Fuentes‐Lillo E, García RA, García MB, Géron C, Gharun M, Ghosn D, Gigauri K, Gobin A, Goded I, Goeckede M, Gottschall F, Goulding K, Govaert S, Graae BJ, Greenwood S, Greiser C, Grelle A, Guénard B, Guglielmin M, Guillemot J, Haase P, Haider S, Halbritter AH, Hamid M, Hammerle A, Hampe A, Haugum SV, Hederová L, Heinesch B, Helfter C, Hepenstrick D, Herberich M, Herbst M, Hermanutz L, Hik DS, Hoffrén R, Homeier J, Hörtnagl L, Høye TT, Hrbacek F, Hylander K, Iwata H, Jackowicz‐Korczynski MA, Jactel H, Järveoja J, Jastrzębowski S, Jentsch A, Jiménez JJ, Jónsdóttir IS, Jucker T, Jump AS, Juszczak R, Kanka R, Kašpar V, Kazakis G, Kelly J, Khuroo AA, Klemedtsson L, Klisz M, Kljun N, Knohl A, Kobler J, Kollár J, Kotowska MM, Kovács B, Kreyling J, Lamprecht A, Lang SI, Larson C, Larson K, Laska K, le Maire G, Leihy RI, Lens L, Liljebladh B, Lohila A, Lorite J, Loubet B, Lynn J, Macek M, Mackenzie R, Magliulo E, Maier R, Malfasi F, Máliš F, Man M, Manca G, Manco A, Manise T, Manolaki P, Marciniak F, Matula R, Mazzolari AC, Medinets S, Medinets V, Meeussen C, Merinero S, Mesquita RDCG, Meusburger K, Meysman FJR, Michaletz ST, Milbau A, Moiseev D, Moiseev P, Mondoni A, Monfries R, Montagnani L, Moriana‐Armendariz M, Morra di Cella U, Mörsdorf M, Mosedale JR, Muffler L, Muñoz‐Rojas M, Myers JA, Myers‐Smith IH, Nagy L, Nardino M, Naujokaitis‐Lewis I, Newling E, Nicklas L, Niedrist G, Niessner A, Nilsson MB, Normand S, Nosetto MD, Nouvellon Y, Nuñez MA, Ogaya R, Ogée J, Okello J, Olejnik J, Olesen JE, Opedal ØH, Orsenigo S, Palaj A, Pampuch T, Panov AV, Pärtel M, Pastor A, Pauchard A, Pauli H, Pavelka M, Pearse WD, Peichl M, Pellissier L, Penczykowski RM, Penuelas J, Petit Bon M, Petraglia A, Phartyal SS, Phoenix GK, Pio C, Pitacco A, Pitteloud C, Plichta R, Porro F, Portillo‐Estrada M, Poulenard J, Poyatos R, Prokushkin AS, Puchalka R, Pușcaș M, Radujković D, Randall K, Ratier Backes A, Remmele S, Remmers W, Renault D, Risch AC, Rixen C, Robinson SA, Robroek BJM, Rocha AV, Rossi C, Rossi G, Roupsard O, Rubtsov AV, Saccone P, Sagot C, Sallo Bravo J, Santos CC, Sarneel JM, Scharnweber T, Schmeddes J, Schmidt M, Scholten T, Schuchardt M, Schwartz N, Scott T, Seeber J, Segalin de Andrade AC, Seipel T, Semenchuk P, Senior RA, Serra‐Diaz JM, Sewerniak P, Shekhar A, Sidenko NV, Siebicke L, Siegwart Collier L, Simpson E, Siqueira DP, Sitková Z, Six J, Smiljanic M, Smith SW, Smith‐Tripp S, Somers B, Sørensen MV, Souza JJLL, Souza BI, Souza Dias A, Spasojevic MJ, Speed JDM, Spicher F, Stanisci A, Steinbauer K, Steinbrecher R, Steinwandter M, Stemkovski M, Stephan JG, Stiegler C, Stoll S, Svátek M, Svoboda M, Tagesson T, Tanentzap AJ, Tanneberger F, Theurillat J, Thomas HJD, Thomas AD, Tielbörger K, Tomaselli M, Treier UA, Trouillier M, Turtureanu PD, Tutton R, Tyystjärvi VA, Ueyama M, Ujházy K, Ujházyová M, Uogintas D, Urban AV, Urban J, Urbaniak M, Ursu T, Vaccari FP, Van de Vondel S, van den Brink L, Van Geel M, Vandvik V, Vangansbeke P, Varlagin A, Veen GF, Veenendaal E, Venn SE, Verbeeck H, Verbrugggen E, Verheijen FGA, Villar L, Vitale L, Vittoz P, Vives‐Ingla M, von Oppen J, Walz J, Wang R, Wang Y, Way RG, Wedegärtner REM, Weigel R, Wild J, Wilkinson M, Wilmking M, Wingate L, Winkler M, Wipf S, Wohlfahrt G, Xenakis G, Yang Y, Yu Z, Yu K, Zellweger F, Zhang J, Zhang Z, Zhao P, Ziemblińska K, Zimmermann R, Zong S, Zyryanov VI, Nijs I, Lenoir J. Global maps of soil temperature. Glob Chang Biol 2022; 28:3110-3144. [PMID: 34967074 PMCID: PMC9303923 DOI: 10.1111/gcb.16060] [Citation(s) in RCA: 48] [Impact Index Per Article: 24.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2021] [Accepted: 10/27/2021] [Indexed: 05/05/2023]
Abstract
Research in global change ecology relies heavily on global climatic grids derived from estimates of air temperature in open areas at around 2 m above the ground. These climatic grids do not reflect conditions below vegetation canopies and near the ground surface, where critical ecosystem functions occur and most terrestrial species reside. Here, we provide global maps of soil temperature and bioclimatic variables at a 1-km2 resolution for 0-5 and 5-15 cm soil depth. These maps were created by calculating the difference (i.e. offset) between in situ soil temperature measurements, based on time series from over 1200 1-km2 pixels (summarized from 8519 unique temperature sensors) across all the world's major terrestrial biomes, and coarse-grained air temperature estimates from ERA5-Land (an atmospheric reanalysis by the European Centre for Medium-Range Weather Forecasts). We show that mean annual soil temperature differs markedly from the corresponding gridded air temperature, by up to 10°C (mean = 3.0 ± 2.1°C), with substantial variation across biomes and seasons. Over the year, soils in cold and/or dry biomes are substantially warmer (+3.6 ± 2.3°C) than gridded air temperature, whereas soils in warm and humid environments are on average slightly cooler (-0.7 ± 2.3°C). The observed substantial and biome-specific offsets emphasize that the projected impacts of climate and climate change on near-surface biodiversity and ecosystem functioning are inaccurately assessed when air rather than soil temperature is used, especially in cold environments. The global soil-related bioclimatic variables provided here are an important step forward for any application in ecology and related disciplines. Nevertheless, we highlight the need to fill remaining geographic gaps by collecting more in situ measurements of microclimate conditions to further enhance the spatiotemporal resolution of global soil temperature products for ecological applications.
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Affiliation(s)
- Jonas J. Lembrechts
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
| | - Johan van den Hoogen
- Department of Environmental Systems ScienceInstitute of Integrative BiologyETH ZürichZürichSwitzerland
| | - Juha Aalto
- Finnish Meteorological InstituteHelsinkiFinland
- Department of Geosciences and GeographyUniversity of HelsinkiFinland
| | - Michael B. Ashcroft
- Centre for Sustainable Ecosystem Solutions, School of Earth, Atmospheric and Life SciencesUniversity of WollongongWollongongNew South WalesAustralia
- Australian MuseumSydneyAustralia
| | - Pieter De Frenne
- Forest & Nature LabDepartment of EnvironmentGhent UniversityMelle‐GontrodeBelgium
| | | | - Martin Kopecký
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Faculty of Forestry and Wood SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
| | - Miska Luoto
- Department of Geosciences and GeographyUniversity of HelsinkiFinland
| | - Ilya M. D. Maclean
- Environment and Sustainability InstituteUniversity of ExeterPenryn CampusPenrynUK
| | - Thomas W. Crowther
- Department of Environmental Systems ScienceInstitute of Integrative BiologyETH ZürichZürichSwitzerland
| | | | - Stef Haesen
- Department of Earth and Environmental SciencesKU LeuvenLeuvenBelgium
| | - David H. Klinges
- School of Natural Resources and EnvironmentUniversity of FloridaGainesvilleFloridaUSA
- Smithsonian Environmental Research CenterEdgewaterMarylandUSA
| | - Pekka Niittynen
- Department of Geosciences and GeographyUniversity of HelsinkiFinland
| | - Brett R. Scheffers
- Department of Wildlife Ecology and ConservationUniversity of FloridaGainesvilleFloridaUSA
| | | | - Peter Aartsma
- Department of Natural Sciences and Environmental HealthUniversity of South‐Eastern NorwayBøNorway
| | - Otar Abdalaze
- Alpine Ecosystems Research ProgramInstitute of EcologyIlia State UniversityTbilisiGeorgia
| | - Mehdi Abedi
- Department of Range ManagementFaculty of Natural Resources and Marine SciencesTarbiat Modares UniversityNoorIran
| | - Rien Aerts
- Department of Ecological ScienceVrije Universiteit AmsterdamThe Netherlands
| | - Negar Ahmadian
- Department of Range ManagementFaculty of Natural Resources and Marine SciencesTarbiat Modares UniversityNoorIran
| | | | | | - Jake M. Alexander
- Department of Environmental Systems ScienceInstitute of Integrative BiologyETH ZurichZürichSwitzerland
| | | | - Jan Altman
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Faculty of Forestry and Wood SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
| | - Christof Ammann
- Department of Agroecology and EnvironmentAgroscope Research InstituteZürichSwitzerland
| | - Christian Andres
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | | | - Jonas Ardö
- Department of Physical Geography and Ecosystem ScienceLund UniversityLundSweden
| | - Nicola Arriga
- European CommissionJoint Research Centre (JRC)IspraItaly
| | | | - Valeria Aschero
- Facultad de Ciencias Exactas y NaturalesUniversidad Nacional de CuyoMendozaArgentina
- Instituto Argentino de NivologiáGlaciologiá y Ciencias Ambientales (IANIGLA)CONICETCCT‐MendozaMendozaArgentina
| | | | - Jakob Johann Assmann
- Center for Sustainable Landscapes Under Global ChangeDepartment of BiologyAarhus UniversityAarhus CDenmark
- Center for Biodiversity Dynamics in a Changing WorldDepartment of BiologyAarhus UniversityAarhus CDenmark
| | - Maaike Y. Bader
- Ecological Plant GeographyFaculty of GeographyUniversity of MarburgMarburgGermany
| | - Khadijeh Bahalkeh
- Department of Range ManagementFaculty of Natural Resources and Marine SciencesTarbiat Modares UniversityNoorIran
| | - Peter Barančok
- Institute of Landscape Ecology Slovak Academy of SciencesBratislavaSlovakia
| | - Isabel C. Barrio
- Faculty of Environmental and Forest SciencesAgricultural University of IcelandReykjavíkIceland
| | - Agustina Barros
- Instituto Argentino de NivologiáGlaciologiá y Ciencias Ambientales (IANIGLA)CONICETCCT‐MendozaMendozaArgentina
| | - Matti Barthel
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Edmund W. Basham
- School of Natural Resources and EnvironmentUniversity of FloridaGainesvilleFloridaUSA
| | - Marijn Bauters
- Isotope Bioscience Laboratory ‐ ISOFYSGhent UniversityGentBelgium
| | - Manuele Bazzichetto
- Université de RennesCNRSEcoBio (Ecosystèmes, biodiversité, évolution) ‐ UMR 6553RennesFrance
| | - Luca Belelli Marchesini
- Department of Sustainable Agro‐ecosystems and Bioresources, Research and Innovation CentreFondazione Edmund MachSan Michele all’AdigeItaly
| | | | | | | | - Bernd J. Berauer
- Institute of Landscape and Plant EcologyDepartment of Plant EcologyUniversity of HohenheimStuttgartGermany
- Disturbance EcologyBayCEERUniversity of BayreuthBayreuthGermany
| | - Jarle W. Bjerke
- Norwegian Institute for Nature ResearchFRAM ‐ High North Research Centre for Climate and the EnvironmentTromsøNorway
| | - Robert G. Björk
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Gothenburg Global Biodiversity CentreGothenburgSweden
| | - Mats P. Björkman
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
- Gothenburg Global Biodiversity CentreGothenburgSweden
| | - Katrin Björnsdóttir
- Department of Biological and Environmental SciencesUniversity of GothenburgGothenburgSweden
| | - Benjamin Blonder
- Department of Environmental Science, Policy, and ManagementUniversity of CaliforniaBerkeleyCaliforniaUSA
| | - Pascal Boeckx
- Isotope Bioscience Laboratory ‐ ISOFYSGhent UniversityGentBelgium
| | - Julia Boike
- Alfred Wegener Institute Helmholtz Center for Polar and Marine ResearchTelegrafenberg A45PotsdamGermany
- Geography DepartmentHumboldt‐Universität zu BerlinGermany
| | - Stef Bokhorst
- Department of Ecological ScienceVrije Universiteit AmsterdamThe Netherlands
| | - Bárbara N. S. Brum
- Pós‐Graduação em Ciências de Florestas TropicaisInstituto Nacional de Pesquisas da AmazôniaManausBrasil
| | - Josef Brůna
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
| | - Nina Buchmann
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Pauline Buysse
- UMR ECOSYS INRAEUinversité Paris SaclayAgroParisTechFrance
| | - José Luís Camargo
- Biological Dynamics of Forest Fragments ProjectBDFFPInstituto Nacional de Pesquisas da AmazôniaManausBrazil
| | - Otávio C. Campoe
- Department of Forest SciencesFederal University of LavrasLavrasBrazil
| | - Onur Candan
- Faculty of Arts and SciencesDepartment of Molecular Biology and GeneticsOrdu UniversityOrduTurkey
| | - Rafaella Canessa
- Ecological Plant GeographyFaculty of GeographyUniversity of MarburgMarburgGermany
- Plant Ecology GroupDepartment of Evolution and EcologyUniversity of TübingenTübingenGermany
| | - Nicoletta Cannone
- Department of Science and High TechnologyInsubria UniversityComoItaly
| | - Michele Carbognani
- Department of Chemistry, Life Sciences and Environmental SustainabilityUniversity of ParmaParmaItaly
| | - Jofre Carnicer
- Department of Evolutionary Biology, Ecology and Environmental SciencesBiodiversity Research Institute (IRBio)University of BarcelonaBarcelonaSpain
- CREAFE08193 Bellaterra (Cerdanyola del Vallès)Spain
| | - Angélica Casanova‐Katny
- Laboratorio de Ecofisiología Vegetal y Cambio ClimáticoLaboratorio de Ecofisiología Vegetal y Cambio ClimáticoDepartamento de Ciencias Veterinarias y Salud PúblicaUniversidad Católica de TemucoCampus Luis Rivas del Canto and Núcleo de Estudios Ambientales (NEA)Facultad de Recursos NaturalesUniversidad Católica de TemucoTemucoChile
| | - Simone Cesarz
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of BiologyLeipzig UniversityLeipzigGermany
| | - Bogdan Chojnicki
- Laboratory of BioclimatologyDepartment of Ecology and Environmental ProtectionPoznan University of Life SciencesPoznanPoland
| | - Philippe Choler
- Univ. Grenoble AlpesUniv. Savoie Mont BlancCNRSLECAGrenobleFrance
- Univ. Grenoble AlpesUniv. Savoie Mont BlancCNRSLTSER Zone Atelier AlpesGrenobleFrance
| | - Steven L. Chown
- Securing Antarctica's Environmental FutureSchool of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Edgar F. Cifuentes
- Forest Ecology and Conservation GroupDepartment of Plant SciencesUniversity of CambridgeCambridgeUK
