bluuebunny/crossref_metadata_2025 huggingface dataset:
Modeling the impact of iron and phosphorus limitations on nitrogen fixation in the Atlantic Ocean
Authors: Coles V. J. , Hood R. R.
Published: April 2010

Abstract. The overarching goal of this study is to simulate subsurface N* (sensu, Gruber and Sarmiento, 1997) anomaly patterns in the North Atlantic Ocean and determine the basin wide rates of N2 fixation that are required to do so. We present results from an Atlantic implementation of a coupled physical-biogeochemical model that includes an explicit, dynamic representation of N2 fixation with light, nitrogen, phosphorus and iron limitations, and variable stoichiometric ratios. The model is able to reproduce nitrogen, phosphorus and iron concentration variability to first order. The latter is achieved by incorporating iron deposition directly into the model's detritus compartment which allows the model to reproduce sharp near surface gradients in dissolved iron concentration off the west coast of Africa and deep dissolved iron concentrations that have been observed in recent observational studies. The model can reproduce the large scale N* anomaly patterns but requires relatively high rates of surface nitrogen fixation to do so (1.8×1012 moles N yr−1 from 10° N–30° N, 3.4×1012 moles N yr
Significant long-term increase of fossil fuel CO2 uptake from reduced marine calcification
Authors: Ridgwell A. , Zondervan I. , Hargreaves J. C. , Bijma J. , Lenton T. M.
Published: April 2010

Abstract. Analysis of available plankton manipulation experiments demonstrates a previously unrecognized wide range of sensitivities of biogenic calcification to simulated anthropogenic acidification of the ocean, with the "lab rat" of planktic calcifiers, Emiliania huxleyi not representative of calcification generally. We assess the implications of the experimental uncertainty in plankton calcification response by creating an ensemble of realizations of an Earth system model that encapsulates a comparable range of uncertainty in calcification response. We predict a substantial future reduction in marine carbonate production, with ocean CO2 sequestration across the model ensemble enhanced by between 62 and 199 PgC by the year 3000, equivalent to a reduction in the atmospheric fossil fuel CO2 burden at that time of up to 13%. Concurrent changes in ocean circulation and surface temperatures contribute about one third to the overall importance of reduced plankton calcification.
Water use strategies and ecosystem-atmosphere exchange of CO2 in two highly seasonal environments
Authors: Arneth A. , Veenendaal E. M. , Best C. , Timmermans W. , Kolle O. , Montagnani L. , Shibistova O.
Published: April 2010

Abstract. We compare assimilation and respiration rates, and water use strategies in four divergent ecosystems located in cold-continental central Siberia and in semi-arid southern Africa. These seemingly unrelated systems have in common a harsh and highly seasonal environment with a very sharp transition between the dormant and the active season, and with vegetation facing dry air and soil conditions for at least part of the year. Moreover, the northern high latitudes and the semi-arid tropics will likely experience changes in key environmental parameters (e.g., air temperature and precipitation) in the future; indeed, in some regions marked climate trends have already been observed over the last decade or so. The magnitude of instantaneous or daily assimilation and respiration rates, derived from one to two years of eddy covariance measurements in each of the four ecosystems, was not related to the growth environment. For instance, respiration rates were clearly highest in the two deciduous systems included in the analysis (a Mopane woodland in northern Botswana and a Downy birch forest in Siberia; >300 mmol m−2 d−1), while assimilation rates in the Mopane woodland were relatively similar to a Siberian Scots pine canopy for a large part of the active season (ca. 420 mmol m−2 d−1). Acknowledging the limited number of ecosystems compared here, these data nevertheless suggest that factors like vegetation type, canopy phenology or ecosystem age can override larger-scale climate differences in terms of their effects on carbon assimilation and respiration rates. By far the highest rates of assimilation were observed in Downy birch, an early successional species. These were achieved at a rather conservative water use, as indicated by relatively low levels of λ, the marginal water cost of plant carbon gain. Surprisingly, the Mopane woodland growing in the semi-arid environment had significantly higher values of λ. However, its water use strategy included a very plastic response to intermittently dry periods, and values of λ were much more conservative overall during a rainy season with low precipitation and high air saturation deficits. Our comparison demonstrates that forest ecosystems can respond very dynamically in terms of water use strategy, both on interannual and much shorter time scales. It remains to be evaluated whether and in which ecosystems this plasticity is mainly due to a short-term stomatal response, or goes hand in hand with changes in canopy photosynthetic capacity.
A system in balance? – Implications of deep vertical mixing for the nitrogen budget in the northern Red Sea, including the Gulf of Aqaba (Eilat)
Authors: Häse C. , Al-Qutob M. , Dubinsky Z. , Ibrahim E. A. , Lazar B. , Stambler N. , Tilzer M. M.
Published: April 2010

