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The microbial segment of food webs playsa crucial role in lacustrine food-web functioning andcarbon transfer, thereby influencing carbon storageand CO2 emission and uptake in freshwater environments.Variability in microbial carbon processing(autotrophic and heterotrophic production and respirationbased on glucose) with depth was investigatedin eutrophic, methane-rich Lake Rotsee, Switzerland.In June 2011, 13C-labelling experiments were carriedout at six depth intervals in the water column underambient light as well as dark conditions to evaluate therelative importance of (chemo)autotrophic, mixotrophicand heterotrophic production. Label incorporationrates of phospholipid-derived fatty acid (PLFA)biomarkers allowed us to differentiate between microbialproducers and calculate group-specific production.We conclude that at 6 m, net primary production(NPP) rates were highest, dominated by algal photoautotrophicproduction. At 10 m —the base of theoxycline— a distinct low-light community was able tofix inorganic carbon, while in the hypolimnion,heterotrophic production prevailed. At 2 m depth,high label incorporation into POC could only be tracedto nonspecific PLFA, which prevented definite identification,but suggests cyanobacteria as dominatingorganisms. There was also depth zonation in extracellularcarbon release and heterotrophic bacterial growthon recently fixed carbon. Large differences wereobserved between concentrations and label incorporationof POC and biomarkers, with large pools ofinactive biomass settling in the hypolimnion, suggestinglate-/post-bloom conditions. Net primary production(115 mmol C m-2 d-1) reached highest values inthe epilimnion and was higher than glucose-basedproduction (3.3 mmol C m-2 d-1, highest rates in thehypolimnion) and respiration (5.9 mmol C m-2 d-1,highest rates in the epilimnion). Hence, eutrophicLake Rotsee was net autotrophic during our experiments,potentially storing large amounts of carbon.

In this paper we provide an overview of new knowledge on oxygen depletion (hypoxia) and related phenomena in aquatic systems resulting from the EU-FP7 project HYPOX (“In situ monitoring of oxygen depletion in hypoxic ecosystems of coastal and open seas, and landlocked water bodies”, www.hypox.net). In view of the anticipated oxygen loss in aquatic systems due to eutrophication and climate change, HYPOX was set up to improve capacities to monitor hypoxia as well as to understand its causes and consequences. Temporal dynamics and spatial patterns of hypoxia were analyzed in field studies in various aquatic environments, including the Baltic Sea, the Black Sea, Scottish and Scandinavian fjords, Ionian Sea lagoons and embayments, and Swiss lakes. Examples of episodic and rapid (hours) occurrences of hypoxia, as well as seasonal changes in bottom-water oxygenation in stratified systems, are discussed. Geologically driven hypoxia caused by gas seepage is demonstrated. Using novel technologies, temporal and spatial patterns of watercolumn oxygenation, from basin-scale seasonal patterns to meter-scale sub-micromolar oxygen distributions, were resolved. Existing multidecadal monitoring data were used to demonstrate the imprint of climate change and eutrophication on long-term oxygen distributions. Organic and inorganic proxies were used to extend investigations on past oxygen conditions to centennial and even longer timescales that cannot be resolved by monitoring. The effects of hypoxia on faunal communities and biogeochemical processes were also addressed in the project. An investigation of benthic fauna is presented as an example of hypoxia-devastated benthic communities that slowly recover upon a reduction in eutrophication in a system where naturally occurring hypoxia overlaps with anthropogenic hypoxia. Biogeochemical investigations reveal that oxygen intrusions have a strong effect on the microbially mediated redox cycling of elements. Observations and modeling studie