| | - Marek Čiliak
- Faculty of Ecology and Environmental SciencesTechnical University in ZvolenZvolenSlovakia
| | - Tamara Contador
- Millennium Institute Biodiversity of Antarctic and Subantarctic Ecosystems (BASE)University Austral of ChileValdiviaChile
- Cape Horn International Center (CHIC)Puerto WilliamsChile
| | - Peter Convey
- British Antarctic SurveyNERC, High CrossCambridgeUK
| | - Elisabeth J. Cooper
- Department of Arctic and Marine BiologyFaculty of Biosciences Fisheries and EconomicsUiT‐The Arctic University of NorwayTromsøNorway
| | - Edoardo Cremonese
- Climate Change UnitEnvironmental Protection Agency of Aosta ValleyItaly
| | - Salvatore R. Curasi
- Department of Biological SciencesUniversity of Notre DameNotre DameIndianaUSA
| | - Robin Curtis
- Environment and Sustainability InstituteUniversity of ExeterPenryn CampusPenrynUK
| | | | - C. Johan Dahlberg
- Department of EcologyEnvironment and Plant Sciences and Bolin Centre for Climate ResearchStockholm UniversityStockholmSweden
- The County Administrative Board of Västra GötalandGothenburgSweden
| | | | | | | | - Jürgen Dengler
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Vegetation EcologyInstitute of Natural Resource Sciences (IUNR)ZHAW Zurich University of Applied SciencesWädenswilSwitzerland
- Plant EcologyBayreuth Center of Ecology and Environmental Research (BayCEER)University of BayreuthBayreuthGermany
| | | | | | - Valter Di Cecco
- Majella Seed BankMajella National ParkColle MadonnaLama dei PeligniItaly
| | - Michele Di Musciano
- Department of Life, Health and Environmental SciencesUniversity of L'AquilaL'AquilaItaly
| | - Jan Dick
- UK Centre for Ecology and HydrologyPenicuikUK
| | - Romina D. Dimarco
- Grupo de Ecología de Poblaciones de InsectosIFAB (INTA ‐ CONICET)BarilocheArgentina
- Department of Biology and BiochemistryUniversity of HoustonHoustonTexasUSA
| | - Jiri Dolezal
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Faculty of ScienceDepartment of BotanyUniversity of South BohemiaČeské BudějoviceCzech Republic
| | - Ellen Dorrepaal
- Climate Impacts Research CentreDepartment of Ecology and Environmental ScienceUmeå UniversityAbiskoSweden
| | - Jiří Dušek
- Global Change Research InstituteAcademy of Sciences of the Czech RepublicCzech Republic
| | - Nico Eisenhauer
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of BiologyLeipzig UniversityLeipzigGermany
| | - Lars Eklundh
- Department of Physical Geography and Ecosystem ScienceLund UniversityLundSweden
| | - Todd E. Erickson
- School of Biological SciencesThe University of Western AustraliaCrawleyWestern AustraliaAustralia
- Kings Park ScienceDepartment of Biodiversity, Conservation and AttractionsKings ParkAustralia
| | - Brigitta Erschbamer
- Department of BotanyFaculty of BiologyUniversity of InnsbruckInnsbruckAustria
| | - Werner Eugster
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | | | | | - Nicolas Fanin
- INRAEBordeaux Sciences AgroUMR 1391 ISPAVillenave d'OrnonFrance
| | - Fatih Fazlioglu
- Faculty of Arts and SciencesDepartment of Molecular Biology and GeneticsOrdu UniversityOrduTurkey
| | - Iris Feigenwinter
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Giuseppe Fenu
- Department of Life and Environmental SciencesUniversity of CagliariCagliariItaly
| | - Olga Ferlian
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of BiologyLeipzig UniversityLeipzigGermany
| | | | | | - Manfred Finckh
- Institute for Plant Science and MicrobiologyUniversity of HamburgHamburgGermany
| | | | - T'ai G. W. Forte
- Department of Chemistry, Life Sciences and Environmental SustainabilityUniversity of ParmaParmaItaly
| | - Erika C. Freeman
- Ecosystems and Global Change GroupDepartment of Plant SciencesUniversity of CambridgeCambridgeUK
| | - Esther R. Frei
- WSL Institute for Snow and Avalanche Research SLFDavos DorfSwitzerland
- Climate Change, Extremes and Natural Hazards in Alpine Regions Research Center CERCDavos DorfSwitzerland
- Swiss Federal Institute for Forest, Snow and Landscape Research WSLBirmensdorfSwitzerland
| | - Eduardo Fuentes‐Lillo
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
- Laboratorio de Invasiones Biológicas (LIB)Facultad de Ciencias ForestalesUniversidad de ConcepciónConcepciónChile
- School of Education and Social SciencesAdventist University of ChileChile
| | - Rafael A. García
- Laboratorio de Invasiones Biológicas (LIB)Facultad de Ciencias ForestalesUniversidad de ConcepciónConcepciónChile
- Instituto de Ecología y Biodiversidad (IEB)SantiagoChile
| | | | - Charly Géron
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
- Biodiversity and LandscapeTERRA Research CentreGembloux Agro‐Bio TechUniversity of LiègeGemblouxBelgium
| | - Mana Gharun
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Dany Ghosn
- Department of Geo‐information in Environmental ManagementMediterranean Agronomic Institute of ChaniaChaniaGreece
| | - Khatuna Gigauri
- Department of Environmental Management and PolicyGeorgian Institute of Public AffairsTbilisiGeorgia
| | - Anne Gobin
- Flemish Institute for Technological ResearchMolBelgium
- Department of Earth and Environmental ScienceFaculty of BioScience EngineeringKULeuvenBelgium
| | - Ignacio Goded
- European CommissionJoint Research Centre (JRC)IspraItaly
| | - Mathias Goeckede
- Department of Biogeochemical SignalsMax Planck Institute for BiogeochemistryJenaGermany
| | - Felix Gottschall
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of BiologyLeipzig UniversityLeipzigGermany
| | - Keith Goulding
- Sustainable Agricultural Sciences DepartmentRothamsted ResearchHarpendenUK
| | - Sanne Govaert
- Forest & Nature LabDepartment of EnvironmentGhent UniversityMelle‐GontrodeBelgium
| | - Bente Jessen Graae
- Department of BiologyNorwegian University of Science and TechnologyTrondheimNorway
| | - Sarah Greenwood
- Biodiversity, Wildlife and Ecosystem HealthBiomedical SciencesUniversity of EdinburghEdinburghUK
| | - Caroline Greiser
- Department of EcologyEnvironment and Plant Sciences and Bolin Centre for Climate ResearchStockholm UniversityStockholmSweden
| | - Achim Grelle
- Department of EcologySwedish University of Agricultural SciencesUppsalaSweden
| | - Benoit Guénard
- School of Biological SciencesThe University of Hong KongHong Kong SARChina
| | - Mauro Guglielmin
- Department of Theoretical and Applied SciencesInsubria UniversityVareseItaly
| | - Joannès Guillemot
- CIRAD, UMR Eco&SolsMontpellierFrance
- Eco&SolsUniv MontpellierCIRADINRAEIRDMontpellier SupAgroMontpellierFrance
| | - Peter Haase
- Senckenberg Research Institute and Natural History Museum FrankfurtGelnhausenGermany
- Faculty of BiologyUniversity of Duisburg‐EssenEssenGermany
| | - Sylvia Haider
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of Biology / Geobotany and Botanical GardenMartin Luther University Halle‐WittenbergHalle (Saale)Germany
| | - Aud H. Halbritter
- Department of Biological Sciences and Bjerknes Centre for Climate ResearchUniversity of BergenBergenNorway
| | - Maroof Hamid
- Centre for Biodiversity and TaxonomyDepartment of BotanyUniversity of KashmirSrinagarIndia
| | - Albin Hammerle
- Department of EcologyUniversity of InnsbruckInnsbruckAustria
| | | | - Siri V. Haugum
- Department of Biological Sciences and Bjerknes Centre for Climate ResearchUniversity of BergenBergenNorway
- The Heathland CentreAlverNorway
| | - Lucia Hederová
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
| | - Bernard Heinesch
- TERRA Teaching and Research CenterFaculty of Gembloux Agro‐Bio TechUniversity of LiegeGemblouxBelgium
| | | | - Daniel Hepenstrick
- Vegetation EcologyInstitute of Natural Resource SciencesZHAW Zurich University of Applied SciencesGrüentalSwitzerland
| | - Maximiliane Herberich
- Institute for BotanyUniversity of Natural Resources and Life Sciences Vienna (BOKU)ViennaAustria
| | - Mathias Herbst
- Centre for Agrometeorological Research (ZAMF)German Meteorological Service (DWD)BraunschweigGermany
| | - Luise Hermanutz
- Dept of BiologyMemorial UniversitySt. John'sNewfoundlandCanada
| | - David S. Hik
- Department of Biological SciencesSimon Fraser UniversityBurnabyBritish ColumbiaCanada
| | - Raúl Hoffrén
- Department of GeographyUniversity of ZaragozaZaragozaSpain
| | - Jürgen Homeier
- Faculty of Resource ManagementHAWK University of Applied Sciences and ArtsGöttingenGermany
- Plant EcologyAlbrecht‐von‐Haller‐Institute for Plant SciencesGeorg‐August University of GöttingenGöttingenGermany
| | - Lukas Hörtnagl
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Toke T. Høye
- Department of Ecoscience and Arctic Research CentreAarhus UniversityRøndeDenmark
| | - Filip Hrbacek
- Department of GeographyFaculty of ScienceMasaryk UniversityBrnoCzech Republic
| | - Kristoffer Hylander
- Department of EcologyEnvironment and Plant Sciences and Bolin Centre for Climate ResearchStockholm UniversityStockholmSweden
| | - Hiroki Iwata
- Department of Environmental ScienceShinshu UniversityMatsumotoJapan
| | - Marcin Antoni Jackowicz‐Korczynski
- Department of Physical Geography and Ecosystem ScienceLund UniversityLundSweden
- Department of Ecoscience and Arctic Research CentreAarhus UniversityRoskildeDenmark
| | | | - Järvi Järveoja
- Department of Forest Ecology and ManagementSwedish University of Agricultural SciencesUmeåSweden
| | - Szymon Jastrzębowski
- Department of Silviculture and Forest Tree GeneticsForest Research InstituteRaszynPoland
| | - Anke Jentsch
- Disturbance EcologyBayCEERUniversity of BayreuthBayreuthGermany
- Bayreuth Center of Ecology and Environmental ResearchBayreuthGermany
| | - Juan J. Jiménez
- ARAID/IPE‐CSICPyrenean Institute of EcologyAvda. Llano de la VictoriaSpain
| | | | - Tommaso Jucker
- School of Biological SciencesUniversity of BristolBristolUK
| | - Alistair S. Jump
- Biological and Environmental SciencesFaculty of Natural SciencesUniversity of StirlingScotland
| | - Radoslaw Juszczak
- Laboratory of BioclimatologyDepartment of Ecology and Environmental ProtectionPoznan University of Life SciencesPoznanPoland
| | - Róbert Kanka
- Institute of Landscape Ecology Slovak Academy of SciencesBratislavaSlovakia
| | - Vít Kašpar
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Faculty of Environmental SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
| | - George Kazakis
- Department of Geo‐information in Environmental ManagementMediterranean Agronomic Institute of ChaniaChaniaGreece
| | - Julia Kelly
- Centre for Environmental and Climate ScienceLund UniversityLundSweden
| | - Anzar A. Khuroo
- Centre for Biodiversity and TaxonomyDepartment of BotanyUniversity of KashmirSrinagarIndia
| | - Leif Klemedtsson
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
| | - Marcin Klisz
- Department of Silviculture and Forest Tree GeneticsForest Research InstituteRaszynPoland
| | - Natascha Kljun
- Centre for Environmental and Climate ScienceLund UniversityLundSweden
| | | | | | - Jozef Kollár
- Institute of Landscape Ecology Slovak Academy of SciencesBratislavaSlovakia
| | - Martyna M. Kotowska
- Plant EcologyAlbrecht‐von‐Haller‐Institute for Plant SciencesGeorg‐August University of GöttingenGöttingenGermany
| | - Bence Kovács
- Centre for Ecological ResearchInstitute of Ecology and BotanyVácrátótHungary
| | - Juergen Kreyling
- Experimental Plant EcologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| | - Andrea Lamprecht
- GLORIA CoordinationInstitute for Interdisciplinary Mountain ResearchAustrian Academy of Sciences (ÖAW) & Department of Integrative Biology and Biodiversity ResearchUniversity of Natural Resources and Life SciencesViennaAustria
| | - Simone I. Lang
- Department of Arctic BiologyThe University Centre in Svalbard (UNIS)Longyearbyen, SvalbardNorway
| | - Christian Larson
- Department of Land Resources and Environmental SciencesMontana State UniversityBozemanMontanaUSA
| | - Keith Larson
- Climate Impacts Research CentreDepartment of Ecology and Environmental SciencesUmeå UniversityAbiskoSweden
| | - Kamil Laska
- Department of GeographyFaculty of ScienceMasaryk UniversityBrnoCzech Republic
- Centre for Polar EcologyFaculty of ScienceUniversity of South BohemiaČeské BudějoviceCzech Republic
| | - Guerric le Maire
- CIRAD, UMR Eco&SolsMontpellierFrance
- Eco&SolsUniv MontpellierCIRADINRAEIRDMontpellier SupAgroMontpellierFrance
| | - Rachel I. Leihy
- School of Biological SciencesMonash UniversityMelbourneVictoriaAustralia
| | - Luc Lens
- Terrestrial Ecology UnitDepartment of BiologyGhent UniversityGentBelgium
| | - Bengt Liljebladh
- Department of Earth SciencesUniversity of GothenburgGothenburgSweden
| | - Annalea Lohila
- Finnish Meteorological InstituteClimate System ResearchHelsinkiFinland
- INAR Institute for Atmospheric and Earth System Research/PhysicsFaculty of ScienceUniversity of HelsinkiFinland
| | - Juan Lorite
- Department of BotanyUniversity of GranadaGranadaSpain
- Interuniversity Institute for Earth System ResearchUniversity of GranadaGranadaSpain
| | | | - Joshua Lynn
- Department of Biological Sciences and Bjerknes Centre for Climate ResearchUniversity of BergenBergenNorway
| | - Martin Macek
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
| | - Roy Mackenzie
- Millennium Institute Biodiversity of Antarctic and Subantarctic Ecosystems (BASE)University Austral of ChileValdiviaChile
| | - Enzo Magliulo
- CNR Institute for Agricultural and Forestry Systems in the MediterraneanPortici (Napoli)Italy
| | - Regine Maier
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Francesco Malfasi
- Department of Science and High TechnologyInsubria UniversityComoItaly
| | - František Máliš
- Faculty of ForestryTechnical University in ZvolenZvolenSlovakia
| | - Matěj Man
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
| | - Giovanni Manca
- European CommissionJoint Research Centre (JRC)IspraItaly