Abstract. We investigated the implications of deep winter mixing for the nitrogen budget in two adjacent systems, the northern Red Sea proper, and the Gulf of Aqaba. Both are subtropical oligotrophic water bodies. The main difference is that in the gulf deep winter mixing takes place regularly, whereas the northern Red Sea proper is permanently stratified. In the Gulf of Aqaba, we observed significantly lower nitrate deficits, i.e. deviations from the Redfield ratio, than in the northern Red Sea proper. Assuming that other external inputs and losses in N or P are very similar in both systems, the higher nitrate deficit can be explained by either lower nitrogen fixation in the (stratified) northern Red Sea, which seems unlikely. An alternative explanation would be higher rates of benthic denitrification than in the gulf. By comparing the two systems we have indirect evidence that benthic denitrification was much lower in the Gulf of Aqaba due to higher oxygen concentrations. This we attributed to the occurrence of deep winter mixing, and as a consequence, the nitrate deficit was close to zero (i.e. N:P ratio close to "Redfield"). If both nitrogen fixation and benthic denitrification take place, as in the northern Red Sea proper, the result was a positive nitrate deficit (i.e. a deficit in nitrate) in the ambient water. The nitrate deficit in the northern Red Sea was observed in spite of high iron deposition from the surrounding desert. Our results strongly support the concept of nitrogen as the proximate, and phosphate as the ultimate limiting nutrient for primary production in the sea. This must not be neglected in efforts for protecting the adjacent reefs against eutrophication.
NirS-containing denitrifier communities in the water column and sediment of the Baltic Sea
Authors: Falk S. , Hannig M. , Braker G. , Wardenga R. , Köster M. , Jürgens K. , Gliesche C.
Published: April 2010

Abstract. The aim of this study was to compare structural differences in the denitrifying microbial communities along the environmental gradients observed in the water column and coastal sediments of the Baltic Sea. To link community structure and environmental gradients, denitrifier communities were analyzed by terminal restriction fragment length polymorphism (T-RFLP) based on nirS as a functional marker gene for denitrification. NirS-type denitrifier community composition was further evaluated by phylogenetic analysis of nirS sequences from clone libraries. T-RFLP analysis indicated some overlap but also major differences of communities from the water column and the sediment. Shifts in community composition along the biogeochemical gradients were observed only in the water column while denitrifier communities were rather uniform within the upper 30 mm of the sediment. Specific terminal restriction fragments (T-RFs) indicative for the sulfidic zone suggest the presence of nitrate-reducing and sulfide-oxidizing microorganisms that were previously shown to be important at the suboxic-sulfidic interface in the water column of the Baltic Sea. Phylogenetic analysis of nirS genes from the Baltic Sea and of sequences from marine habitats all over the world indicated distinct denitrifier communities that grouped mostly according to their habitat. We suggest that these subgroups of denitrifiers had developed after selection through several factors, i.e. their habitats (water column or sediment), impact by prevalent environmental conditions and isolation by large geographic distances between habitats.
Two High-Nutrient Low-Chlorophyll phytoplankton assemblages: the tropical central Pacific and the offshore Perú-Chile Current
Authors: Gómez F. , Claustre H. , Raimbault P. , Souissi S.
Published: April 2010

Abstract. The phytoplankton (>15 µm) composition and abundance was investigated along a ~8000 km transect between the Marquesas Islands Archipelago and the Chilean coasts off Concepción. In the southern limit of the central Equatorial Pacific (at 8° S, 141° W), in High-Nutrient Low-Chlorophyll (HNLC) warm waters, the micro-phytoplankton assemblage was dominated by the lightly silicified diatoms Pseudo-nitzschia delicatissima and Rhizosolenia bergonii. The morphology of these species, a small pennate diatom that exhibited a tendency to form "ball of needles" clusters and large centric diatom (>500 µm long), are interpreted as two anti-grazing strategies in an environment dominated by small micro-grazers. Surprisingly, this a priori typical HNLC phytoplankton assemblage was also found in the temperate offshore waters of the Perú-Chile Current between 2000 and 600 km off Chile. This observation suggests that a common set of environmental factors (obviously other than temperature and salinity) are responsible for the establishment and maintaining of this distinctive phytoplankton in these geographically and hydrologically distant regions. Both regions are characterized by a surface nitrate-silicate ratio ranging from 1–3. Occasionally Rhizosolenia bergonii showed frustules anomalously fragmented, likely the result of extreme weakly silicified phytoplankton. We suggest that silicate-deficiency may be responsible of the occurrence of HNLC phytoplankton assemblage in the tropical central Pacific as well as offshore Perú-Chile Current during the austral summer.
Growth and specific P-uptake rates of bacterial and phytoplanktonic communities in the Southeast Pacific (BIOSOPE cruise)
Authors: Duhamel S. , Moutin T. , Van Wambeke F. , Van Mooy B. , Rimmelin P. , Raimbault P. , Claustre H.
Published: April 2010