In this paper we provide an overview of new knowledge on oxygen depletion (hypoxia) and related phenomena in aquatic systems resulting from the EU-FP7 project HYPOX ("In situ monitoring of oxygen depletion in hypoxic ecosystems of coastal and open seas, and landlocked water bodies", www.hypox.net). In view of the anticipated oxygen loss in aquatic systems due to eutrophication and climate change, HYPOX was set up to improve capacities to monitor hypoxia as well as to understand its causes and consequences. Temporal dynamics and spatial patterns of hypoxia were analyzed in field studies in various aquatic environments, including the Baltic Sea, the Black Sea, Scottish and Scandinavian fjords, Ionian Sea lagoons and embayments, and Swiss lakes. Examples of episodic and rapid (hours) occurrences of hypoxia, as well as seasonal changes in bottom-water oxygenation in stratified systems, are discussed. Geologically driven hypoxia caused by gas seepage is demonstrated. Using novel technologies, temporal and spatial patterns of water-column oxygenation, from basin-scale seasonal patterns to meter-scale sub-micromolar oxygen distributions, were resolved. Existing multidecadal monitoring data were used to demonstrate the imprint of climate change and eutrophication on long-term oxygen distributions. Organic and inorganic proxies were used to extend investigations on past oxygen conditions to centennial and even longer timescales that cannot be resolved by monitoring. The effects of hypoxia on faunal communities and biogeochemical processes were also addressed in the project. An investigation of benthic fauna is presented as an example of hypoxia-devastated benthic communities that slowly recover upon a reduction in eutrophication in a system where naturally occurring hypoxia overlaps with anthropogenic hypoxia. Biogeochemical investigations reveal that oxygen intrusions have a strong effect on the microbially mediated redox cycling of elements. Observations and modeling studi

We present the first high-resolution (500 m × 500 m) gridded methane (CH4) emission inventory for Switzerland, which integrates 90 % of the national emission totals reported to the United Nations Framework Convention on Climate Change (UNFCCC) and recent CH4 flux studies conducted by research groups across Switzerland. In addition to anthropogenic emissions, we also include natural and semi-natural CH4 fluxes, i.e., emissions from lakes and reservoirs, wetlands, wild animals as well as uptake by forest soils. National CH4 emissions were disaggregated using detailed geostatistical information on source locations and their spatial extent and process- or area-specific emission factors. In Switzerland, the highest CH4 emissions in 2011 originated from the agricultural sector (150 Gg CH4 yr−1), mainly produced by ruminants and manure management, followed by emissions from waste management (15 Gg CH4 yr−1) mainly from landfills and the energy sector (12 Gg CH4 yr−1), which was dominated by emissions from natural gas distribution. Compared with the anthropogenic sources, emissions from natural and semi-natural sources were relatively small (6 Gg CH4 yr−1), making up only 3% of the total emissions in Switzerland. CH4 fluxes from agricultural soils were estimated to be not significantly different from zero (between −1.5 and 0 Gg CH4 yr−1), while forest soils are a CH4 sink (approx. −2.8 Gg CH4 yr−1), partially offsetting other natural emissions. Estimates of uncertainties are provided for the different sources, including an estimate of spatial disaggregation errors deduced from a comparison with a global (EDGAR v4.2) and an European (TNO/MACC) CH4 inventory. This new spatially explicit emission inventory for Switzerland will provide valuable input for regional-scale atmospheric modeling and inverse source estimation.

We present the first high-resolution (500 m × 500 m) gridded methane (CH4) emission inventory for Switzerland, which integrates the national emission totals reported to the United Nations Framework Convention on Climate Change (UNFCCC) and recent CH4 flux studies conducted by research groups across Switzerland. In addition to anthropogenic emissions, we also include natural and semi-natural CH4 fluxes, i.e., emissions from lakes and reservoirs, wetlands, wild animals as well as uptake by forest soils. National CH4 emissions were disaggregated using detailed geostatistical information on source locations and their spatial extent and process- or area-specific emission factors. In Switzerland, the highest CH4 emissions in 2011 originated from the agricultural sector (150 Gg CH4 yr−1), mainly produced by ruminants and manure management, followed by emissions from waste management (15 Gg CH4 yr−1) mainly from landfills and the energy sector (12 Gg CH4 yr−1), which was dominated by emissions from natural gas distribution. Compared to the anthropogenic sources, emissions from natural and semi-natural sources were relatively small (6 Gg CH4 yr−1), making up only 3 % of the total emissions in Switzerland. CH4 fluxes from agricultural soils were estimated to be not significantly different from zero (between −1.5 and 0 Gg CH4 yr−1), while forest soils are a CH4 sink (approx. −2.8 Gg CH4 yr−1), partially offsetting other natural emissions. Estimates of uncertainties are provided for the different sources, including an estimate of spatial disaggregation errors deduced from a comparison with a global (EDGAR v4.2) and a European CH4 inventory (TNO/MACC). This new spatially-explicit emission inventory for Switzerland will provide valuable input for regional scale atmospheric modeling and inverse source estimation.