| | - Antonio Manco
- CNR Institute for Agricultural and Forestry Systems in the MediterraneanPortici (Napoli)Italy
| | - Tanguy Manise
- TERRA Teaching and Research CenterFaculty of Gembloux Agro‐Bio TechUniversity of LiegeGemblouxBelgium
| | - Paraskevi Manolaki
- School of Pure & Applied SciencesEnvironmental Conservation and Management ProgrammeOpen University of CyprusLatsiaCyprus
- Department of BiologyAarhus UniversityAarhus CDenmark
- Aarhus Institute of Advanced StudiesAIAS Høegh‐Guldbergs Gade 6BAarhusDenmark
| | - Felipe Marciniak
- Pós‐Graduação em Ciências de Florestas TropicaisInstituto Nacional de Pesquisas da AmazôniaManausBrasil
| | - Radim Matula
- Faculty of Forestry and Wood SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
- Department of Forest Botany, Dendrology and GeobiocoenologyFaculty of Forestry and Wood TechnologyMendel University in BrnoBrnoCzech Republic
| | - Ana Clara Mazzolari
- Instituto Argentino de NivologiáGlaciologiá y Ciencias Ambientales (IANIGLA)CONICETCCT‐MendozaMendozaArgentina
| | - Sergiy Medinets
- Regional Centre for Integrated Environmental MonitoringOdesa National I.I. Mechnikov UniversityOdesaUkraine
- Department of AgroecologyAarhus UniversityTjeleDenmark
- NGO New EnergyKharkivUkraine
| | - Volodymyr Medinets
- Regional Centre for Integrated Environmental MonitoringOdesa National I.I. Mechnikov UniversityOdesaUkraine
| | - Camille Meeussen
- Forest & Nature LabDepartment of EnvironmentGhent UniversityMelle‐GontrodeBelgium
| | - Sonia Merinero
- Department of EcologyEnvironment and Plant Sciences and Bolin Centre for Climate ResearchStockholm UniversityStockholmSweden
| | - Rita de Cássia Guimarães Mesquita
- Biological Dynamics of Forest Fragments ProjectCoordenação de Dinâmica AmbientalInstituto Nacional de Pesquisas da AmazôniaManausBrazil
| | - Katrin Meusburger
- Swiss Federal Institute for Forest, Snow and Landscape Research (WSL)BirmensdorfSwitzerland
| | | | - Sean T. Michaletz
- Department of Botany and Biodiversity Research CentreUniversity of British ColumbiaVancouverBritish ColumbiaCanada
| | - Ann Milbau
- Department of EnvironmentProvince of AntwerpAntwerpenBelgium
| | - Dmitry Moiseev
- Institute of Plant and Animal Ecology of Ural Division of Russian Academy of ScienceEkaterinburgRussia
| | - Pavel Moiseev
- Institute of Plant and Animal Ecology of Ural Division of Russian Academy of ScienceEkaterinburgRussia
| | - Andrea Mondoni
- Department of Earth and Environmental SciencesUniversity of PaviaPaviaItaly
| | | | | | - Mikel Moriana‐Armendariz
- Department of Arctic and Marine BiologyFaculty of Biosciences Fisheries and EconomicsUiT‐The Arctic University of NorwayTromsøNorway
| | - Umberto Morra di Cella
- Climate Change Unit, Environmental Protection Agency of Aosta ValleySaint‐ChristopheItaly
| | | | - Jonathan R. Mosedale
- Environment and Sustainability InstituteUniversity of ExeterPenryn CampusCornwallUK
| | - Lena Muffler
- Plant EcologyAlbrecht‐von‐Haller‐Institute for Plant SciencesGeorg‐August University of GöttingenGöttingenGermany
| | - Miriam Muñoz‐Rojas
- Centre for Ecosystem ScienceSchool of Biological, Earth and Environmental SciencesUNSW SydneySydneyNew South WalesAustralia
- Department of Plant Biology and EcologyUniversity of SevilleSevilleSpain
| | - Jonathan A. Myers
- Department of BiologyWashington University in St. LouisSt. LouisMissouriUSA
| | | | - Laszlo Nagy
- Department of Animal BiologyInstitute of BiologyUniversity of CampinasCampinasBrazil
| | | | - Ilona Naujokaitis‐Lewis
- National Wildlife Research CentreEnvironment and Climate Change CanadaCarleton UniversityOttawaOntarioCanada
| | - Emily Newling
- School of Life and Environmental SciencesDeakin UniversityBurwoodVictoriaAustralia
| | - Lena Nicklas
- Department of BotanyFaculty of BiologyUniversity of InnsbruckInnsbruckAustria
| | - Georg Niedrist
- Institute for Alpine EnvironmentEurac ResearchBozen/BolzanoItaly
| | - Armin Niessner
- Institute of BiologyDepartment of Molecular BotanyUniversity of HohenheimStuttgartGermany
| | - Mats B. Nilsson
- Department of Forest Ecology and ManagementSwedish University of Agricultural SciencesUmeåSweden
| | - Signe Normand
- Center for Sustainable Landscapes Under Global ChangeDepartment of BiologyAarhus UniversityAarhus CDenmark
- Center for Biodiversity Dynamics in a Changing WorldDepartment of BiologyAarhus UniversityAarhus CDenmark
| | - Marcelo D. Nosetto
- Instituto de Matemática Aplicada San LuisIMASL, CONICET and Universidad Nacional de San LuisSan LuisArgentina
- Cátedra de Climatología Agrícola (FCA‐UNER)Entre RíosArgentina
| | - Yann Nouvellon
- CIRAD, UMR Eco&SolsMontpellierFrance
- Eco&SolsUniv MontpellierCIRADINRAEIRDMontpellier SupAgroMontpellierFrance
| | - Martin A. Nuñez
- Department of Biology and BiochemistryUniversity of HoustonHoustonTexasUSA
- Grupo de Ecología de InvasionesINIBIOMACONICET/ Universidad Nacional del ComahueBarilocheArgentina
| | - Romà Ogaya
- CSICGlobal Ecology Unit CREAF‐ CSIC‐UABBellaterraSpain
- CREAFSpain
| | - Jérôme Ogée
- INRAEBordeaux Sciences AgroUMR 1391 ISPAVillenave d'OrnonFrance
| | - Joseph Okello
- Isotope Bioscience Laboratory ‐ ISOFYSGhent UniversityGentBelgium
- Mountains of the Moon UniversityFort PortalUganda
- National Agricultural Research OrganisationMbarara Zonal Agricultural Research and Development InstituteMbararaUganda
| | - Janusz Olejnik
- Laboratory of MeteorologyDepartment of Construction and GeoengineeringFaculty of Environmental Engineering and Mechanical EngineeringPoznan University of Life SciencesPoznanPoland
| | | | | | - Simone Orsenigo
- Department of Earth and Environmental SciencesUniversity of PaviaPaviaItaly
| | - Andrej Palaj
- Institute of Landscape Ecology Slovak Academy of SciencesBratislavaSlovakia
| | - Timo Pampuch
- Institute of Botany and Landscape EcologyUniversity GreifswaldGreifswaldGermany
| | | | - Meelis Pärtel
- Institute of Ecology and Earth SciencesUniversity of TartuTartuEstonia
| | - Ada Pastor
- Department of BiologyAarhus UniversityAarhus CDenmark
| | - Aníbal Pauchard
- Laboratorio de Invasiones Biológicas (LIB)Facultad de Ciencias ForestalesUniversidad de ConcepciónConcepciónChile
- Instituto de Ecología y Biodiversidad (IEB)SantiagoChile
| | - Harald Pauli
- GLORIA CoordinationInstitute for Interdisciplinary Mountain ResearchAustrian Academy of Sciences (ÖAW) & Department of Integrative Biology and Biodiversity ResearchUniversity of Natural Resources and Life SciencesViennaAustria
| | - Marian Pavelka
- Global Change Research InstituteAcademy of Sciences of the Czech RepublicCzech Republic
| | - William D. Pearse
- Department of Biology and Ecology CenterUtah State UniversityLoganUtahUSA
- Department of Life SciencesImperial CollegeAscot, BerkshireUK
| | - Matthias Peichl
- Department of Forest Ecology and ManagementSwedish University of Agricultural SciencesUmeåSweden
| | - Loïc Pellissier
- Landscape EcologyInstitute of Terrestrial EcosystemsDepartment of Environmental Systems ScienceETH ZürichZürichSwitzerland
- Unit of Land Change ScienceSwiss Federal Research Institute WSLBirmensdorfSwitzerland
| | | | - Josep Penuelas
- CSICGlobal Ecology Unit CREAF‐ CSIC‐UABBellaterraSpain
- CREAFSpain
| | - Matteo Petit Bon
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Department of Arctic and Marine BiologyFaculty of Biosciences Fisheries and EconomicsUiT‐The Arctic University of NorwayTromsøNorway
- Department of Arctic BiologyThe University Centre in Svalbard (UNIS)Longyearbyen, SvalbardNorway
| | - Alessandro Petraglia
- Department of Chemistry, Life Sciences and Environmental SustainabilityUniversity of ParmaParmaItaly
| | - Shyam S. Phartyal
- School of Ecology and Environment StudiesNalanda UniversityRajgirIndia
| | | | - Casimiro Pio
- CESAM & Department of EnvironmentUniversity of AveiroAveiroPortugal
| | - Andrea Pitacco
- Department of Agronomy, Food, Natural resourcesAnimals and Environment ‐ University of PaduaLegnaroItaly
| | - Camille Pitteloud
- Landscape EcologyInstitute of Terrestrial EcosystemsDepartment of Environmental Systems ScienceETH ZürichZürichSwitzerland
- Unit of Land Change ScienceSwiss Federal Research Institute WSLBirmensdorfSwitzerland
| | - Roman Plichta
- Department of Forest Botany, Dendrology and GeobiocoenologyFaculty of Forestry and Wood TechnologyMendel University in BrnoBrnoCzech Republic
| | - Francesco Porro
- Department of Earth and Environmental SciencesUniversity of PaviaPaviaItaly
| | | | - Jérôme Poulenard
- Univ. Savoie Mont BlancCNRSUniv. Grenoble AlpesEDYTEMChambéryFrance
| | - Rafael Poyatos
- CREAFE08193 Bellaterra (Cerdanyola del Vallès)Spain
- Universitat Autònoma de BarcelonaSpain
| | - Anatoly S. Prokushkin
- Siberian Federal UniversityKrasnoyarskRussia
- V.N. Sukachev Institute of Forest SB RASKrasnoyarskRussia
| | - Radoslaw Puchalka
- Department of Ecology and BiogeographyFaculty of Biological and Veterinary SciencesNicolaus Copernicus UniversityToruńPoland
- Centre for Climate Change ResearchNicolaus Copernicus UniversityToruńPoland
| | - Mihai Pușcaș
- A. Borza Botanic GardenBabeș‐Bolyai UniversityCluj‐NapocaRomania
- Faculty of Biology and GeologyDepartment of Taxonomy and EcologyBabeș‐Bolyai UniversityCluj‐NapocaRomania
- E. G. Racoviță InstituteBabeș‐Bolyai UniversityCluj‐NapocaRomania
| | - Dajana Radujković
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
| | - Krystal Randall
- Centre for Sustainable Ecosystem Solutions, School of Earth, Atmospheric and Life SciencesUniversity of WollongongWollongongNew South WalesAustralia
- Securing Antarctica's Environmental Future, School of Earth, Atmospheric and Life SciencesUniversity of WollongongWollongongNew South WalesAustralia
| | - Amanda Ratier Backes
- German Centre for Integrative Biodiversity Research (iDiv) Halle‐Jena‐LeipzigLeipzigGermany
- Institute of Biology / Geobotany and Botanical GardenMartin Luther University Halle‐WittenbergHalle (Saale)Germany
| | - Sabine Remmele
- Institute of BiologyDepartment of Molecular BotanyUniversity of HohenheimStuttgartGermany
| | - Wolfram Remmers
- University of Applied Sciences TrierEnvironmental Campus BirkenfeldBirkenfeldGermany
| | - David Renault
- Université de RennesCNRSEcoBio (Ecosystèmes, biodiversité, évolution) ‐ UMR 6553RennesFrance
- Institut Universitaire de FranceParisFrance
| | - Anita C. Risch
- Swiss Federal Institute for Forest, Snow and Landscape Research WSLBirmensdorfSwitzerland
| | - Christian Rixen
- WSL Institute for Snow and Avalanche Research SLFDavos DorfSwitzerland
- Climate Change, Extremes and Natural Hazards in Alpine Regions Research Center CERCDavos DorfSwitzerland
| | - Sharon A. Robinson
- Centre for Sustainable Ecosystem Solutions, School of Earth, Atmospheric and Life SciencesUniversity of WollongongWollongongNew South WalesAustralia
- Securing Antarctica's Environmental Future, School of Earth, Atmospheric and Life SciencesUniversity of WollongongWollongongNew South WalesAustralia
| | - Bjorn J. M. Robroek
- Aquatic Ecology and Environmental Biology, Radboud Institute for Environmental and Biological SciencesRadboud University NijmegenNijmegenThe Netherlands
| | - Adrian V. Rocha
- Department of Biological Sciences and the Environmental Change InitiativeUniversity of Notre DameNotre DameIndianaUSA
| | - Christian Rossi
- Swiss National ParkChastè Planta‐WildenbergZernezSwitzerland
- Remote Sensing LaboratoriesDepartment of GeographyUniversity of ZurichZurichSwitzerland
| | - Graziano Rossi
- Department of Earth and Environmental SciencesUniversity of PaviaPaviaItaly
| | - Olivier Roupsard
- CIRADUMR Eco&SolsDakarSenegal
- Eco&SolsUniv MontpellierCIRADINRAE, IRDInstitut AgroMontpellierFrance
- LMI IESOLCentre IRD‐ISRA de Bel AirDakarSenegal
| | | | - Patrick Saccone
- GLORIA CoordinationInstitute for Interdisciplinary Mountain ResearchAustrian Academy of Sciences (ÖAW) & Department of Integrative Biology and Biodiversity ResearchUniversity of Natural Resources and Life SciencesViennaAustria
| | | | - Jhonatan Sallo Bravo
- Universidad Nacional de San Antonio Abad del CuscoCuscoPerú
- Centro de Investigación de la Biodiversidad Wilhelm L. JohannsenCuscoPerú
| | - Cinthya C. Santos
- Biological Dynamics of Forest Fragments Project, PDBFFInstituto Nacional de Pesquisas da AmazôniaManausBrazil
| | - Judith M. Sarneel
- Department of Ecology and Environmental ScienceUmeå UniversityUmeåSweden
| | - Tobias Scharnweber
- Institute of Botany and Landscape EcologyUniversity GreifswaldGreifswaldGermany
| | - Jonas Schmeddes
- Experimental Plant EcologyInstitute of Botany and Landscape EcologyUniversity of GreifswaldGreifswaldGermany
| | - Marius Schmidt
- Institute of Bio‐ and Geosciences (IBG‐3): AgrosphereForschungszentrum Jülich GmbHJülichGermany
| | - Thomas Scholten
- Chair of Soil Science and GeomorphologyDepartment of GeosciencesUniversity of TuebingenTuebingenGermany
| | - Max Schuchardt
- Disturbance EcologyBayCEERUniversity of BayreuthBayreuthGermany
| | - Naomi Schwartz
- Department of GeographyThe University of British ColumbiaVancouverBritish ColumbiaCanada
| | - Tony Scott
- Sustainable Agricultural Sciences DepartmentRothamsted ResearchHarpendenUK
| | - Julia Seeber
- Department of EcologyUniversity of InnsbruckInnsbruckAustria
- Institute for Alpine EnvironmentEurac ResearchBozen/BolzanoItaly
| | | | - Tim Seipel
- Department of Land Resources and Environmental SciencesMontana State UniversityBozemanMontanaUSA
| | | | - Rebecca A. Senior
- Princeton School of Public and International AffairsPrinceton UniversityPrincetonNew JerseyUSA
| | | | - Piotr Sewerniak
- Department of Soil Science and Landscape ManagementFaculty of Earth Sciences and Spatial ManagementNicolaus Copernicus UniversityToruńPoland
| | - Ankit Shekhar
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | | | | | - Laura Siegwart Collier