Abstract. Predicting heterotrophic bacteria and phytoplankton growth rates (μ) is of great scientific interest. Many methods have been developed in order to assess bacterial or phytoplankton μ. One widely used method is to estimate μ from data obtained on biomass or cell abundance and rates of biomass or cell production. According to Kirchman (2002), the most appropriate approach for estimating μ is simply to divide the production rate by the biomass or cell abundance estimate. Most of the methods using this approach are expressed using carbon (C) data. Nevertheless it is also possible to estimate μ using phosphate (P) data. We showed that particulate phosphate (PartP) can be used to estimate biomass and that the phosphate uptake rate to PartP ratio can be employed to assess μ. Contrary to other methods using C, this estimator does not need conversion factors and provides an evaluation of μ for both autotrophic and heterotrophic organisms. We report values of P-based μ in three size fractions (0.2–0.6; 0.6–2 and >2 μm) along a Southeast Pacific transect, over a wide range of P-replete trophic status. P-based μ values were higher in the 0.6–2 μm fraction than in the >2 μm fraction, suggesting that picoplankton-sized cells grew faster than the larger cells, whatever the trophic regime encountered. Picoplankton-sized cells grew significantly faster in the deep chlorophyll maximum layer than in the upper part of the photic zone in the oligotrophic gyre area, suggesting that picoplankton might outcompete >2 μm cells in this particular high-nutrient, low-light environment. P-based μ attributed to free-living bacteria (0.2–0.6 μm) and picoplankton (0.6–2 μm) size-fractions were relatively low (0.11±0.07 d−1 and 0.14±0.04 d−1, respectively) in the Southeast Pacific gyre, suggesting that the microbial community turns over very slowly.
Short-term fate of phytodetritus across the Arabian Sea Oxygen Minimum Zone
Authors: Andersson J. H. , Woulds C. , Schwartz M. , Cowie G. L. , Levin L. A. , Soetaert K. , Middelburg J. J.
Published: April 2010

Abstract. The short-term fate of phytodetritus was investigated across the Pakistan margin of the Arabian Sea at water depths ranging from 140 to 1850 m, encompassing the oxygen minimum zone (~100–1100 m). Phytodetritus sedimentation events were simulated by adding 13C-labelled algal material to surface sediments in retrieved cores. Cores were incubated at in situ temperature and oxygen concentrations. Overlying waters were sampled periodically, and cores were recovered and sampled (for organisms and sediments) after durations of two and five days. The labelled carbon was subsequently traced into bacterial lipids, foraminiferan and macrofaunal biomass, and dissolved organic and inorganic pools. The majority of the label was left unprocessed in the sediment at the surface. The largest pool of processed carbon was found to be respiration, recovered as dissolved inorganic carbon. Both temperature and oxygen were found to influence the rate of respiration. Macrofaunal influence was most pronounced at the lower part of the oxygen minimum zone where it dominated the processing of phytodetritus.
Variability in air-sea O2 and CO2 fluxes and its impact on atmospheric potential oxygen (APO) and the partitioning of land and ocean carbon sinks
Authors: Nevison C. D. , Mahowald N. M. , Doney S. C. , Lima I. D.
Published: April 2010

Abstract. A three dimensional, time-evolving field of atmospheric potential oxygen (APO ~ O2/N2 + CO2) is estimated using surface O2, N2 and CO2 fluxes from the WHOI ocean ecosystem model to force the MATCH atmospheric transport model. Land and fossil carbon fluxes are also run in MATCH and translated into O2 tracers using assumed O2:CO2 stoichiometries. The model seasonal cycles in APO agree well with the observed cycles at 13 global monitoring stations, with agreement helped by the inclusion of oceanic CO2 in the APO calculation. The model latitudinal gradient in APO is strongly influenced by seasonal rectifier effects in atmospheric transport, which appear at least partly unrealistic based on comparison to observations. An analysis of the APO vs.~CO2 method for partitioning land and ocean carbon sinks is performed in the controlled context of the MATCH simulation, in which the true surface carbon and oxygen fluxes are known exactly. This analysis suggests uncertainty ranging up to ±0.2 PgC in the inferred sinks due to transport-induced variability. It also shows that interannual variability in oceanic O2 fluxes can cause increasingly large error in the sink partitioning when the method is applied over increasingly short timescales. However, when decadal or longer averages are used, the variability in the oceanic O2 flux is relatively small, allowing carbon sinks to be partitioned to within a standard deviation of 0.1 Pg C/yr of the true values, provided one has an accurate estimate of long-term mean O2 outgassing.
Three-dimensional Magnetic Resonance Imaging of fossils across taxa
Authors: Mietchen D. , Aberhan M. , Manz B. , Hampe O. , Mohr B. , Neumann C. , Volke F.
Published: April 2010

Abstract. The visibility of life forms in the fossil record is largely determined by the extent to which they were mineralised at the time of their death. In addition to mineral structures, many fossils nonetheless contain detectable amounts of residual water or organic molecules, the analysis of which has become an integral part of current palaeontological research. The methods available for this sort of investigations, though, typically require dissolution or ionisation of the fossil sample or parts thereof, which is an issue with rare taxa and outstanding materials like pathological or type specimens. In such cases, non-destructive techniques could provide an interesting methodological alternative. While Computed Tomography has long been used to study palaeontological specimens, a number of complementary approaches have recently gained ground. These include Magnetic Resonance Imaging (MRI) which had previously been employed to obtain three-dimensional images of pathological belemnites non-invasively on the basis of intrinsic contrast. The present study was undertaken to investigate whether 1H MRI can likewise provide anatomical information about non-pathological belemnites and specimens of other fossil taxa. To this end, three-dimensional MR image series were acquired from intact non-pathological invertebrate, vertebrate and plant fossils. At routine voxel resolutions in the range of several dozens to some hundreds of micrometers, these images reveal a host of anatomical details and thus highlight the potential of MR techniques to effectively complement existing methodological approaches for palaeontological investigations in a wide range of taxa. As for the origin of the MR signal, relaxation and diffusion measurements as well as 1H and 13C MR spectra acquired from a belemnite suggest intracrystalline water or hydroxyl groups, rather than organic residues.
On the treatment of particulate organic matter sinking in large-scale models of marine biogeochemical cycles
Authors: Kriest I. , Oschlies A.
Published: April 2010

