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  • 1
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    Zooplankton‐derived dissolved organic matter composition and its bioavailability to natural prokaryotic communities (2022)
    De Corte, Daniele ; Varela, Marta M. ; Louro, Angeles M. ; [et al.]
    John Wiley & Sons, Inc. | Hoboken, USA
    Details
    Publication Date: 2023-12-14
    Description: Zooplankton grazing onphytoplankton promotes the release of particulate and dissolved organic matter (DOM) into the water column and therefore plays a key role in organic matter cycling in aquatic systems. Prokaryotes are the main DOM consumers in the ocean by actively remineralizing and transforming it, contributing to its molecular diversification. To explore the molecular composition of zooplankton‐derived DOM and its bioavailability to natural prokaryotic communities, the DOM generated by a mixed zooplankton community in the coastal Atlantic off Spain was used as substrate for a natural prokaryotic community and monitored over a ~ 5‐d incubation experiment. The molecular composition of solid‐phase extracted DOM was characterized via Fourier‐transform ion cyclotron resonance mass spectrometry. After ~ 4 d in the zooplankton‐derived DOM amended incubation, the prokaryotic community demonstrated a 17‐fold exponential increase in cell number. The prokaryotic growth resulted in a reduction in bulk dissolved organic carbon concentration and the zooplankton‐derived DOM was considerably transformed at molecular and bulk elemental levels over the incubation period. The C : N ratio (calculated from the obtained molecular formulae) increased while the functional diversity decreased over the incubation time. In addition, molecular indices pointed to a reduced bioavailability of DOM at the end of the experiment. These findings show that zooplankton excreta are a source of labile organic matter that is quickly metabolized by the prokaryotic community. Therefore, a fraction of carbon is shunted from transfer to secondary consumers similarly to the viral shunt, suggesting that the zooplankton–prokaryotic interactions play an important role in the ocean's carbon cycle.
    Description: Deutsche Forschungsgemeinschaft http://dx.doi.org/10.13039/501100001659
    Description: Xunta de Galicia http://dx.doi.org/10.13039/501100010801
    Keywords: ddc:577.7 ; Spain ; coastal Atlantic ; zooplankton–prokaryotic interactions ; ocean’s carbon cycle
    Language: English
    Type: doc-type:article
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    CITATION GEO-LEO
  • 2
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    The detection of bacterial exometabolites in marine dissolved organic matter through ultrahigh‐resolution mass spectrometry (2022)
    John Wiley & Sons, Inc. | Hoboken, USA
    Details
    Publication Date: 2022-10-01
    Description: Bacteria play a key role in sustaining the chemodiversity of marine dissolved organic matter (DOM), yet there is limited direct evidence of a major contribution of bacterial exometabolites to the DOM pool. This study tests whether molecular formulae of intact exometabolites can be detected in natural DOM via untargeted Fourier‐transform ion cyclotron resonance mass spectrometry (FT‐ICR‐MS). We analyzed a series of quantitative mixtures of solid‐phase extracted DOM from the deep ocean, of a natural microbial community and selected model strains of marine bacteria. Under standard instrument settings (200 broadband scans, mass range 92–1000 Da), 77% of molecular formulae were shared between the mesocosm and marine DOM. However, there was 〈 10% overlap between pure bacterial exometabolome with marine DOM, and in mixing ratios closest to mimicking natural environments (1% bacterial DOM, 99% marine DOM), only 4% of the unique bacterial exometabolites remained detectable. Further experiments with the bacterial exometabolome DOM mixtures using enhanced instrument settings resulted in increased detection of the exometabolites at low concentrations. At 1000 and 10,000 accumulated scans, 23% and 29% of the unique molecular formulae were detectable at low concentrations, respectively. Moreover, windowing a specific mass range encompassing a representative fraction of exometabolites tripled the number of unique detected formulae at low concentrations. Routine FT‐ICR‐MS settings are thus not always sufficient to distinguish bacterial exometabolome patterns from a seawater DOM background. To observe these patterns at higher sensitivity, we recommend a high scan number coupled with windowing a characteristic region of the molecular fingerprint.