- Dept of BiologyMemorial UniversitySt. John'sNewfoundlandCanada
- Terra Nova National ParkParks Canada AgencyGlovertownNewfoundlandCanada
| | - Elizabeth Simpson
- Department of Biology and Ecology CenterUtah State UniversityLoganUtahUSA
| | - David P. Siqueira
- Universidade Estadual do Norte Fluminense Darcy RibeiroRio de JaneiroBrazil
| | - Zuzana Sitková
- National Forest CentreForest Research Institute ZvolenZvolenSlovakia
| | - Johan Six
- Department of Environmental Systems ScienceETH ZurichZurichSwitzerland
| | - Marko Smiljanic
- Institute of Botany and Landscape EcologyUniversity GreifswaldGreifswaldGermany
| | - Stuart W. Smith
- Department of BiologyNorwegian University of Science and TechnologyTrondheimNorway
- Department of Physical GeographyStockholm UniversityStockholmSweden
| | - Sarah Smith‐Tripp
- Department of GeographyUniversity of British ColumbiaVancouverBritish ColumbiaCanada
| | - Ben Somers
- Department of Earth and Environmental SciencesLeuvenBelgium
| | - Mia Vedel Sørensen
- Department of BiologyNorwegian University of Science and TechnologyTrondheimNorway
| | | | - Bartolomeu Israel Souza
- Departamento de Geociências. Cidade UniversitáriaUniversidade Federal da ParaíbaJoão Pessoa ‐ PBBrasil
| | - Arildo Souza Dias
- Biological Dynamics of Forest Fragments Project, PDBFFInstituto Nacional de Pesquisas da AmazôniaManausBrazil
- Department of Physical GeographyGoethe‐Universität FrankfurtFrankfurt am MainGermany
| | - Marko J. Spasojevic
- Department of Evolution, Ecology, and Organismal BiologyUniversity of California RiversideRiversideCaliforniaUSA
| | - James D. M. Speed
- Department of Natural HistoryNTNU University MuseumNorwegian University of Science and TechnologyTrondheimNorway
| | - Fabien Spicher
- UMR 7058 CNRS ‘Ecologie et Dynamique des Systèmes Anthropisés’ (EDYSAN)Univ. de Picardie Jules VerneAmiensFrance
| | - Angela Stanisci
- EnvixLabDipartimento di Bioscienze e TerritorioUniversità degli Studi del MoliseTermoliItaly
| | - Klaus Steinbauer
- GLORIA CoordinationInstitute for Interdisciplinary Mountain ResearchAustrian Academy of Sciences (ÖAW) & Department of Integrative Biology and Biodiversity ResearchUniversity of Natural Resources and Life SciencesViennaAustria
| | - Rainer Steinbrecher
- Institute of Meteorology and Climate Research (IMK)Department of Atmospheric Environmental Research (IFU)Karlsruhe Institute of Technology (KIT)Garmisch‐PartenkirchenGermany
| | | | - Michael Stemkovski
- Department of Biology and Ecology CenterUtah State UniversityLoganUtahUSA
| | - Jörg G. Stephan
- Swedish University of Agricultural SciencesSLU Swedish Species Information CentreUppsalaSweden
| | | | - Stefan Stoll
- University of Applied Sciences TrierEnvironmental Campus BirkenfeldBirkenfeldGermany
- Faculty for BiologyUniversity Duisburg‐EssenEssenGermany
| | - Martin Svátek
- Department of Forest Botany, Dendrology and GeobiocoenologyFaculty of Forestry and Wood TechnologyMendel University in BrnoBrnoCzech Republic
| | - Miroslav Svoboda
- Faculty of Forestry and Wood SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
| | - Torbern Tagesson
- Department of Physical Geography and Ecosystem ScienceLund UniversityLundSweden
- Department of Geosciences and Natural Resource ManagementUniversity of CopenhagenCopenhagenDenmark
| | - Andrew J. Tanentzap
- Ecosystems and Global Change GroupDepartment of Plant SciencesUniversity of CambridgeCambridgeUK
| | - Franziska Tanneberger
- Experimental Plant EcologyInstitute of Botany and Landscape EcologyUniversity of Greifswald, partner in the Greifswald Mire CentreGreifswaldGermany
| | - Jean‐Paul Theurillat
- Foundation J.‐M. AubertChampex‐LacSwitzerland
- Département de Botanique et Biologie végétaleUniversité de GenèveChambésySwitzerland
| | | | - Andrew D. Thomas
- Department of Geography and Earth SciencesAberystwyth UniversityWalesUK
| | - Katja Tielbörger
- Plant Ecology GroupDepartment of Evolution and EcologyUniversity of TübingenTübingenGermany
| | - Marcello Tomaselli
- Department of Chemistry, Life Sciences and Environmental SustainabilityUniversity of ParmaParmaItaly
| | - Urs Albert Treier
- Center for Sustainable Landscapes Under Global ChangeDepartment of BiologyAarhus UniversityAarhus CDenmark
- Center for Biodiversity Dynamics in a Changing WorldDepartment of BiologyAarhus UniversityAarhus CDenmark
| | - Mario Trouillier
- Institute of Botany and Landscape EcologyUniversity GreifswaldGreifswaldGermany
| | - Pavel Dan Turtureanu
- A. Borza Botanic GardenBabeș‐Bolyai UniversityCluj‐NapocaRomania
- E. G. Racoviță InstituteBabeș‐Bolyai UniversityCluj‐NapocaRomania
- Center for Systematic Biology, Biodiversity and Bioresources ‐ 3BBabeș‐Bolyai UniversityCluj‐NapocaRomania
| | - Rosamond Tutton
- Northern Environmental Geoscience LaboratoryDepartment of Geography and PlanningQueen's UniversityKingstonOntarioCanada
| | - Vilna A. Tyystjärvi
- Department of Geosciences and GeographyUniversity of HelsinkiFinland
- Finnish Meteorological InstHelsinkiFinland
| | - Masahito Ueyama
- Graduate School of Life and Environmental SciencesOsaka Prefecture UniversityJapan
| | - Karol Ujházy
- Faculty of ForestryTechnical University in ZvolenZvolenSlovakia
| | - Mariana Ujházyová
- Faculty of Ecology and Environmental SciencesTechnical University in ZvolenZvolenSlovakia
| | | | - Anastasiya V. Urban
- Department of Forest Botany, Dendrology and GeobiocoenologyFaculty of Forestry and Wood TechnologyMendel University in BrnoBrnoCzech Republic
- V.N. Sukachev Institute of Forest SB RASKrasnoyarskRussia
| | - Josef Urban
- Siberian Federal UniversityKrasnoyarskRussia
- Department of Forest Botany, Dendrology and GeobiocoenologyFaculty of Forestry and Wood TechnologyMendel University in BrnoBrnoCzech Republic
| | - Marek Urbaniak
- Laboratory of MeteorologyDepartment of Construction and GeoengineeringFaculty of Environmental Engineering and Mechanical EngineeringPoznan University of Life SciencesPoznanPoland
| | - Tudor‐Mihai Ursu
- Institute of Biological Research Cluj‐NapocaNational Institute of Research and Development for Biological SciencesBucharestRomania
| | | | - Stijn Van de Vondel
- The Ecosystem Management Research Group (ECOBE)University of AntwerpWilrijk (Antwerpen)Belgium
| | - Liesbeth van den Brink
- Plant Ecology GroupDepartment of Evolution and EcologyUniversity of TübingenTübingenGermany
| | - Maarten Van Geel
- Plant Conservation and Population BiologyDepartment of BiologyKU LeuvenHeverleeBelgium
| | - Vigdis Vandvik
- Department of Biological Sciences and Bjerknes Centre for Climate ResearchUniversity of BergenBergenNorway
| | - Pieter Vangansbeke
- Forest & Nature LabDepartment of EnvironmentGhent UniversityMelle‐GontrodeBelgium
| | - Andrej Varlagin
- A.N. Severtsov Institute of Ecology and EvolutionRussian Academy of SciencesMoscowRussia
| | - G. F. Veen
- Netherlands Institute of EcologyWageningenthe Netherlands
| | - Elmar Veenendaal
- Plant Ecology and Nature Conservation GroupWageningen UniversityWageningenthe Netherlands
| | - Susanna E. Venn
- Centre for Integrative EcologySchool of Life and Environmental SciencesDeakin UniversityBurwoodVictoriaAustralia
| | - Hans Verbeeck
- CAVElab ‐ Computational and Applied Vegetation EcologyDepartment of EnvironmentGhent UniversityGentBelgium
| | - Erik Verbrugggen
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
| | - Frank G. A. Verheijen
- Earth Surface Processes TeamCentre for Environmental and Marine Studies (CESAM)Department of Environment and PlanningUniversity of AveiroAveiroPortugal
| | - Luis Villar
- Instituto Pirenaico de EcologíaIPE‐CSIC. Av. Llano de la VictoriaJaca (Huesca)Spain
| | - Luca Vitale
- CNR ‐ Institute for Agricultural and Forestry Systems in the MediterraneanPorticiItaly
| | - Pascal Vittoz
- Institute of Earth Surface DynamicsFaculty of Geosciences and EnvironmentUniversity of LausanneGéopolisSwitzerland
| | | | - Jonathan von Oppen
- Center for Sustainable Landscapes Under Global ChangeDepartment of BiologyAarhus UniversityAarhus CDenmark
- Center for Biodiversity Dynamics in a Changing WorldDepartment of BiologyAarhus UniversityAarhus CDenmark
| | - Josefine Walz
- Climate Impacts Research CentreDepartment of Ecology and Environmental SciencesUmeå UniversityAbiskoSweden
| | - Runxi Wang
- School of Biological SciencesThe University of Hong KongHong Kong SARChina
| | - Yifeng Wang
- Northern Environmental Geoscience LaboratoryDepartment of Geography and PlanningQueen's UniversityKingstonOntarioCanada
| | - Robert G. Way
- Northern Environmental Geoscience LaboratoryDepartment of Geography and PlanningQueen's UniversityKingstonOntarioCanada
| | | | - Robert Weigel
- Plant EcologyAlbrecht‐von‐Haller‐Institute for Plant SciencesGeorg‐August University of GöttingenGöttingenGermany
| | - Jan Wild
- Institute of Botany of the Czech Academy of SciencesPrůhoniceCzech Republic
- Faculty of Environmental SciencesCzech University of Life Sciences PraguePrague 6 ‐ SuchdolCzech Republic
| | | | - Martin Wilmking
- Institute of Botany and Landscape EcologyUniversity GreifswaldGreifswaldGermany
| | - Lisa Wingate
- INRAEBordeaux Sciences AgroUMR 1391 ISPAVillenave d'OrnonFrance
| | - Manuela Winkler
- GLORIA CoordinationInstitute for Interdisciplinary Mountain ResearchAustrian Academy of Sciences (ÖAW) & Department of Integrative Biology and Biodiversity ResearchUniversity of Natural Resources and Life SciencesViennaAustria
| | - Sonja Wipf
- WSL Institute for Snow and Avalanche Research SLFDavos DorfSwitzerland
- Swiss National ParkChastè Planta‐WildenbergZernezSwitzerland
| | - Georg Wohlfahrt
- Department of EcologyUniversity of InnsbruckInnsbruckAustria
| | | | - Yan Yang
- Institute of Mountain Hazards and EnvironmentChinese Academy of SciencesChengduP.R. China
| | - Zicheng Yu
- MOE Key Laboratory of Geographical Processes and Ecological Security in Changbai MountainsSchool of Geographical SciencesNortheast Normal UniversityChangchunChina
- Department of Earth and Environmental SciencesLehigh UniversityBethlehemPennsylvaniaUSA
| | - Kailiang Yu
- High Meadows Environmental InstitutePrinceton UniversityNew JerseyUSA
| | - Florian Zellweger
- Swiss Federal Institute for Forest, Snow and Landscape Research WSLBirmensdorfSwitzerland
| | - Jian Zhang
- Zhejiang Tiantong Forest Ecosystem National Observation and Research StationSchool of Ecological and Environmental SciencesEast China Normal UniversityShanghaiChina
| | - Zhaochen Zhang
- Zhejiang Tiantong Forest Ecosystem National Observation and Research StationSchool of Ecological and Environmental SciencesEast China Normal UniversityShanghaiChina
| | - Peng Zhao
- Department of Forest Ecology and ManagementSwedish University of Agricultural SciencesUmeåSweden
| | - Klaudia Ziemblińska
- Laboratory of MeteorologyDepartment of Construction and GeoengineeringFaculty of Environmental Engineering and Mechanical EngineeringPoznan University of Life SciencesPoznanPoland
| | - Reiner Zimmermann
- Institute of BiologyDepartment of Molecular BotanyUniversity of HohenheimStuttgartGermany
- Ecological‐Botanical GardensUniversity of BayreuthBayreuthGermany
| | - Shengwei Zong
- Key Laboratory of Geographical Processes and Ecological Security in Changbai MountainsMinistry of EducationSchool of Geographical SciencesNortheast Normal UniversityChangchunChina
| | | | - Ivan Nijs
- Research Group PLECO (Plants and Ecosystems)University of AntwerpWilrijkBelgium
| | - Jonathan Lenoir
- UMR 7058 CNRS ‘Ecologie et Dynamique des Systèmes Anthropisés’ (EDYSAN)Univ. de Picardie Jules VerneAmiensFrance
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13
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Thiruvallur Eachambadi R, Boschker HTS, Franquet A, Spampinato V, Hidalgo-Martinez S, Valcke R, Meysman FJR, Manca JV. Enhanced Laterally Resolved ToF-SIMS and AFM Imaging of the Electrically Conductive Structures in Cable Bacteria. Anal Chem 2021; 93:7226-7234. [PMID: 33939426 DOI: 10.1021/acs.analchem.1c00298] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
Cable bacteria are electroactive bacteria that form a long, linear chain of ridged cylindrical cells. These filamentous bacteria conduct centimeter-scale long-range electron transport through parallel, interconnected conductive pathways of which the detailed chemical and electrical properties are still unclear. Here, we combine time-of-flight secondary-ion mass spectrometry (ToF-SIMS) and atomic force microscopy (AFM) to investigate the structure and composition of this naturally occurring electrical network. The enhanced lateral resolution achieved allows differentiation between the cell body and the cell-cell junctions that contain a conspicuous cartwheel structure. Three ToF-SIMS modes were compared in the study of so-called fiber sheaths (i.e., the cell material that remains after the removal of cytoplasm and membranes, and which embeds the electrical network). Among these, fast imaging delayed extraction (FI-DE) was found to balance lateral and mass resolution, thus yielding the following multiple benefits in the study of structure-composition relations in cable bacteria: (i) it enables the separate study of the cell body and cell-cell junctions; (ii) by combining FI-DE with in situ AFM, the depth of Ni-containing protein-key in the electrical transport-is determined with greater precision; and (iii) this combination prevents contamination, which is possible when using an ex situ AFM. Our results imply that the interconnects in extracted fiber sheaths are either damaged during extraction, or that their composition is different from fibers, or both. From a more general analytical perspective, the proposed methodology of ToF-SIMS in the FI-DE mode combined with in situ AFM holds great promise for studying the chemical structure of other biological systems.