Abstract. Various functions have been suggested and applied to represent the sedimentation and remineralisation of particulate organic matter (POM) in numerical ocean models. Here we investigate some representations commonly used in large-scale biogeochemical models: a constant sinking speed, a sinking speed increasing with depth, a spectrum of particles with different size and different size-dependent sinking velocities, and a model that assumes a power-law particle size distribution everywhere in the water column. The analysis is carried out for an idealised one-dimensional water column, under stationary boundary conditions for surface POM. It focuses on the intrinsic assumptions of the respective sedimentation function and their effect on POM mass, mass flux, and remineralisation profiles. A constant and uniform sinking speed does not appear appropriate for simulations exceeding a few decades, as the sedimentation profile is not consistent with observed profiles. A spectrum of size classes, together with size-dependent sinking and constant remineralisation, causes the sinking speed of total POM to increase with depth. This increase is not strictly linear with depth. Its particular form will further depend on the size distribution of the POM ensemble at the surface. Assuming a power-law particle size spectrum at the surface, this model results in unimodal size distributions in the ocean interior. For the size-dependent sinking model, we present an analytic integral over depth and size that can explain regional variations of remineralisation length scales in response to regional patterns in trophodynamic state.
Calcite production by Coccolithophores in the South East Pacific Ocean: from desert to jungle
Authors: Beaufort L. , Couapel M. , Buchet N. , Claustre H.
Published: April 2010

Abstract. BIOSOPE cruise achieved an oceanographic transect from the Marquise Islands to the Peru-Chili upwelling (PCU) via the centre of the South Pacific Gyre (SPG). Water samples from 6 depths in the euphotic zone were collected at 20 stations. The concentrations of suspended calcite particles, coccolithophores cells and detached coccoliths were estimated together with size and weight using an automatic polarizing microscope, a digital camera, and a collection of softwares performing morphometry and pattern recognition. Some of these softwares are new and described here for the first time. The coccolithophores standing stocks are usually low and reach maxima west of the PCU. The coccoliths of Emiliania huxleyi, Gephyrocapsa spp. and Crenalithus spp. (Order Isochrysidales) represent 50% of all the suspended calcite particles detected in the size range 0.1–46 μm (21% of PIC in term of the calcite weight). The latter species are found to grow preferentially in the Chlorophyll maximum zone. In the SPG their maximum concentrations was found to occur between 150 and 200 m, which is very deep for these taxa. The weight and size of coccoliths and coccospheres are correlated. Large and heavy coccoliths and coccospheres are found in the regions with relative higher fertility in the Marquises Island and in the PCU. Small and light coccoliths and coccospheres are found west of the PCU. This distribution may correspond to that of the concentration of calcium and carbonate ions.
The fate of N2O consumed in soils
Authors: Vieten B. , Conen F. , Seth B. , Alewell C.
Published: April 2010

Abstract. Soils are capable to consume N2O. It is generally assumed that consumption occurs exclusively via respiratory reduction to N2 by denitrifying organisms (i.e. complete denitrification). Yet, we are not aware of any verification of this assumption. Some N2O may be assimilatorily reduced to NH3. Reduction of N2O to NH3 is thermodynamically advantageous compared to the reduction of N2. Is this an ecologically relevant process? To find out, we treated four contrasting soil samples in a flow-through incubation experiment with a mixture of labelled (98%) 15N2O (0.5–4 ppm) and O2 (0.2–0.4%) in He. We measured N2O consumption by GC-ECD continuously and δ15N of soil organic matter before and after an 11 to 29 day incubation period. Any 15N2O assimilatorily reduced would have resulted in the enrichment of soil organic matter with 15N, whereas dissimilatorily reduced 15N2O would not have left a trace. None of the soils showed a change in δ15N that was statistically different from zero. A maximum of 0.27 % (s.e. ±0.19%) of consumed 15N2O may have been retained as 15N in soil organic matter in one sample. On average, 15N enrichment of soil organic matter during the incubation may have corresponded to a retention of 0.019% (s.e. ±0.14%; n=4) of the 15N2O consumed by the soils. We conclude that assimilatory reduction of N2O plays, if at all, only a negligible role in the consumption of N2O in soils.
Carbon and nitrogen uptake in the South Pacific Ocean: evidence for efficient dinitrogen fixation and regenerated production leading to large accumulation of dissolved organic matter in nitrogen-depleted waters
Authors: Raimbault P. , Garcia N.
Published: April 2010