    Description: Deutsche Forschungsgemeinschaft http://dx.doi.org/10.13039/501100001659
    Keywords: ddc:551.46 ; ddc:579.3 ; ddc:
    Language: English
    Type: doc-type:article
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    CITATION GEO-LEO
  • 3
    Electronic Resource
    Electronic Resource
    Synthesis of Some Deoxymannosyl Phosphates (1992)
    Weinheim : Wiley-Blackwell
    Liebigs Annalen 1992 (1992), S. 535-538 
    Details
    ISSN: 0170-2041
    Keywords: Carbohydrates ; Sugar phosphates ; Sugar dibenzyl phosphates ; Mannosyl phosphates, 3-deoxy-, 4-deoxy-, 6-deoxy- ; Chemistry ; Organic Chemistry
    Source: Wiley InterScience Backfile Collection 1832-2000
    Topics: Chemistry and Pharmacology
    Notes: 3-Deoxy-α-D-arabino-hexopyranosyl-, 4-deoxy-α-D-lyxo-hexopyranosyl- and 6-deoxy-α-D-mannopyranosyl phosphates 6, 12 and 21 were synthesized by phosphorylation of the deoxygenated glycosyl chlorides 3, 9 and 18 with silver dibenzyl phosphate and subsequent deprotection of the obtained α-dibenzyl phosphates 4, 10 and 19.
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1002/jlac.199219920192
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    Paper (German National Licenses)
    Fulltext
  • 4
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    Combined Carbohydrates Support Rich Communities of Particle-Associated Marine Bacterioplankton (2017)
    Frontiers
    In:  Frontiers in Microbiology, 8 . Art.Nr. 65.
    Details
    Publication Date: 2020-02-06
    Description: Carbohydrates represent an important fraction of labile and semi-labile marine organic matter that is mainly comprised of exopolymeric substances derived from phytoplankton exudation and decay. This study investigates the composition of total combined carbohydrates (tCCHO; 〉1 kDa) and the community development of free-living (0.2–3 μm) and particle-associated (PA) (3–10 μm) bacterioplankton during a spring phytoplankton bloom in the southern North Sea. Furthermore, rates were determined for the extracellular enzymatic hydrolysis that catalyzes the initial step in bacterial organic matter remineralization. Concentrations of tCCHO greatly increased during bloom development, while the composition showed only minor changes over time. The combined concentration of glucose, galactose, fucose, rhamnose, galactosamine, glucosamine, and glucuronic acid in tCCHO was a significant factor shaping the community composition of the PA bacteria. The richness of PA bacteria greatly increased in the post-bloom phase. At the same time, the increase in extracellular β-glucosidase activity was sufficient to explain the observed decrease in tCCHO, indicating the efficient utilization of carbohydrates by the bacterioplankton community during the post-bloom phase. Our results suggest that carbohydrate concentration and composition are important factors in the multifactorial environmental control of bacterioplankton succession and the enzymatic hydrolysis of organic matter during phytoplankton blooms.
    Type: Article , PeerReviewed
    Format: text
    DOI: 10.3389/fmicb.2017.00065
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    OceanRep: Article in a Scientific Journal - peer-reviewed
  • 5
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    The DynaDeep observatory – a unique approach to study high-energy subterranean estuaries (2023)
    Frontiers
    Details
    Publication Date: 2024-02-14
    Description: Subterranean estuaries are connective zones between inland aquifers and the open sea where terrestrial freshwater and circulating seawater mix and undergo major biogeochemical changes. They are biogeochemical reactors that modify groundwater chemistry prior to discharge into the sea. We propose that subterranean estuaries of high-energy beaches are particularly dynamic environments, where the effect of the dynamic boundary conditions propagates tens of meters into the subsurface, leading to strong spatio-temporal variability of geochemical conditions. We hypothesize that they form a unique habitat with an adapted microbial community unlike other typically more stable subsurface environments. So far, however, studies concerning subterranean estuaries of high-energy beaches have been rare and therefore their functioning, and their importance for coastal ecosystems, as well as for carbon, nutrient and trace element cycling, is little understood. We are addressing this knowledge gap within the interdisciplinary research project DynaDeep by studying the combined effect of surface (hydro- and morphodynamics) on subsurface processes (groundwater flow and transport, biogeochemical reactions, microbiology). A unique subterranean estuary observatory was established on the northern beach of the island of Spiekeroog facing the North Sea, serving as an exemplary high-energy research site and model system. It consists of fixed and permanent infrastructure such as a pole with measuring devices, multi-level groundwater wells and an electrode chain. This forms the base for autonomous measurements, regular repeated sampling, interdisciplinary field campaigns and experimental work, all of which are integrated via mathematical modelling to understand and quantify the functioning of the biogeochemical reactor. First results show that the DynaDeep observatory is collecting the intended spatially and temporally resolved morphological, sedimentological and biogeochemical data. Samples and data are further processed ex-situ and combined with experiments and modelling. Ultimately, DynaDeep aims at elucidating the global relevance of these common but overlooked environments.