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Affiliation(s)
| | - Henricus T S Boschker
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands.,Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium
| | - Alexis Franquet
- Materials and Components Analysis - Compositional Analysis, Imec vzw, Kapeldreef 75, 3001 Leuven, Belgium
| | - Valentina Spampinato
- Materials and Components Analysis - Compositional Analysis, Imec vzw, Kapeldreef 75, 3001 Leuven, Belgium
| | | | - Roland Valcke
- UHasselt-Molecular and Physical Plant Physiology, Agoralaan, 3590 Diepenbeek, Belgium
| | - Filip J R Meysman
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands.,Department of Biology, University of Antwerp, Universiteitsplein 1, 2610 Wilrijk, Belgium
| | - Jean V Manca
- UHasselt-X-LAB, Agoralaan, 3590 Diepenbeek, Belgium
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14
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Weichenthal S, Dons E, Hong KY, Pinheiro PO, Meysman FJR. Combining citizen science and deep learning for large-scale estimation of outdoor nitrogen dioxide concentrations. Environ Res 2021; 196:110389. [PMID: 33129861 DOI: 10.1016/j.envres.2020.110389] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/25/2020] [Revised: 10/21/2020] [Accepted: 10/21/2020] [Indexed: 06/11/2023]
Abstract
Reliable estimates of outdoor air pollution concentrations are needed to support global actions to improve public health. We developed a new approach to estimating annual average outdoor nitrogen dioxide (NO2) concentrations using approximately 20,000 ground-level measurements in Flanders, Belgium combined with aerial images and deep neural networks. Our final model explained 79% of the spatial variability in NO2 (root mean square error of 10-fold cross-validation = 3.58 μg/m3) using only images as model inputs. This novel approach offers an alternative means of estimating large-scale spatial variations in ambient air quality and may be particularly useful for regions of the world without detailed emissions data or land use information typically used to estimate outdoor air pollution concentrations.
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Affiliation(s)
- Scott Weichenthal
- Department of Epidemiology, Biostatistics, and Occupational Health, McGill University, Montreal, Canada.
| | - Evi Dons
- Centre for Environmental Sciences, Hasselt University, Hasselt, Belgium
| | - Kris Y Hong
- Department of Epidemiology, Biostatistics, and Occupational Health, McGill University, Montreal, Canada; Element AI, Montreal, Canada
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15
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Geerlings NMJ, Geelhoed JS, Vasquez-Cardenas D, Kienhuis MVM, Hidalgo-Martinez S, Boschker HTS, Middelburg JJ, Meysman FJR, Polerecky L. Cell Cycle, Filament Growth and Synchronized Cell Division in Multicellular Cable Bacteria. Front Microbiol 2021; 12:620807. [PMID: 33584623 PMCID: PMC7873302 DOI: 10.3389/fmicb.2021.620807] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2020] [Accepted: 01/06/2021] [Indexed: 11/13/2022] Open
Abstract
Cable bacteria are multicellular, Gram-negative filamentous bacteria that display a unique division of metabolic labor between cells. Cells in deeper sediment layers are oxidizing sulfide, while cells in the surface layers of the sediment are reducing oxygen. The electrical coupling of these two redox half reactions is ensured via long-distance electron transport through a network of conductive fibers that run in the shared cell envelope of the centimeter-long filament. Here we investigate how this unique electrogenic metabolism is linked to filament growth and cell division. Combining dual-label stable isotope probing (13C and 15N), nanoscale secondary ion mass spectrometry, fluorescence microscopy and genome analysis, we find that the cell cycle of cable bacteria cells is highly comparable to that of other, single-celled Gram-negative bacteria. However, the timing of cell growth and division appears to be tightly and uniquely controlled by long-distance electron transport, as cell division within an individual filament shows a remarkable synchronicity that extends over a millimeter length scale. To explain this, we propose the "oxygen pacemaker" model in which a filament only grows when performing long-distance transport, and the latter is only possible when a filament has access to oxygen so it can discharge electrons from its internal electrical network.
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Affiliation(s)
| | | | | | | | | | | | | | - Filip J. R. Meysman
- Department of Biology, University of Antwerp, Antwerp, Belgium
- Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | - Lubos Polerecky
- Department of Earth Sciences, Utrecht University, Utrecht, Netherlands
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16
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De Craemer S, Vercauteren J, Fierens F, Lefebvre W, Meysman FJR. Using Large-Scale NO 2 Data from Citizen Science for Air-Quality Compliance and Policy Support. Environ Sci Technol 2020; 54:11070-11078. [PMID: 32822533 DOI: 10.1021/acs.est.0c02436] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/16/2023]
Abstract
Citizen science projects that monitor air quality have recently drastically expanded in scale. Projects involving thousands of citizens generate spatially dense data sets using low-cost passive samplers for nitrogen dioxide (NO2), which complement data from the sparse reference network operated by environmental agencies. However, there is a critical bottleneck in using these citizen-derived data sets for air-quality policy. The monitoring effort typically lasts only a few weeks, while long-term air-quality guidelines are based on annual-averaged concentrations that are not affected by seasonal fluctuations in air quality. Here, we describe a statistical model approach to reliably transform passive sampler NO2 data from multiweek averages to annual-averaged values. The predictive model is trained with data from reference stations that are limited in number but provide full temporal coverage and is subsequently applied to the one-off data set recorded by the spatially extensive network of passive samplers. We verify the assumptions underlying the model procedure and demonstrate that model uncertainty complies with the EU-quality objectives for air-quality monitoring. Our approach allows a considerable cost optimization of passive sampler campaigns and removes a critical bottleneck for citizen-derived data to be used for compliance checking and air-quality policy use.
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Affiliation(s)
- Sam De Craemer
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium
- VITO, Boeretang 200, 2400 Mol, Belgium
| | - Jordy Vercauteren
- Vlaamse Milieumaatschappij, Kronenburgstraat 45, 2000 Antwerpen, Belgium
| | - Frans Fierens
- Belgian Interregional Environment Agency, Gaucheretstraat 92-94, 1030 Brussels, Belgium
| | | | - Filip J R Meysman
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610 Wilrijk, Belgium
- Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ Delft, The Netherlands
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17
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Abstract
Cable bacteria (Deltaproteobacteria, Desulfobulbaceae) are long filamentous sulfur-oxidizing bacteria that generate long-distance electric currents running through the bacterial filaments. This way, they couple the oxidation of sulfide in deeper sediment layers to the reduction of oxygen or nitrate near the sediment-water interface. Cable bacteria are found in a wide range of aquatic sediments, but an accurate procedure to assess their abundance is lacking. We developed a qPCR approach that quantifies cable bacteria in relation to other bacteria within the family Desulfobulbaceae. Primer sets targeting cable bacteria, Desulfobulbaceae and the total bacterial community were applied in qPCR with DNA extracted from marine sediment incubations. Amplicon sequencing of the 16S rRNA gene V4 region confirmed that cable bacteria were accurately enumerated by qPCR, and suggested novel diversity of cable bacteria. The conjoint quantification of current densities and cell densities revealed that individual filaments carry a mean current of ∼110 pA and have a cell specific oxygen consumption rate of 69 fmol O2 cell–1 day–1. Overall, the qPCR method enables a better quantitative assessment of cable bacteria abundance, providing new metabolic insights at filament and cell level, and improving our understanding of the microbial ecology of electrogenic sediments.
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Affiliation(s)
| | - Sebastiaan J van de Velde
- Department of Earth and Planetary Sciences, University of California, Riverside, Riverside, CA, United States
| | - Filip J R Meysman
- Department of Biology, University of Antwerp, Antwerp, Belgium.,Department of Biotechnology, Delft University of Technology, Delft, Netherlands
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18
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Thiruvallur Eachambadi R, Bonné R, Cornelissen R, Hidalgo‐Martinez S, Vangronsveld J, Meysman FJR, Valcke R, Cleuren B, Manca JV. An Ordered and Fail‐Safe Electrical Network in Cable Bacteria. ACTA ACUST UNITED AC 2020; 4:e2000006. [DOI: 10.1002/adbi.202000006] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/06/2020] [Revised: 04/16/2020] [Indexed: 11/10/2022]
Affiliation(s)
| | - Robin Bonné
- UHasselt – X‐LABFaculty of SciencesHasselt University Agoralaan – Building D Diepenbeek B‐3590 Belgium
| | - Rob Cornelissen
- UHasselt – X‐LABFaculty of SciencesHasselt University Agoralaan – Building D Diepenbeek B‐3590 Belgium
| | | | - Jaco Vangronsveld
- Centre for Environmental SciencesHasselt University Agoralaan – Building D Diepenbeek B‐3590 Belgium
- Department of Plant PhysiologyFaculty of Biology and BiotechnologyMaria Curie‐Sklodowska University Lublin 20‐033 Poland
| | - Filip J. R. Meysman
- Department of BiotechnologyDelft University of Technology Van der Maasweg 9 Delft 2629 HZ The Netherlands
| | - Roland Valcke
- UHasselt – Molecular and Physical Plant PhysiologyFaculty of SciencesAgoralaan – Building DHasselt University Diepenbeek B‐3590 Belgium
| | - Bart Cleuren
- UHasselt – Theory LabFaculty of Sciences Agoralaan – Building D Diepenbeek B‐3590 Belgium
| | - Jean V. Manca
- UHasselt – X‐LABFaculty of SciencesHasselt University Agoralaan – Building D Diepenbeek B‐3590 Belgium
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19
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Vasquez‐Cardenas D, Meysman FJR, Boschker HTS. A Cross-System Comparison of Dark Carbon Fixation in Coastal Sediments. Global Biogeochem Cycles 2020; 34:e2019GB006298. [PMID: 32713991 PMCID: PMC7375125 DOI: 10.1029/2019gb006298] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/29/2019] [Revised: 01/09/2020] [Accepted: 01/24/2020] [Indexed: 05/22/2023]
Abstract
Dark carbon fixation (DCF) by chemoautotrophic microorganisms can sustain food webs in the seafloor by local production of organic matter independent of photosynthesis. The process has received considerable attention in deep sea systems, such as hydrothermal vents, but the regulation, depth distribution, and global importance of coastal sedimentary DCF have not been systematically investigated. Here we surveyed eight coastal sediments by means of stable isotope probing (13C-DIC) combined with bacterial biomarkers (phospholipid-derived fatty acids) and compiled additional rates from literature into a global database. DCF rates in coastal sediments range from 0.07 to 36.30 mmol C m-2 day-1, and there is a linear relation between DCF and water depth. The CO2 fixation ratio (DCF/CO2 respired) also shows a trend with water depth, decreasing from 0.09 in nearshore environments to 0.04 in continental shelf sediments. Five types of depth distributions of chemoautotrophic activity are identified based on the mode of pore water transport (advective, bioturbated, and diffusive) and the dominant pathway of microbial sulfur oxidation. Extrapolated to the global coastal ocean, we estimate a DCF rate of 0.04 to 0.06 Pg C year-1, which is less than previous estimates based on indirect measurements (0.15 Pg C year-1), but remains substantially higher than the global DCF rate at deep sea hydrothermal vents (0.001-0.002 Pg C year-1).