Abstract. A major goal of the BIOSOPE cruise on the R/V Atalante to the South Pacific Ocean (conducted in October–November 2004) was to establish rate of productivity along a longitudinal section across the oligotrophic South Pacific Gyre (SPG), and compared these measurements with those obtained in nutrient–repleted waters from Chilean upwelling and around Marquesas Islands. A dual 13C/15N isotopic technique was used to estimate rates of carbon fixation, inorganic nitrogen uptake (including dinitrogen fixation), ammonium (NH4) and nitrate (NO3) regeneration, and dissolved organic nitrogen (DON) release resulting from both NH4 and NO3 uptake. The SPG had revealed the lowest rates of primary production (0.1 gC.m−2.d−1), while rates were 7 to 20 fold higher around the Marquesas Islands and in the Chilean upwelling, respectively. In this very low productive area, most of primary production was sustained by active regeneration processes which fuelled up to 95% of the biological nitrogen demand. Since nitrification was very active in the surface layer and often balanced the biological demand of nitrate, dinitrogen fixation, although acting at low daily rate (≈1–2 nmoles l−1d−1), sustained the main part of new production. Then, new production in the SPG (0.008±0.007 gC m−2.d−1) was two orders of magnitude lower than this measured in the upwelling where it essentially sustained by nitrate (0.69±0.49 gC.m−2.d−1). In the whole investigated region, the percentage of nitrogen release as DON represented a large part of the inorganic nitrogen uptake (13–15% in average), and reaching 26–41% in the SPG where the production of DON appeared to be a major part of the nitrogen cycle. Due to the lack of annual vertical mixing and very low lateral advection, the high release rates could explain the large accumulation of dissolved organic matter observed in the nitrogen-depleted and low productive waters of the South Pacific Gyre.
Dynamics of dimethylsulphoniopropionate and dimethylsulphide under different CO2 concentrations during a mesocosm experiment
Authors: Vogt M. , Steinke M. , Turner S. , Paulino A. , Meyerhöfer M. , Riebesell U. , LeQuéré C. , Liss P.
Published: April 2010

Abstract. We investigated the potential impact of seawater acidification on the concentrations of dimethylsulfide (DMS) and dimethylsulfoniopropionate (DMSP), and the activity of the enzyme DMSP-lyase during a pelagic ecosystem CO2 enrichment experiment (PeECE III) in spring 2005. Natural phytoplankton blooms were studied for 24 days under present, double and triple partial pressures of CO2 (pCO2; pH=8.3, 8.0, 7.8) in triplicate 25 m³ enclosures. The results indicate similar DMSP concentrations and DMSP-lyase activity patterns for all treatments. Hence, DMSP and DLA do not seem to have been affected by the CO2 treatment. In contrast, DMS concentrations showed small but statistically significant differences in the temporal development of the "present" versus the high CO2 treatments. The "present" enclosures had higher DMS concentrations during the first 10 days, after which the levels decreased earlier and more rapidly than in the other treatments. Integrated over the whole study period, DMS concentrations were not significantly different from those of the double and triple pCO2 treatments. Pigment and flow-cytometric data indicate that phytoplanktonic populations were generally similar between the treatments, suggesting a certain resilience of the marine ecosystem under study to the induced pH changes, which is reflected in DMSP and DLA. However, there were significant differences in bacterial community structure and the abundance of one group of viruses. The amount of DMS accumulated per total DMSP or chlorophyll-a differed significantly between the present and future scenarios, suggesting that the pathways for DMS production or bacterial DMS consumption were affected by seawater pH.
Factors limiting heterotrophic bacterial production in the southern Pacific Ocean
Authors: Van Wambeke F. , Bonnet S. , Moutin T. , Raimbault P. , Alarçon G. , Guieu C.
Published: April 2010

Abstract. The role of potential factors limiting bacterial growth was investigated along vertical and longitudinal gradients across the South Eastern Pacific Gyre. The effects of glucose, nitrate, ammonium and phosphate additions on heterotrophic bacterial production (using leucine technique) were studied in parallel in unfiltered seawater samples incubated under natural daily irradiance. Longitudinally, the enrichments realized on the subsurface showed three types of responses. From the Marquesas plateau (8° W to approx 125° W), bacteria were not bottom-up controlled, as confirmed by the huge potential of growth in non-enriched seawater (43±24 times in 24 h). Within the Gyre (125° W–95° W), nitrogen alone stimulated leucine incorporation rates by a factor of 5.6±3.6, but rapidly labile carbon (glucose) became a second limiting factor (enhancement factor 49±32 when the two elements were added). Finally from the border of the gyre to the Chilean upwelling (95° W–73° W), labile carbon was the only factor stimulating heterotrophic bacterial production. Interaction between phytoplankton and heterotrophic bacterial communities and the direct versus indirect effect of iron and macronutrients on bacterial production were also investigated in four selected sites: two sites on the vicinity of the Marquesas plateau, the centre of the gyre and the Eastern border of the gyre. Both phytoplankton and heterotrophic bacteria were limited by availability of nitrogen within the gyre, but not by iron. While iron limited phytoplankton at Marquesas plateau and at the eastern border of the gyre, heterotrophic bacteria were only limited by availability of labile DOC in those environments.
The unique skeleton of siliceous sponges (Porifera; Hexactinellida and Demospongiae) that evolved first from the Urmetazoa during the Proterozoic: a review
Authors: Müller W. E. G. , Li J. , Schröder H. C. , Qiao L. , Wang X.
Published: April 2010