    Type: Article , PeerReviewed
    Format: text
    Format: video
    Format: image
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    OceanRep: Article in a Scientific Journal - peer-reviewed
  • 6
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    Biodegradability of hydrothermally altered deep-sea dissolved organic matter (2019)
    ELSEVIER SCIENCE BV
    In:  EPIC3Marine Chemistry, ELSEVIER SCIENCE BV, 217, ISSN: 0304-4203
    Details
    Publication Date: 2020-10-07
    Description: Deep-sea dissolved organic matter (DOM) constitutes a huge carbon reservoir in the worlds' oceans that – despite its abundance – is virtually unused as a substrate by marine heterotrophs. Heating within hydrothermal systems induces major molecular modifications of deep-sea DOM. Here, we tested the hypothesis that hydrothermal heating of deep-sea DOM enhances bioavailability. Aliquots of DOM extracted from the deep North Pacific (North Equatorial Pacific Intermediate Water; NEqPIW) were re-dissolved in artificial seawater and subjected to temperatures of 100 and 200 °C (40 MPa) using Dickson-type reactors. In agreement with earlier findings we observed a temperature-related drop in dissolved organic carbon (DOC) concentration (−6.1% at 100 °C, −21.0% at 200 °C) that predominantly affected the solid-phase extractable (SPE-DOC) fraction (−18.2% at 100 °C, −51.4% at 200 °C). Fourier-transform ion cyclotron resonance mass spectrometric (FT-ICR-MS) analysis confirmed a temperature-related reduction of average molecular mass, O/C ratios, double bond equivalents (DBE) and a relative increase in aromaticity (AImod). This thermally altered DOM was added (25 μmol L−1 DOC) to deep-water samples from the South West Pacific (Kermadec Arc, RV Sonne / SO253, 32° 37.706′ S | 179° 38.728′ W) and incubated with the prevailing natural microbial community. After 16 days at 4 °C in the dark, prokaryotic cell counts in incubations containing the full spectrum of thermally-degraded DOM (extractable and non-extractable compounds) had increased considerably (on average 21× for DOM100°C and 27× for DOM200°C). In contrast, prokaryotic growth in incubations to which only solid-phase extractable thermally-altered DOM was added was not enhanced compared to control incubations. The experiments demonstrate that temperature-driven degradation of deep-sea recalcitrant DOM within hydrothermal systems turns fractions of it accessible to microbes. The thermally-produced DOM compounds that stimulate microbial growth are not retained on reversed-phase resins (SPE-DOM) and are likely low-molecular mass organic acids. Despite the comprehensive compositional modifications of the solid-phase extractable (SPE-DOM) fraction through heating, it remains inaccessible to microbes at the investigated concentration levels. The microbial incubation resulted in only minor and mostly insignificant overall changes in SPE-DOM molecular composition and concentration.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , peerRev
    Format: application/pdf
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  • 7
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    Sulfurization of dissolved organic matter in the anoxic water column of the Black Sea (2021)
    In:  EPIC3Science Advances, 7(25), pp. eabf6199
    Details
    Publication Date: 2021-06-21
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev , info:eu-repo/semantics/article
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  • 8
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    Does the Chemodiversity of Bacterial Exometabolomes Sustain the Chemodiversity of Marine Dissolved Organic Matter? (2019)
    Frontiers Media S.A.