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Affiliation(s)
| | - Filip J. R. Meysman
- Department of BiotechnologyDelft University of TechnologyDelftThe Netherlands
- Department of BiologyUniversity of AntwerpAntwerpBelgium
| | - Henricus T. S. Boschker
- Department of BiotechnologyDelft University of TechnologyDelftThe Netherlands
- Department of BiologyUniversity of AntwerpAntwerpBelgium
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20
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Meysman FJR, Cornelissen R, Trashin S, Bonné R, Martinez SH, van der Veen J, Blom CJ, Karman C, Hou JL, Eachambadi RT, Geelhoed JS, Wael KD, Beaumont HJE, Cleuren B, Valcke R, van der Zant HSJ, Boschker HTS, Manca JV. A highly conductive fibre network enables centimetre-scale electron transport in multicellular cable bacteria. Nat Commun 2019; 10:4120. [PMID: 31511526 PMCID: PMC6739318 DOI: 10.1038/s41467-019-12115-7] [Citation(s) in RCA: 57] [Impact Index Per Article: 11.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2019] [Accepted: 08/19/2019] [Indexed: 11/25/2022] Open
Abstract
Biological electron transport is classically thought to occur over nanometre distances, yet recent studies suggest that electrical currents can run along centimetre-long cable bacteria. The phenomenon remains elusive, however, as currents have not been directly measured, nor have the conductive structures been identified. Here we demonstrate that cable bacteria conduct electrons over centimetre distances via highly conductive fibres embedded in the cell envelope. Direct electrode measurements reveal nanoampere currents in intact filaments up to 10.1 mm long (>2000 adjacent cells). A network of parallel periplasmic fibres displays a high conductivity (up to 79 S cm−1), explaining currents measured through intact filaments. Conductance rapidly declines upon exposure to air, but remains stable under vacuum, demonstrating that charge transfer is electronic rather than ionic. Our finding of a biological structure that efficiently guides electrical currents over long distances greatly expands the paradigm of biological charge transport and could enable new bio-electronic applications. Cable bacteria’ form long multicellular filaments that can transfer electrical currents over centimetre-long distances. Here, Meysman et al. show that the electrical currents run along highly conductive fibres embedded in the cell envelope, and charge transfer is electronic rather than ionic.
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Affiliation(s)
- Filip J R Meysman
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610, Wilrijk, Belgium. .,Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629HZ, Delft, The Netherlands.
| | - Rob Cornelissen
- X-LAB, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
| | - Stanislav Trashin
- AXES Research group, Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020, Antwerpen, Belgium
| | - Robin Bonné
- X-LAB, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
| | - Silvia Hidalgo Martinez
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610, Wilrijk, Belgium
| | - Jasper van der Veen
- Department of Quantum Nanoscience, Kavli Institute of Nanoscience, Technical University Delft, Lorentzweg 1, 2628 CJ, Delft, The Netherlands
| | - Carsten J Blom
- Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, van der Maasweg 9, 2629 HZ, Delft, The Netherlands
| | - Cheryl Karman
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610, Wilrijk, Belgium.,AXES Research group, Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020, Antwerpen, Belgium
| | - Ji-Ling Hou
- X-LAB, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
| | | | - Jeanine S Geelhoed
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610, Wilrijk, Belgium
| | - Karolien De Wael
- AXES Research group, Department of Chemistry, University of Antwerp, Groenenborgerlaan 171, B-2020, Antwerpen, Belgium
| | - Hubertus J E Beaumont
- Department of Bionanoscience, Kavli Institute of Nanoscience, Delft University of Technology, van der Maasweg 9, 2629 HZ, Delft, The Netherlands
| | - Bart Cleuren
- Theoretical Physics, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
| | - Roland Valcke
- Molecular and Physical Plant Physiology, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
| | - Herre S J van der Zant
- Department of Quantum Nanoscience, Kavli Institute of Nanoscience, Technical University Delft, Lorentzweg 1, 2628 CJ, Delft, The Netherlands
| | - Henricus T S Boschker
- Department of Biology, University of Antwerp, Universiteitsplein 1, B-2610, Wilrijk, Belgium.,Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629HZ, Delft, The Netherlands
| | - Jean V Manca
- X-LAB, Hasselt University, Agoralaan D, B-3590, Diepenbeek, Belgium
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21
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Cornelissen R, Bøggild A, Thiruvallur Eachambadi R, Koning RI, Kremer A, Hidalgo-Martinez S, Zetsche EM, Damgaard LR, Bonné R, Drijkoningen J, Geelhoed JS, Boesen T, Boschker HTS, Valcke R, Nielsen LP, D'Haen J, Manca JV, Meysman FJR. The Cell Envelope Structure of Cable Bacteria. Front Microbiol 2018; 9:3044. [PMID: 30619135 PMCID: PMC6307468 DOI: 10.3389/fmicb.2018.03044] [Citation(s) in RCA: 33] [Impact Index Per Article: 5.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2018] [Accepted: 11/26/2018] [Indexed: 11/16/2022] Open
Abstract
Cable bacteria are long, multicellular micro-organisms that are capable of transporting electrons from cell to cell along the longitudinal axis of their centimeter-long filaments. The conductive structures that mediate this long-distance electron transport are thought to be located in the cell envelope. Therefore, this study examines in detail the architecture of the cell envelope of cable bacterium filaments by combining different sample preparation methods (chemical fixation, resin-embedding, and cryo-fixation) with a portfolio of imaging techniques (scanning electron microscopy, transmission electron microscopy and tomography, focused ion beam scanning electron microscopy, and atomic force microscopy). We systematically imaged intact filaments with varying diameters. In addition, we investigated the periplasmic fiber sheath that remains after the cytoplasm and membranes were removed by chemical extraction. Based on these investigations, we present a quantitative structural model of a cable bacterium. Cable bacteria build their cell envelope by a parallel concatenation of ridge compartments that have a standard size. Larger diameter filaments simply incorporate more parallel ridge compartments. Each ridge compartment contains a ~50 nm diameter fiber in the periplasmic space. These fibers are continuous across cell-to-cell junctions, which display a conspicuous cartwheel structure that is likely made by invaginations of the outer cell membrane around the periplasmic fibers. The continuity of the periplasmic fibers across cells makes them a prime candidate for the sought-after electron conducting structure in cable bacteria.
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Affiliation(s)
| | - Andreas Bøggild
- Center for Electromicrobiology, Department of Bioscience Aarhus University, Aarhus, Denmark.,Interdisciplinary Nanoscience Center and Department of Molecular Biology and Genetics, Structural Biology Aarhus University, Aarhus, Denmark
| | | | - Roman I Koning
- Department of Cell and Chemical Biology, Leiden University Medical Center, Leiden, Netherlands
| | - Anna Kremer
- Bio-imaging Core, Flemish Institute of Biotechnology (VIB), Gent, Belgium
| | | | - Eva-Maria Zetsche
- Department of Marine Sciences, University of Gothenburg, Gothenburg, Sweden
| | - Lars R Damgaard
- Center for Electromicrobiology, Department of Bioscience Aarhus University, Aarhus, Denmark
| | | | | | | | - Thomas Boesen
- Center for Electromicrobiology, Department of Bioscience Aarhus University, Aarhus, Denmark.,Interdisciplinary Nanoscience Center and Department of Molecular Biology and Genetics, Structural Biology Aarhus University, Aarhus, Denmark
| | - Henricus T S Boschker
- Department of Biology, University of Antwerp, Antwerpen, Belgium.,Department of Biotechnology, Delft University of Technology, Delft, Netherlands
| | - Roland Valcke
- Molecular and Physical Plant Physiology, Hasselt University, Hasselt, Belgium
| | - Lars Peter Nielsen
- Center for Electromicrobiology, Department of Bioscience Aarhus University, Aarhus, Denmark
| | - Jan D'Haen
- Institute for Materials Research (IMO), Hasselt University, Hasselt, Belgium
| | | | - Filip J R Meysman
- Department of Biology, University of Antwerp, Antwerpen, Belgium.,Department of Biotechnology, Delft University of Technology, Delft, Netherlands
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22
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Calatayud M, Dezutter O, Hernandez-Sanabria E, Hidalgo-Martinez S, Meysman FJR, Van de Wiele T. Development of a host-microbiome model of the small intestine. FASEB J 2018; 33:3985-3996. [PMID: 30521380 DOI: 10.1096/fj.201801414r] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
Abstract
The intestinal epithelium plays an essential role in the balance between tolerant and protective immune responses to infectious agents. In vitro models do not typically consider the innate immune response and gut microbiome in detail, so these models do not fully mimic the physiologic aspects of the small intestine. We developed and characterized a long-term in vitro model containing enterocyte, goblet, and immune-like cells exposed to a synthetic microbial community representative of commensal inhabitants of the small intestine. This model showed differential responses toward a synthetic microbial community of commensal bacterial inhabitants of the small intestine in the absence or presence of LPS from Escherichia coli O111:B4. Simultaneous exposure to LPS and microbiota induced impaired epithelial barrier function; increased production of IL-8, IL-6, TNF-α, and C-X-C motif chemokine ligand 16; and augmented differentiation and adhesion of macrophage-like cells and the overexpression of dual oxidase 2 and TLR-2 and -4 mRNA. In addition, the model demonstrated the ability to assess the adhesion of specific bacterial strains from the synthetic microbial community-more specifically, Veillonella parvula-to the simulated epithelium. This novel in vitro model may assist in overcoming sampling and retrieval difficulties when studying host-microbiome interactions in the small intestine.-Calatayud, M., Dezutter, O., Hernandez-Sanabria, E., Hidalgo-Martinez, S., Meysman, F. J. R., Van de Wiele, T. Development of a host-microbiome model of the small intestine.
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Affiliation(s)
- Marta Calatayud
- Center for Microbial Ecology and Technology (CMET), Ghent University, Ghent, Belgium
| | - Olivier Dezutter
- Center for Microbial Ecology and Technology (CMET), Ghent University, Ghent, Belgium
| | | | - Silvia Hidalgo-Martinez
- Department of Biology, Ecosystem Management Research Group (ECOBE), University of Antwerp, Wilrijk, Belgium; and
| | - Filip J R Meysman
- Department of Biology, Ecosystem Management Research Group (ECOBE), University of Antwerp, Wilrijk, Belgium; and.,Department of Biotechnology, Delft University of Technology, Delft, The Netherlands
| | - Tom Van de Wiele
- Center for Microbial Ecology and Technology (CMET), Ghent University, Ghent, Belgium
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23
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Marzocchi U, Bonaglia S, van de Velde S, Hall POJ, Schramm A, Risgaard-Petersen N, Meysman FJR. Transient bottom water oxygenation creates a niche for cable bacteria in long-term anoxic sediments of the Eastern Gotland Basin. Environ Microbiol 2018; 20:3031-3041. [DOI: 10.1111/1462-2920.14349] [Citation(s) in RCA: 25] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2018] [Revised: 06/27/2018] [Accepted: 06/29/2018] [Indexed: 11/27/2022]
Affiliation(s)
- Ugo Marzocchi
- Department of Chemistry; Research Group for Analytical, Environmental and Geochemistry, Vrije Universiteit; Brussels Belgium
- Center for Geomicrobiology, Section for Microbiology, Department of Bioscience; Aarhus University; Aarhus Denmark
| | - Stefano Bonaglia
- Department of Ecology, Environment and Plant Sciences; Stockholm University; Stockholm Sweden
| | - Sebastiaan van de Velde
- Department of Chemistry; Research Group for Analytical, Environmental and Geochemistry, Vrije Universiteit; Brussels Belgium
- Department of Biology; Universiteit Antwerpen; Antwerpen Belgium
| | - Per O. J. Hall
- Department of Marine Sciences; University of Gothenburg; Gothenburg Sweden
| | - Andreas Schramm
- Center for Electromicrobiology, Section for Microbiology, Department of Bioscience; Aarhus University; Aarhus Denmark
| | - Nils Risgaard-Petersen
- Center for Geomicrobiology, Section for Microbiology, Department of Bioscience; Aarhus University; Aarhus Denmark
- Center for Electromicrobiology, Section for Microbiology, Department of Bioscience; Aarhus University; Aarhus Denmark
| | - Filip J. R. Meysman
- Department of Biology; Universiteit Antwerpen; Antwerpen Belgium
- Aarhus Institute of Advanced Sciences; Aarhus University; Aarhus Denmark
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24
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van de Velde S, Mills BJW, Meysman FJR, Lenton TM, Poulton SW. Early Palaeozoic ocean anoxia and global warming driven by the evolution of shallow burrowing. Nat Commun 2018; 9:2554. [PMID: 29967319 PMCID: PMC6028391 DOI: 10.1038/s41467-018-04973-4] [Citation(s) in RCA: 41] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/12/2017] [Accepted: 06/08/2018] [Indexed: 11/09/2022] Open
Abstract
The evolution of burrowing animals forms a defining event in the history of the Earth. It has been hypothesised that the expansion of seafloor burrowing during the Palaeozoic altered the biogeochemistry of the oceans and atmosphere. However, whilst potential impacts of bioturbation on the individual phosphorus, oxygen and sulphur cycles have been considered, combined effects have not been investigated, leading to major uncertainty over the timing and magnitude of the Earth system response to the evolution of bioturbation. Here we integrate the evolution of bioturbation into the COPSE model of global biogeochemical cycling, and compare quantitative model predictions to multiple geochemical proxies. Our results suggest that the advent of shallow burrowing in the early Cambrian contributed to a global low-oxygen state, which prevailed for ~100 million years. This impact of bioturbation on global biogeochemistry likely affected animal evolution through expanded ocean anoxia, high atmospheric CO2 levels and global warming. The extent to which the onset of bioturbation affected global biogeochemistry during the Palaeozoic remains unclear. Here, the authors integrate bioturbation into the COPSE model, compare output with geochemical proxies, and suggest shallow burrowing contributed to a global low oxygen state during the early Cambrian.