Abstract. Sponges (phylum Porifera) had been considered as an enigmatic phylum, prior to the analysis of their genetic repertoire/tool kit. Already with the isolation of the first adhesion molecule, galectin, it became clear that the sequences of the sponge cell surface receptors and those of the molecules forming the intracellular signal transduction pathways, triggered by them, share high similarity to those identified in other metazoan phyla. These studies demonstrated that all metazoan phyla, including the Porifera, originate from one common ancestor, the Urmetazoa. The sponges evolved during a time prior to the Ediacaran-Cambrian boundary (542 million years ago (myr)). They appeared during two major "snowball earth events", the Sturtian glaciation (710 to 680 myr) and the Varanger-Marinoan ice ages (605 to 585 myr). During this period the aqueous milieu was silica rich due to the silicate weathering. The oldest sponge fossils (Hexactinellida) have been described from Australia, China and Mongolia and were assessed to have existed coeval with the diverse Ediacara fauna. Only little younger are the fossils discovered in the Sansha section in Hunan (Early Cambrian; China). It has been proposed that only the sponges had the genetic repertoire to cope with the adverse conditions, e.g. temperature-protection molecules or proteins protecting them against ultraviolet radiation. The skeletal elements of the Hexactinellida (model organisms Monorhaphis chuni and Monorhaphis intermedia or Hyalonema sieboldi) and Demospongiae (models Suberites domuncula and Geodia cydonium), the spicules, are formed enzymatically by the anabolic enzyme silicatein and the catabolic enzyme silicase. Both, the spicules of Hexactinellida and of Demospongiae, comprise a central axial canal and an axial filament which harbors the silicatein. After intracellular formation of the first lamella around the channel and the subsequent extracellular apposition of further lamellae the spicules are completed in a net formed of collagen fibers. The data summarized here substantiate that with the finding of silicatein a new aera in the field of bio/inorganic chemistry started. For the first time strategies could be formulated and experimentally proven that allow the formation/synthesis of inorganic structures by organic molecules. These findings are not only of importance for the further understanding of basic pathways in the body plan formation of sponges but also of eminent importance for applied/commercial processes in a sustainable use of biomolecules for novel bio/inorganic materials.
Sesquiterpene emissions from vegetation: a review
Authors: Duhl T. R. , Helmig D. , Guenther A.
Published: April 2010

Abstract. This literature review summarizes the environmental controls governing biogenic sesquiterpene (SQT) emissions and presents a compendium of numerous SQT-emitting plant species as well as the quantities and ratios of SQT species they have been observed to emit. The results of many enclosure-based studies indicate that temporal SQT emission variations appear to be dominated mainly by ambient temperatures although other factors contribute (e.g. seasonal variations). This implies that SQT emissions have increased significance at certain times of the year, especially in late spring to mid-summer. The strong temperature dependency of SQT emissions also creates the distinct possibility of increasing SQT emissions in a warmer climate. Disturbances to vegetation (from herbivores and possibly violent weather events) are clearly also important in controlling short-term SQT emissions bursts, though the relative contribution of disturbance-induced emissions is not known. Based on the biogenic SQT emission studies reviewed here, SQT emission rates among numerous species have been observed to cover a wide range of values, and exhibit substantial variability between individuals and across species, as well as at different environmental and phenological states. These emission rates span several orders of magnitude (10s–1000s of ng gDW−1 h−1). Many of the higher rates were reported by early SQT studies, which may have included artificially-elevated SQT emission rates due to higher-than-ambient enclosure temperatures and disturbances to enclosed vegetation prior to and during sample collection. When predicting landscape-level SQT fluxes, modelers must consider the numerous sources of variability driving observed SQT emissions. Characterizations of landscape and global SQT fluxes are highly uncertain given differences and uncertainties in experimental protocols and measurements, the high variability in observed emission rates from different species, the selection of species that have been studied so far, and ambiguities regarding controls over emissions. This underscores the need for standardized experimental protocols, better characterization of disturbance-induced emissions, screening of dominant plant species, and the collection of multiple replicates from several individuals within a given species or genus as well as a better understanding of seasonal dependencies of SQT emissions in order to improve the representation of SQT emission rates.
Input and output of dissolved organic and inorganic nitrogen in subtropical forests of South China under high air pollution
Authors: Fang Y. T. , Gundersen P. , Mo J.  M. , Zhu W. X.
Published: April 2010

Abstract. The nitrogen (N) emissions to the atmosphere and are thereby N deposition to forest ecosystems increasing rapidly in Southeast Asia, but little is known about the fate and effects elevated N deposition in warm and humid forests. Here we report the concentrations and fluxes of dissolved inorganic (DIN) and organic N (DON) in precipitation, throughfall, surface runoff and soil solution for three subtropical forests in a region of South China under high air pollution, to investigate how deposited N is processed and examined the importance of DON in N budget. The precipitation DIN input was 32–34 kg N ha−1 yr−1. An additional input of 18 kg N ha−1 yr−1 as DON was measured in 2005, which to our knowledge is the highest DON flux ever measured in precipitation. Dry deposition was of minor importance at the site. A canopy uptake of DIN was indicated in two young conifer dominated forests (72–85% of DIN input reached the floor in throughfall), whereas no uptake occurred in an old-growth broadleaf forest. The DON fluxes in throughfall of all forest were similar to that of precipitation. In the young forests DIN was further retained in the soil, but 41–63% of precipitation DIN was still leached. Additionally, about half of the DON input was retained in these forests. The N retention in the two young aggrading forests (21–28 kg N ha−1 yr−1) was in accordance with estimates of N accumulation in biomass and litter accretion. In the old-growth forest, no N retention occurred, but rather a net loss of 8–16 kg N ha−1 yr−1 from the soil was estimated. In total up to 60 kg N ha−1 yr−1 was leached, indicating that this forest was completely N saturated and could not retain additional anthropogenic N inputs. We found that the majority of DIN deposition and DIN leaching simultaneously occurred in the rainy season (March to August) and monthly DIN concentrations and fluxes in leaching were positively related to those in throughfall in all three forests, implying that part of the N leaching was hydrological driven by the abundant precipitation in the monsoon climate at the site. Our results suggest that long-term high N deposition has caused elevated N leaching in all studied forest types although most pronounced in the old-growth forest where wood increment was negligible or even negative. N availability even exceeded the biotic N demand in the young aggrading forests, albeit intensive rain in the growing season is likely to enhance N leaching in these forests.
Wetland succession in a permafrost collapse: interactions between fire and thermokarst
Authors: Myers-Smith I. H. , Harden J. W. , Wilmking M. , Fuller C. C. , McGuire A. D. , Chapin III F. S.
Published: April 2010