In this study we assessed changes in the contribution of terrigenous organic matter (OM) to the Gulf of Mexico over the course of the last deglaciation (the last 25 kyr). To this end, we combined optical kerogen analyses with bulk sedimentary, biomarker, and compound-specific carbon isotope analyses. Samples were obtained from core MD02-2550 from Orca Basin (2249 m water depth at 26°56.77N, 91°20.74W) with temporal resolution ranging from multi-decadal to millennial-scale, depending on the proxy. All proxies confirmed larger terrigenous input during glacial times compared to the Holocene. In addition, the kerogen analyses suggest that much of the glacial OM is reworked (at least 50% of spores and pollen grains and 40% of dinoflagellate cysts). The Holocene sediments, in contrast, contain mainly marine OM, which is exceptionally well preserved. During the deglaciation, terrigenous input was generally high due to large meltwater fluxes, whereby discrepancies between different proxies call for additional influences, such as the change in distance to the river mouth, local productivity changes, and hydrodynamic particle sorting. It is possible that kerogen particles and the terrigenous biomarkers studied here represent distinct pools of land-derived OM with inputs varying independently.

Bubbles evolving from active gas seeps can be traced by hydroacoustic imaging up to 1000 m high in the Black Sea water column. Although methane concentrations are not distinguishable between the water column above the deep seep and reference sites, atmospheric noble gas measurements clearly show the constant input of gases (mainly methane) via seepage into the Black Sea. Archaea (ANME-1, ANME-2) and methanotrophic bacteria detected with specific 16S rRNA-targeted oligonucleotide probes are related to active gas seeps in the oxic and anoxic water column. It is suggested that methane seeps have a much greater influence on the Black Sea methane budget than previously acknowledged and that ANME-1 and ANME-2 are injected via gas bubbles from the sediment into the anoxic water column mediating methane oxidation. Our results show further that only minor amounts of methane evolving from Black Sea gas seeps reach the atmosphere due to the very effective microbial barrier. Hence only major thermodynamically and/or tectonically triggered gas hydrate dissociation has the potential to induce rapid climate changes as suggested by the “clathrate gun hypothesis.”

A large fraction of globally produced methane is converted to CO2 by anaerobic oxidation in marine sediments. Strong geochemical evidence for net methane consumption in anoxic sediments is based on methane profiles, radiotracer experiments and stable carbon isotope data. But the elusive microorganisms mediating this reaction have not yet been isolated, and the pathway of anaerobic oxidation of methane is insufficiently understood. Recent data suggest that certain archaea reverse the process of methanogenesis by interaction with sulphate-reducing bacteria. Here we provide microscopic evidence for a structured consortium of archaea and sulphate-reducing bacteria, which we identified by fluorescence in situ hybridization using specific 16S rRNA-targeted oligonucleotide probes. In this example of a structured archaeal-bacterial symbiosis, the archaea grow in dense aggregates of about 100 cells and are surrounded by sulphate-reducing bacteria. These aggregates were abundant in gas-hydrate-rich sediments with extremely high rates of methane-based sulphate reduction, and apparently mediate anaerobic oxidation of methane.