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Affiliation(s)
- Sebastiaan van de Velde
- Department of Chemistry, Analytical, Environmental and Geo-Chemistry, Vrije Universiteit Brussel, Pleinlaan 2, 1050, Brussel, Belgium. .,Ecosystem Management Research Group, Department of Biology, Universiteit Antwerpen, Universiteitsplein 1, 2610, Wilrijk, Belgium.
| | - Benjamin J W Mills
- School of Earth and Environment, University of Leeds, Leeds, LS2 9JT, UK
| | - Filip J R Meysman
- Ecosystem Management Research Group, Department of Biology, Universiteit Antwerpen, Universiteitsplein 1, 2610, Wilrijk, Belgium.,Department of Biotechnology, Delft University of Technology, Van der Maasweg 9, 2629 HZ, Delft, The Netherlands
| | - Timothy M Lenton
- Earth System Science Group, College of Life and Environmental Sciences, University of Exeter, EX4 4QE, Exeter, UK
| | - Simon W Poulton
- School of Earth and Environment, University of Leeds, Leeds, LS2 9JT, UK
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25
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Beam JP, Scott JJ, McAllister SM, Chan CS, McManus J, Meysman FJR, Emerson D. Biological rejuvenation of iron oxides in bioturbated marine sediments. ISME J 2018; 12:1389-1394. [PMID: 29343830 DOI: 10.1038/s41396-017-0032-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Revised: 11/22/2017] [Accepted: 11/29/2017] [Indexed: 02/04/2023]
Abstract
The biogeochemical cycle of iron is intricately linked to numerous element cycles. Although biological processes that catalyze the reductive side of the iron cycle are established, little is known about microbial oxidative processes on iron cycling in sedimentary environments-resulting in the formation of iron oxides. Here we show that a potential source of sedimentary iron oxides originates from the metabolic activity of iron-oxidizing bacteria from the class Zetaproteobacteria, presumably enhanced by burrowing animals in coastal sediments. Zetaproteobacteria were estimated to be a global total of 1026 cells in coastal, bioturbated sediments, and predicted to annually produce 8 × 1015 g of Fe in sedimentary iron oxides-55 times larger than the annual flux of iron oxides deposited by rivers. These data suggest that iron-oxidizing Zetaproteobacteria are keystone organisms in marine sedimentary environments-despite their low numerical abundance-yet exert a disproportionate impact via the rejuvenation of iron oxides.
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Affiliation(s)
- Jacob P Beam
- Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, 04544, USA.
| | - Jarrod J Scott
- Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, 04544, USA.,Smithsonian Tropical Research Institute, Apartado Postal 0843-03092, Panamá, Republic of Panama
| | - Sean M McAllister
- Department of Geological Sciences, University of Delaware, Newark, DE, 19716, USA
| | - Clara S Chan
- Department of Geological Sciences, University of Delaware, Newark, DE, 19716, USA
| | - James McManus
- Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, 04544, USA
| | - Filip J R Meysman
- Department of Biology, University of Antwerp, Universiteitsplein 1, 2610, Wilrijk, Belgium.,Department of Biotechnology, Technical University of Delft, Van der Maasweg 9, 2629 HZ, Delft, The Netherlands
| | - David Emerson
- Bigelow Laboratory for Ocean Sciences, East Boothbay, ME, 04544, USA
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26
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Meysman FJR, Montserrat F. Negative CO 2 emissions via enhanced silicate weathering in coastal environments. Biol Lett 2017; 13:rsbl.2016.0905. [PMID: 28381634 PMCID: PMC5414690 DOI: 10.1098/rsbl.2016.0905] [Citation(s) in RCA: 21] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2016] [Accepted: 01/28/2017] [Indexed: 11/17/2022] Open
Abstract
Negative emission technologies (NETs) target the removal of carbon dioxide (CO2) from the atmosphere, and are being actively investigated as a strategy to limit global warming to within the 1.5–2°C targets of the 2015 UN climate agreement. Enhanced silicate weathering (ESW) proposes to exploit the natural process of mineral weathering for the removal of CO2 from the atmosphere. Here, we discuss the potential of applying ESW in coastal environments as a climate change mitigation option. By deliberately introducing fast-weathering silicate minerals onto coastal sediments, alkalinity is released into the overlying waters, thus creating a coastal CO2 sink. Compared with other NETs, coastal ESW has the advantage that it counteracts ocean acidification, does not interfere with terrestrial land use and can be directly integrated into existing coastal management programmes with existing (dredging) technology. Yet presently, the concept is still at an early stage, and so two major research challenges relate to the efficiency and environmental impact of ESW. Dedicated experiments are needed (i) to more precisely determine the weathering rate under in situ conditions within the seabed and (ii) to evaluate the ecosystem impacts—both positive and negative—from the released weathering products.
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Affiliation(s)
- Filip J R Meysman
- Department of Analytical, Environmental and Geo-Chemistry, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium .,Aarhus Institute of Advanced Studies (AIAS), Aarhus University, Hoegh-Guldbergs Gade 6B, 8000 Aarhus C, Denmark
| | - Francesc Montserrat
- Department of Analytical, Environmental and Geo-Chemistry, Vrije Universiteit Brussel, Pleinlaan 2, 1050 Brussels, Belgium
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27
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Meire L, Mortensen J, Meire P, Juul-Pedersen T, Sejr MK, Rysgaard S, Nygaard R, Huybrechts P, Meysman FJR. Marine-terminating glaciers sustain high productivity in Greenland fjords. Glob Chang Biol 2017; 23:5344-5357. [PMID: 28776870 DOI: 10.1111/gcb.13801] [Citation(s) in RCA: 29] [Impact Index Per Article: 4.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/06/2017] [Accepted: 06/13/2017] [Indexed: 05/06/2023]
Abstract
Accelerated mass loss from the Greenland ice sheet leads to glacier retreat and an increasing input of glacial meltwater to the fjords and coastal waters around Greenland. These high latitude ecosystems are highly productive and sustain important fisheries, yet it remains uncertain how they will respond to future changes in the Arctic cryosphere. Here we show that marine-terminating glaciers play a crucial role in sustaining high productivity of the fjord ecosystems. Hydrographic and biogeochemical data from two fjord systems adjacent to the Greenland ice sheet, suggest that marine ecosystem productivity is very differently regulated in fjords influenced by either land-terminating or marine-terminating glaciers. Rising subsurface meltwater plumes originating from marine-terminating glaciers entrain large volumes of ambient deep water to the surface. The resulting upwelling of nutrient-rich deep water sustains a high phytoplankton productivity throughout summer in the fjord with marine-terminating glaciers. In contrast, the fjord with only land-terminating glaciers lack this upwelling mechanism, and is characterized by lower productivity. Data on commercial halibut landings support that coastal regions influenced by large marine-terminating glaciers have substantially higher marine productivity. These results suggest that a switch from marine-terminating to land-terminating glaciers can substantially alter the productivity in the coastal zone around Greenland with potentially large ecological and socio-economic implications.
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Affiliation(s)
- Lorenz Meire
- Greenland Climate Research Centre (GCRC), Greenland Institute of Natural Resources, Nuuk, Greenland
- Department of Estuarine and Delta Systems, NIOZ Royal Netherlands Institute of Sea Research and Utrecht University, Yerseke, The Netherlands
- Arctic Research Centre, Aarhus University, Aarhus, Denmark
| | - John Mortensen
- Greenland Climate Research Centre (GCRC), Greenland Institute of Natural Resources, Nuuk, Greenland
| | - Patrick Meire
- Ecosystem Management Research Group, University of Antwerp, Antwerpen, Belgium
| | - Thomas Juul-Pedersen
- Greenland Climate Research Centre (GCRC), Greenland Institute of Natural Resources, Nuuk, Greenland
| | - Mikael K Sejr
- Arctic Research Centre, Aarhus University, Aarhus, Denmark
| | - Søren Rysgaard
- Greenland Climate Research Centre (GCRC), Greenland Institute of Natural Resources, Nuuk, Greenland
- Arctic Research Centre, Aarhus University, Aarhus, Denmark
- Department of environment and Geography, Centre for Earth Observation Science, University of Manitoba, Winnipeg, Canada
- Department of Geological Sciences, University of Manitoba, Winnipeg, Canada
| | - Rasmus Nygaard
- Greenland Climate Research Centre (GCRC), Greenland Institute of Natural Resources, Nuuk, Greenland
| | - Philippe Huybrechts
- Earth System Science & Departement Geografie, Vrije Universiteit Brussel, Brussel, Belgium
| | - Filip J R Meysman
- Department of Estuarine and Delta Systems, NIOZ Royal Netherlands Institute of Sea Research and Utrecht University, Yerseke, The Netherlands
- Department of Analytical, Environmental and Geochemistry (AMGC), Vrije Universiteit Brussel (VUB), Brussel, Belgium
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28
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Montserrat F, Renforth P, Hartmann J, Leermakers M, Knops P, Meysman FJR. Olivine Dissolution in Seawater: Implications for CO 2 Sequestration through Enhanced Weathering in Coastal Environments. Environ Sci Technol 2017; 51:3960-3972. [PMID: 28281750 PMCID: PMC5382570 DOI: 10.1021/acs.est.6b05942] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/24/2016] [Revised: 03/09/2017] [Accepted: 03/10/2017] [Indexed: 05/25/2023]
Abstract
Enhanced weathering of (ultra)basic silicate rocks such as olivine-rich dunite has been proposed as a large-scale climate engineering approach. When implemented in coastal environments, olivine weathering is expected to increase seawater alkalinity, thus resulting in additional CO2 uptake from the atmosphere. However, the mechanisms of marine olivine weathering and its effect on seawater-carbonate chemistry remain poorly understood. Here, we present results from batch reaction experiments, in which forsteritic olivine was subjected to rotational agitation in different seawater media for periods of days to months. Olivine dissolution caused a significant increase in alkalinity of the seawater with a consequent DIC increase due to CO2 invasion, thus confirming viability of the basic concept of enhanced silicate weathering. However, our experiments also identified several important challenges with respect to the detailed quantification of the CO2 sequestration efficiency under field conditions, which include nonstoichiometric dissolution, potential pore water saturation in the seabed, and the potential occurrence of secondary reactions. Before enhanced weathering of olivine in coastal environments can be considered an option for realizing negative CO2 emissions for climate mitigation purposes, these aspects need further experimental assessment.
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Affiliation(s)
- Francesc Montserrat
- Department
of Analytical, Environmental and Geo-Chemistry, Free University of Brussels, Pleinlaan 2, 1050 Brussels, Belgium
| | - Phil Renforth
- School
of Earth and Ocean Sciences, Cardiff University, Main Building, Park Place, Cardiff, CF10 3AT United Kingdom
| | - Jens Hartmann
- Institute
for Geology, Center for Earth System research and sustainability (CEN), Universität Hamburg, Bundesstraße 55, 20146 Hamburg, Germany
| | - Martine Leermakers
- Department
of Analytical, Environmental and Geo-Chemistry, Free University of Brussels, Pleinlaan 2, 1050 Brussels, Belgium
| | - Pol Knops
- Green
Minerals B.V., Boulevard
17, 6127 AX Grevenbicht, The Netherlands
| | - Filip J. R. Meysman
- Department
of Analytical, Environmental and Geo-Chemistry, Free University of Brussels, Pleinlaan 2, 1050 Brussels, Belgium
- Aarhus
Institute of Advanced Studies (AIAS), Aarhus
University, Hoegh-Guldbergs
Gade 6B, DK-8000 Aarhus C, Denmark
- NIOZ Royal
Netherlands Institute for Sea Research, Department of Estuarine and
Delta Systems, and Utrecht University, Korringaweg 7, 4401 NT Yerseke, The Netherlands
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29
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Lipsewers YA, Hopmans EC, Meysman FJR, Sinninghe Damsté JS, Villanueva L. Abundance and Diversity of Denitrifying and Anammox Bacteria in Seasonally Hypoxic and Sulfidic Sediments of the Saline Lake Grevelingen. Front Microbiol 2016; 7:1661. [PMID: 27812355 PMCID: PMC5071380 DOI: 10.3389/fmicb.2016.01661] [Citation(s) in RCA: 24] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2016] [Accepted: 10/05/2016] [Indexed: 11/13/2022] Open
Abstract
Denitrifying and anammox bacteria are involved in the nitrogen cycling in marine sediments but the environmental factors that regulate the relative importance of these processes are not well constrained. Here, we evaluated the abundance, diversity, and potential activity of denitrifying, anammox, and sulfide-dependent denitrifying bacteria in the sediments of the seasonally hypoxic saline Lake Grevelingen, known to harbor an active microbial community involved in sulfur oxidation pathways. Depth distributions of 16S rRNA gene, nirS gene of denitrifying and anammox bacteria, aprA gene of sulfur-oxidizing and sulfate-reducing bacteria, and ladderane lipids of anammox bacteria were studied in sediments impacted by seasonally hypoxic bottom waters. Samples were collected down to 5 cm depth (1 cm resolution) at three different locations before (March) and during summer hypoxia (August). The abundance of denitrifying bacteria did not vary despite of differences in oxygen and sulfide availability in the sediments, whereas anammox bacteria were more abundant in the summer hypoxia but in those sediments with lower sulfide concentrations. The potential activity of denitrifying and anammox bacteria as well as of sulfur-oxidizing, including sulfide-dependent denitrifiers and sulfate-reducing bacteria, was potentially inhibited by the competition for nitrate and nitrite with cable and/or Beggiatoa-like bacteria in March and by the accumulation of sulfide in the summer hypoxia. The simultaneous presence and activity of organoheterotrophic denitrifying bacteria, sulfide-dependent denitrifiers, and anammox bacteria suggests a tight network of bacteria coupling carbon-, nitrogen-, and sulfur cycling in Lake Grevelingen sediments.