Abstract. To determine the influence of fire and thermokarst in a boreal landscape, we investigated ~600 years of vegetation succession from peat cores within and adjacent to a permafrost collapse feature on the Tanana River Floodplain of Interior Alaska. Radioisotope dating, diatom assemblages, plant macrofossils, charcoal fragments, and carbon and nitrogen content of the peat profile indicate that succession proceeded from a terrestrial forest to a sedge-dominated wetland over 100 years ago and to a Sphagnum-dominated bog in approximately 1970. The shift from sedge to Sphagnum, and a decrease in the detrended tree-ring width index of black spruce trees adjacent to the collapse coincided with an increase in the growing season temperature record from Fairbanks. The concurrent wetland succession and reduced growth of black spruce trees indicates a non-linear ecosystem-level response to a change in regional climate. In 2001, fire was observed coincident with permafrost collapse and resulted in lateral expansion of the bog. These observations and the peat profile suggest that future warming and/or increased fire disturbance could promote permafrost degradation and bog expansion, and increase carbon storage in the collapse; however, the development of drought conditions could reduce the success of black spruce and Sphagnum, decreasing long-term ecosystem carbon storage in the adjacent landscape.
Marine ecosystem community carbon and nutrient uptake stoichiometry under varying ocean acidification during the PeECE III experiment
Authors: Bellerby R. G. J. , Schulz K. G. , Riebesell U. , Neill C. , Nondal G. , Johannessen T. , Brown K. R.
Published: April 2010

Abstract. Inorganic carbon and nutrient biogeochemical responses were studied during the 2005 Pelagic Ecosystem CO2 Enrichment (PeECE III) study. Inverse analysis of the temporal inorganic carbon dioxide system and nutrient variations was used to determine the net community stoichiometric uptake characteristics of a natural pelagic ecosystem production perturbed over a range of pCO2 scenarios (350, 700 and 1050 μatm). Nutrient uptake showed no sensitivity to CO2 treatment. There was enhanced carbon production relative to nutrient consumption in the higher CO2 treatments which was positively correlated with the initial CO2 concentration. There was no significant calcification response to changing CO2 in Emiliania huxleyi by the peak of the bloom and all treatments exhibited low particulate inorganic carbon production (~15 μmol kg−1). With insignificant air-sea CO2 exchange across the treatments, the enhanced carbon uptake was due to increase organic carbon production. The inferred cumulative C:N:P stoichiometry of organic production increased with CO2 treatment from 1:6.3:121 to 1:7.1:144 to 1:8.25:168 at the height of the bloom. This study discusses how ocean acidification may incur modification to the stoichiometry of pelagic production and have consequences for ocean biogeochemical cycling.
Ecology and biogeochemistry of contrasting trophic environments in the South East Pacific by carbon isotope ratios on lipid biomarkers
Authors: Tolosa I. , Miquel J.-C. , Gasser B. , Raimbault P. , Azouzi L. , Claustre H.
Published: April 2010

Abstract. The distribution of lipid biomarkers and their carbon isotope composition was investigated on suspended particles from different contrasting trophic environments at six sites in the South East Pacific. High algal biomass with diatom-related lipids was characteristic in the upwelling zone, whereas haptophyte lipids were proportionally most abundant in the nutrient-poor settings of the centre of the South Pacific Gyre and on its easter edge. Dinoflagellate–sterols were minor contributors in all of the studied area and cyanobacteria-hydrocarbons were at maximum in the high nutrient low chlorophyll regime of the subequatorial waters at near the Marquesas archipelago. The taxonomic and spatial variability of the relationships between carbon photosynthetic fractionation and environmental conditions for four specific algal taxa (diatoms, haptophytes, dinoflagellates and cyanobacteria) was also investigated. The carbon isotope fractionation factor (εp) of the diatom marker varied over a range of 16‰ along the different trophic systems. In contrast, εp of dinoflagellate, cyanobacteria and alkenone markers varied only by 7–10‰. The low fractionation factors and small variations between the different phytoplankton markers measured in the upwelling area likely reveals uniformly high specific growth rates within the four phytoplankton taxa, and/or that transport of inorganic carbon into phytoplankton cells may not only occur by diffusion but by other carbon concentrating mechanisms (CCM). In contrast, in the oligotrophic zone, i.e. gyre and eastgyre, relatively high εp values, especially for the diatom marker, indicate diffusive CO2 uptake by the eukaryotic phytoplankton. At these nutrient-poor sites, the lowest εp values for haptophytes, dinoflagellates and cyanobacteria infer higher growth rates compared to diatoms.
Spatial and temporal resolution of carbon flux estimates for 1983–2002
Authors: Bruhwiler L. M. P. , Michalak A. M. , Tans P. P.
Published: April 2010