    In:  EPIC3Frontiers in Microbiology, Frontiers Media S.A., 10, pp. 215, ISSN: 1664-302X
    Details
    Publication Date: 2020-03-12
    Description: Marine dissolved organic matter (DOM) is a complex mixture of chemical compounds. At 750 Pg C, it is one of the biggest pools of reduced carbon on Earth. It has been proposed that the diversity of DOM is responsible for its recalcitrance. We hypothesize that the chemodiversity of marine DOM is a reflection of the chemodiversity of bacterial exometabolomes. To test this, we incubated two model strains of the Roseobacter group; Phaeobacter inhibens and Dinoroseobacter shibae in pure culture using three different simple organic compounds as sole carbon sources (glutamate, glucose, and acetate and succinate for P. inhibens and D. shibae, respectively). The exometabolome of the model organisms was characterized using Fourier Transform Ion Cyclotron Resonance Mass Spectrometry (FT-ICR-MS) and ecological diversity measures. We detected thousands of molecular masses in the exometabolomes of P. inhibens and D. shibae (21,105 and 9,386, respectively), reflecting the capability of single bacterial strains to diversify simple organic compounds. The chemical composition of the exometabolomes changed with growth phase and also differed according to the strain incubated and the utilized substrate. We mimicked a higher diversity of substrates, bacterial species and heterogeneous growth (different growth phases) to approach the complexity of natural environments, by computationally creating combinations of detected exometabolomes. We compared the chemodiversity of these combinations, indicative for chemodiversity of freshly produced microbial DOM to that of refractory DOM from one of the oldest oceanic water masses (North Equatorial Pacific Intermediate Water). Some combinations of exometabolomes showed higher richness than the deep ocean refractory DOM, and all the combinations showed higher functional diversity. About 15% of the 13,509 molecular formulae detected in exometabolomes and refractory oceanic DOM were shared, i.e., occurred in Roseobacter exometabolomes and in deep water samples. This overlap provides further support for our hypothesis that marine bacteria from the Roseobacter group contribute to the sustainability of marine DOM chemodiversity and stability.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
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  • 9
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    Improved Mass Accuracy and Isotope Confirmation through Alignment of Ultrahigh-Resolution Mass Spectra of Complex Natural Mixtures (2019)
    AMER CHEMICAL SOC
    In:  EPIC3Analytical Chemistry, AMER CHEMICAL SOC, 92(2), pp. 2558-2565, ISSN: 0003-2700
    Details
    Publication Date: 2020-05-27
    Description: Fourier-transform ion cyclotron resonance mass spectrometry (FT-ICR-MS) is one of the state-of-the-art methods to analyze complex natural organic mixtures. The precision of detected masses is crucial for molecular formula attribution. Random errors can be reduced by averaging multiple measurements of the same mass, but because of limited availability of ultrahigh-resolution mass spectrometers, most studies cannot afford analyzing each sample multiple times. Here we show that random errors can be eliminated also by averaging mass spectral data from independent environmental samples. By averaging the spectra of 30 samples analyzed on our 15 T instrument we reach a mass precision comparable to a single spectrum of a 21 T instrument. We also show that it is possible to accurately and reproducibly determine isotope ratios with FT-ICR-MS. Intensity ratios of isotopologues were improved to a degree that measured deviations were within the range of natural isotope fractionation effects. In analogy to δ13C in environmental studies, we propose Δ13C as an analytical measure for isotope ratio deviances instead of widely employed C deviances. In conclusion, here we present a simple tool, extensible to Orbitrap-based mass spectrometers, for postdetection data processing that significantly improves mass accuracy and the precision of intensity ratios of isotopologues at no extra cost.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , peerRev
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  • 10
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    The drivers of biogeochemistry in beach ecosystems: A cross-shore transect from the dunes to the low water line (2017)
    In:  EPIC3Marine Chemistry, 190, pp. 35-50, ISSN: 03044203
    Details
    Publication Date: 2017-12-31
    Description: This study addresses key processes in high-energy beach systems using an interdisciplinary approach. We assess spatial variations in subsurface pore water residence times, salinity, organic matter (OM) availability, and redox conditions and their effects on nutrient cycles as well as on microbial community patterns and microphytobenthos growth. At the study site on Spiekeroog Island, southern North Sea, beach hydrology is characterized by the classical zonation with an upper saline plume (USP), a saltwater wedge, and a freshwater discharge tube in between. Sediment and pore water samples were taken along a cross-shore transect from the dunes to the low water line reaching sediment depths down to 5 m below sediment surface. Spatial variations in pore water residence time, salinity, and organic matter availability lead to steep redox and nutrient gradients. Vertical and horizontal differences in the microbial community indicate the influence of these gradients and salinity on the community structure. Modeled seawater flux through the USP and freshwater flux through the tube are on average 2.8 and 0.75 m3 per day and meter of shoreline, respectively. Furthermore, ridge sediments at the lower beach discharge seawater at rates of 0.5 and 1.0 m3 per day and meter of shoreline towards the runnel and seaside, respectively. Applying seawater and freshwater fluxes and representative nutrient concentrations for the discharge zones, nutrient fluxes to adjacent nearshore waters are 117 mmol NH4+, 55 mmol PO43 − and 575 mmol Si(OH)4 per day and meter of shoreline. We propose that this nutrient efflux triggers growth of microphytobenthos on sediment surfaces of the discharge zone. A first comparison of nutrient discharge rates of the beach site with a nearby sandy backbarrier tidal flat margin indicates that the beach system might be of less importance in supplying recycled nutrients to nearshore waters than the backbarrier tidal flat area.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Article , isiRev
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