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Affiliation(s)
- Yvonne A Lipsewers
- Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research, Utrecht University Den Burg, Netherlands
| | - Ellen C Hopmans
- Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research, Utrecht University Den Burg, Netherlands
| | - Filip J R Meysman
- Department of Estuarine and Delta Systems, Royal Netherlands Institute for Sea Research, Utrecht University Den Burg, Netherlands
| | - Jaap S Sinninghe Damsté
- Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research, Utrecht UniversityDen Burg, Netherlands; Faculty of Geosciences, Department of Earth Sciences, Utrecht UniversityUtrecht, Netherlands
| | - Laura Villanueva
- Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research, Utrecht University Den Burg, Netherlands
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30
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Egger M, Lenstra W, Jong D, Meysman FJR, Sapart CJ, van der Veen C, Röckmann T, Gonzalez S, Slomp CP. Rapid Sediment Accumulation Results in High Methane Effluxes from Coastal Sediments. PLoS One 2016; 11:e0161609. [PMID: 27560511 PMCID: PMC4999275 DOI: 10.1371/journal.pone.0161609] [Citation(s) in RCA: 45] [Impact Index Per Article: 5.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/12/2016] [Accepted: 08/09/2016] [Indexed: 12/04/2022] Open
Abstract
Globally, the methane (CH4) efflux from the ocean to the atmosphere is small, despite high rates of CH4 production in continental shelf and slope environments. This low efflux results from the biological removal of CH4 through anaerobic oxidation with sulfate in marine sediments. In some settings, however, pore water CH4 is found throughout the sulfate-bearing zone, indicating an apparently inefficient oxidation barrier for CH4. Here we demonstrate that rapid sediment accumulation can explain this limited capacity for CH4 removal in coastal sediments. In a saline coastal reservoir (Lake Grevelingen, The Netherlands), we observed high diffusive CH4 effluxes from the sediment into the overlying water column (0.2-0.8 mol m-2 yr-1) during multiple years. Linear pore water CH4 profiles and the absence of an isotopic enrichment commonly associated with CH4 oxidation in a zone with high rates of sulfate reduction (50-170 nmol cm-3 d-1) both suggest that CH4 is bypassing the zone of sulfate reduction. We propose that the rapid sediment accumulation at this site (~ 13 cm yr-1) reduces the residence time of the CH4 oxidizing microorganisms in the sulfate/methane transition zone (< 5 years), thus making it difficult for these slow growing methanotrophic communities to build-up sufficient biomass to efficiently remove pore water CH4. In addition, our results indicate that the high input of organic matter (~ 91 mol C m-2 yr-1) allows for the co-occurrence of different dissimilatory respiration processes, such as (acetotrophic) methanogenesis and sulfate reduction in the surface sediments by providing abundant substrate. We conclude that anthropogenic eutrophication and rapid sediment accumulation likely increase the release of CH4 from coastal sediments.
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Affiliation(s)
- Matthias Egger
- Department of Earth Sciences–Geochemistry, Faculty of Geosciences, Utrecht University, Utrecht, The Netherlands
| | - Wytze Lenstra
- Department of Earth Sciences–Geochemistry, Faculty of Geosciences, Utrecht University, Utrecht, The Netherlands
| | - Dirk Jong
- Department of Earth Sciences–Geochemistry, Faculty of Geosciences, Utrecht University, Utrecht, The Netherlands
| | - Filip J. R. Meysman
- Department of Estuarine and Deltaic Studies, Royal Netherlands Institute for Sea Research, Yerseke, The Netherlands
- Department of Analytical, Environmental, and Geochemistry, Vrije Universiteit Brussel, Brussels, Belgium
| | - Célia J. Sapart
- Institute for Marine and Atmospheric Research Utrecht, Utrecht University, Utrecht, The Netherlands
- Laboratoire de Glaciologie, Université Libre de Bruxelles, Brussels, Belgium
| | - Carina van der Veen
- Institute for Marine and Atmospheric Research Utrecht, Utrecht University, Utrecht, The Netherlands
| | - Thomas Röckmann
- Institute for Marine and Atmospheric Research Utrecht, Utrecht University, Utrecht, The Netherlands
| | - Santiago Gonzalez
- Department of Marine Microbiology and Biogeochemistry, Royal Netherlands Institute for Sea Research (NIOZ), Texel, The Netherlands
| | - Caroline P. Slomp
- Department of Earth Sciences–Geochemistry, Faculty of Geosciences, Utrecht University, Utrecht, The Netherlands
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31
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Zetsche EM, Baussant T, Meysman FJR, van Oevelen D. Direct Visualization of Mucus Production by the Cold-Water Coral Lophelia pertusa with Digital Holographic Microscopy. PLoS One 2016; 11:e0146766. [PMID: 26840074 PMCID: PMC4740404 DOI: 10.1371/journal.pone.0146766] [Citation(s) in RCA: 23] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/03/2015] [Accepted: 12/22/2015] [Indexed: 11/21/2022] Open
Abstract
Lophelia pertusa is the dominant reef-building organism of cold-water coral reefs, and is known to produce significant amounts of mucus, which could involve an important metabolic cost. Mucus is involved in particle removal and feeding processes, yet the triggers and dynamics of mucus production are currently still poorly described because the existing tools to study these processes are not appropriate. Using a novel microscopic technique—digital holographic microscopy (DHM)–we studied the mucus release of L. pertusa under various experimental conditions. DHM technology permits μm-scale observations and allows the visualization of transparent mucoid substances in real time without staining. Fragments of L. pertusa were first maintained in flow-through chambers without stressors and imaged with DHM, then exposed to various stressors (suspended particles, particulate food and air exposure) and re-imaged. Under non-stressed conditions no release of mucus was observed, whilst mucus strings and sheaths were produced in response to suspended particles (activated charcoal and drill cuttings sediment) i.e. in a stressed condition. Mucus strings and so-called ‘string balls’ were also observed in response to exposure to particulate food (brine shrimp Artemia salina). Upon air-exposure, mucus production was clearly visible once the fragments were returned to the flow chamber. Distinct optical properties such as optical path length difference (OPD) were measured with DHM in response to the various stimuli suggesting that different mucus types are produced by L. pertusa. Mucus produced to reject particles is similar in refractive index to the surrounding seawater, suggesting that the energy content of this mucus is low. In contrast, mucus produced in response to either food particle addition or air exposure had a higher refractive index, suggesting a higher metabolic investment in the production of these mucoid substances. This paper shows for the first time the potential of DHM technology for the detection, characterization and quantification of mucus production through OPD measurements in L. pertusa.
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Affiliation(s)
- Eva-Maria Zetsche
- Analytical, Environmental & Geo-Chemistry, Vrije Universiteit Brussel, Brussels, Belgium
- Department of Ecosystem Studies, Royal Netherlands Institute for Sea Research (NIOZ-Yerseke), Yerseke, The Netherlands
- * E-mail:
| | - Thierry Baussant
- International Research Institute of Stavanger (IRIS), Randaberg, Norway
| | - Filip J. R. Meysman
- Analytical, Environmental & Geo-Chemistry, Vrije Universiteit Brussel, Brussels, Belgium
- Department of Ecosystem Studies, Royal Netherlands Institute for Sea Research (NIOZ-Yerseke), Yerseke, The Netherlands
| | - Dick van Oevelen
- Department of Ecosystem Studies, Royal Netherlands Institute for Sea Research (NIOZ-Yerseke), Yerseke, The Netherlands
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Sulu-Gambari F, Seitaj D, Meysman FJR, Schauer R, Polerecky L, Slomp CP. Cable Bacteria Control Iron-Phosphorus Dynamics in Sediments of a Coastal Hypoxic Basin. Environ Sci Technol 2016; 50:1227-1233. [PMID: 26720721 DOI: 10.1021/acs.est.5b04369] [Citation(s) in RCA: 32] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/05/2023]
Abstract
Phosphorus is an essential nutrient for life. The release of phosphorus from sediments is critical in sustaining phytoplankton growth in many aquatic systems and is pivotal to eutrophication and the development of bottom water hypoxia. Conventionally, sediment phosphorus release is thought to be controlled by changes in iron oxide reduction driven by variations in external environmental factors, such as organic matter input and bottom water oxygen. Here, we show that internal shifts in microbial communities, and specifically the population dynamics of cable bacteria, can also induce strong seasonality in sedimentary iron-phosphorus dynamics. Field observations in a seasonally hypoxic coastal basin demonstrate that the long-range electrogenic metabolism of cable bacteria leads to a dissolution of iron sulfides in winter and spring. Subsequent oxidation of the mobilized ferrous iron with manganese oxides results in a large stock of iron-oxide-bound phosphorus below the oxic zone. In summer, when bottom water hypoxia develops and cable bacteria are undetectable, the phosphorus associated with these iron oxides is released, strongly increasing phosphorus availability in the water column. Future research should elucidate whether formation of iron-oxide-bound phosphorus driven by cable bacteria, as observed in this study, contributes to the seasonality in iron-phosphorus cycling in aquatic sediments worldwide.
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Affiliation(s)
- Fatimah Sulu-Gambari
- Department of Earth Sciences, Geochemistry, Faculty of Geosciences, Utrecht University , Utrecht, The Netherlands
| | - Dorina Seitaj
- Department of Ecosystem Studies, Royal Netherlands Institute for Sea Research , Yerseke, The Netherlands
| | - Filip J R Meysman
- Department of Ecosystem Studies, Royal Netherlands Institute for Sea Research , Yerseke, The Netherlands
| | - Regina Schauer
- Center for Geomicrobiology and Section for Microbiology, Department of Bioscience, Aarhus University , Aarhus, Denmark
| | - Lubos Polerecky
- Department of Earth Sciences, Geochemistry, Faculty of Geosciences, Utrecht University , Utrecht, The Netherlands
| | - Caroline P Slomp
- Department of Earth Sciences, Geochemistry, Faculty of Geosciences, Utrecht University , Utrecht, The Netherlands
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Abstract
The idea that entropy production puts a constraint on ecosystem functioning is quite popular in ecological thermodynamics. Yet, until now, such claims have received little quantitative verification. Here, we examine three 'entropy production' hypotheses that have been forwarded in the past. The first states that increased entropy production serves as a fingerprint of living systems. The other two hypotheses invoke stronger constraints. The state selection hypothesis states that when a system can attain multiple steady states, the stable state will show the highest entropy production rate. The gradient response principle requires that when the thermodynamic gradient increases, the system's new stable state should always be accompanied by a higher entropy production rate. We test these three hypotheses by applying them to a set of conventional food web models. Each time, we calculate the entropy production rate associated with the stable state of the ecosystem. This analysis shows that the first hypothesis holds for all the food webs tested: the living state shows always an increased entropy production over the abiotic state. In contrast, the state selection and gradient response hypotheses break down when the food web incorporates more than one trophic level, indicating that they are not generally valid.
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Affiliation(s)
- Filip J R Meysman
- Laboratory for Analytical and Environmental Chemistry, Earth System Sciences Research Unit, Vrije Universiteit Brussel (VUB), Pleinlaan 2, 1050 Brussel, Belgium.
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Meysman FJR, Bruers S. A thermodynamic perspective on food webs: quantifying entropy production within detrital-based ecosystems. J Theor Biol 2007; 249:124-39. [PMID: 17720204 DOI: 10.1016/j.jtbi.2007.07.015] [Citation(s) in RCA: 26] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2007] [Revised: 07/17/2007] [Accepted: 07/17/2007] [Indexed: 11/15/2022]
Abstract
Because ecosystems fit so nicely the framework of a "dissipative system", a better integration of thermodynamic and ecological perspectives could benefit the quantitative analysis of ecosystems. One obstacle is that traditional food web models are solely based upon the principles of mass and energy conservation, while the theory of non-equilibrium thermodynamics principally focuses on the concept of entropy. To properly cast classical food web models within a thermodynamic framework, one requires a proper quantification of the entropy production that accompanies resource processing of the food web. Here we present such a procedure, which emphasizes a rigorous definition of thermodynamic concepts (e.g. thermodynamic gradient, disequilibrium distance, entropy production, physical environment) and their correct translation into ecological terms. Our analysis provides a generic way to assess the thermodynamic operation of a food web: all information on resource processing is condensed into a single resource processing constant. By varying this constant, one can investigate the range of possible food web behavior within a given fixed physical environment. To illustrate the concepts and methods, we apply our analysis to a very simple example ecosystem: the detrital-based food web of marine sediments. We examine whether entropy production maximization has any ecological relevance in terms of food web functioning.
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Affiliation(s)
- Filip J R Meysman
- Netherlands Institute of Ecology (NIOO-KNAW), Centre for Estuarine and Marine Ecology, Korringaweg 7, 4401 NT Yerseke, The Netherlands.
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Affiliation(s)
- Jack J Middelburg
- Centre for Estuarine and Marine Ecology, Netherlands Institute of Ecology, 4401 NT Yerseke, Netherlands.
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Meysman FJR, Middelburg JJ, Heip CHR. Bioturbation: a fresh look at Darwin's last idea. Trends Ecol Evol 2006; 21:688-95. [PMID: 16901581 DOI: 10.1016/j.tree.2006.08.002] [Citation(s) in RCA: 211] [Impact Index Per Article: 11.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2006] [Revised: 07/05/2006] [Accepted: 08/01/2006] [Indexed: 10/24/2022]
Abstract
Bioturbation refers to the biological reworking of soils and sediments, and its importance for soil processes and geomorphology was first realised by Charles Darwin, who devoted his last scientific book to the subject. Here, we review some new insights into the evolutionary and ecological role of bioturbation that would have probably amazed Darwin. In modern ecological theory, bioturbation is now recognised as an archetypal example of 'ecosystem engineering', modifying geochemical gradients, redistributing food resources, viruses, bacteria, resting stages and eggs. From an evolutionary perspective, recent investigations provide evidence that bioturbation had a key role in the evolution of metazoan life at the end of the Precambrian Era.
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Affiliation(s)
- Filip J R Meysman
- Centre for Estuarine en Marine Ecology (CEME), The Netherlands Institute of Ecology (NIOO-KNAW), Korringaweg 7, 4401 NT Yerseke, The Netherlands.
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Staal M, Meysman FJR, Stal LJ. Temperature excludes N2-fixing heterocystous cyanobacteria in the tropical oceans. Nature 2003; 425:504-7. [PMID: 14523445 DOI: 10.1038/nature01999] [Citation(s) in RCA: 65] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/30/2003] [Accepted: 08/11/2003] [Indexed: 11/09/2022]
Abstract
Whereas the non-heterocystous cyanobacteria Trichodesmium spp. are the dominant N2-fixing organisms in the tropical oceans, heterocystous species dominate N2 fixation in freshwater lakes and brackish environments such as the Baltic Sea. So far no satisfactory explanation for the absence of heterocystous cyanobacteria in the pelagic of the tropical oceans has been given, even though heterocysts would seem to represent an ideal strategy for protecting nitrogenase from being inactivated by O2, thereby enabling cyanobacteria to fix N2 and to perform photosynthesis simultaneously. Trichodesmium is capable of N2 fixation, apparently without needing to differentiate heterocysts. Here we show that differences in the temperature dependence of O2 flux, respiration and N2 fixation activity explain how Trichodesmium performs better than heterocystous species at higher temperatures. Our results also explain why Trichodesmium is not successful in temperate or cold seas. The absence of heterocystous cyanobacteria in the pelagic zone of temperate and cold seas, however, requires another explanation.
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Affiliation(s)
- Marc Staal
- Department of Marine Microbiology, NIOO-KNAW, PO Box 140, 4400 AC Yerseke, The Netherlands.
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