Abstract. We discuss the spatial and temporal resolution of monthly carbon flux estimates for the period 1983–2002 using a fixed-lag Kalman Smoother technique with a global chemical transport model, and the GLOBALVIEW data product. The observational network has expanded substantially over this period, and we the improvement in the constraints provided flux estimates by observations for the 1990's in comparison to the 1980's. The estimated uncertainties also decrease as observational coverage expands. In this study, we use the Globalview data product for a network that changes every 5 y, rather than using a small number of continually-operating sites (fewer observational constraints) or a large number of sites, some of which may consist almost entirely of extrapolated data. We show that the discontinuities resulting from network changes reflect uncertainty due to a sparse and variable network. This uncertainty effectively limits the resolution of trends in carbon fluxes. The ability of the inversion to distinguish, or resolve, carbon fluxes at various spatial scales is examined using a diagnostic known as the resolution kernel. We find that the global partition between land and ocean fluxes is well-resolved even for the very sparse network of the 1980's, although prior information makes a significant contribution to the resolution. The ability to distinguish zonal average fluxes has improved significantly since the 1980's, especially for the tropics, where the zonal ocean and land biosphere fluxes can be distinguished. Care must be taken when interpreting zonal average fluxes, however, since the lack of air samples for some regions in a zone may result in a large influence from prior flux estimates for these regions. We show that many of the TransCom 3 source regions are distinguishable throughout the period over which estimates are produced. Examples are Boreal and Temperate North America. The resolution of fluxes from Europe and Australia has greatly improved since the 1990's. Other regions, notably Tropical South America and the Equatorial Atlantic remain practically unresolved. Comparisons of the average seasonal cycle of the estimated carbon fluxes with the seasonal cycle of the prior flux estimates reveals a large adjustment of the summertime uptake of carbon for Boreal Eurasia, and an earlier onset of springtime uptake for Temperate North America. In addition, significantly larger seasonal cycles are obtained for some ocean regions, such as the Northern Ocean, North Pacific, North Atlantic and Western Equatorial Pacific, regions that appear to be well-resolved by the inversion.
NW Adriatic Sea variability in relation to chlorophyll-a dynamics in the last 20 years (1986–2005)
Authors: Tedesco L. , Socal G. , Bianchi F. , Acri F. , Veneri D. , Vichi M.
Published: April 2010

Abstract. This paper presents a long-term time series (1986–2005) of hydrological and biogeochemical data, both published and unpublished. Data were collected in the north-western area of the Adriatic Sea, at two stations that are considered hydrodynamically and trophically different. The time series have been statistically and graphically investigated on a monthly scale in order to find not only possible chlorophyll-a trends over time, but also links between the concentrations of chlorophyll-a and the variability in the environment, as well as trophic differences between the two areas. Basically, in both cases the statistical test results show no significant trends in either the average chlorophyll-a values or in dispersion of the data, in contrast with significant trends in temperature and salinity. The two areas have similar hydrological features, yet they present significant differences in the amount of nutrient inputs: these are in fact higher at the coastal site, which is characterized by a prevalence of surface blooms, while they are lower at the offshore station, which is mainly affected by intermediate blooms. Nonetheless, throughout the whole water column, chlorophyll-a concentrations are only slightly different. Both areas are affected by riverine discharge, though in the first case considered chlorophyll-a concentrations are also driven strongly by the seasonal cycle. Finally, the results show that the two stations are not trophically different, although some controlling factors, such as zooplankton grazing in one case and light attenuation in the other, may regulate the growth of phytoplankton.
Impacts from ice-nucleating bacteria on deep convection: implications for the biosphere-atmosphere interaction in climate change
Authors: Phillips V. T. J. , Andronache C. , Morris C. E. , Sands D. C.
Published: April 2010

Abstract. A cloud modeling framework is described to simulate ice nucleation by biogenic aerosol particles, as represented by airborne ice-nucleation active (INA) bacteria. It includes the empirical parameterization of heterogeneous ice nucleation. The formation of cloud liquid by soluble material coated on such insoluble aerosols is represented and determines their partial removal from deep convective clouds by accretion onto precipitation. Preliminary simulations are performed for a case of deep convection over Oklahoma. If present at high enough concentrations, as might occur in proximity to land sources, INA bacteria are found to influence significantly: – (1) the average numbers and sizes of crystals in the clouds; (2) the horizontal cloud coverage in the free troposphere; and (3) precipitation and incident solar insolation at the surface, which influence rates of bacterial growth. At lower concentrations, the corresponding responses of cloud fields appear much lower or are ambiguous. In nature, the growth rates of INA bacteria on leaves prior to emission into the atmosphere are known to be highly dependent on temperature, precipitation and plant species. Consequently, the open question emerges of whether emissions of such ice-nucleating biogenic particles can then be modified by their own effects on clouds and atmospheric conditions, forming a weak feedback in climate or microclimate systems.