Description: Oxygen-deficient waters in the ocean, generally referred to as oxygen minimum zones (OMZ), are expected to expand as a consequence of global climate change. Poor oxygenation is promoting microbial loss of inorganic nitrogen (N) and increasing release of sediment-bound phosphate (P) into the water column. These intermediate water masses, nutrient-loaded but with an N deficit relative to the canonical N:P Redfield ratio of 16:1, are transported via coastal upwelling into the euphotic zone. To test the impact of nutrient supply and nutrient stoichiometry on production, partitioning and elemental composition of dissolved (DOC, DON, DOP) and particulate (POC, PON, POP) organic matter, three nutrient enrichment experiments were conducted with natural microbial communities in shipboard mesocosms, during research cruises in the tropical waters of the southeast Pacific and the northeast Atlantic. Maximum accumulation of POC and PON was observed under high N supply conditions, indicating that primary production was controlled by N availability. The stoichiometry of microbial biomass was unaffected by nutrient N:P supply during exponential growth under nutrient saturation, while it was highly variable under conditions of nutrient limitation and closely correlated to the N:P supply ratio, although PON:POP of accumulated biomass generally exceeded the supply ratio. Microbial N:P composition was constrained by a general lower limit of 5:1. Channelling of assimilated P into DOP appears to be the mechanism responsible for the consistent offset of cellular stoichiometry relative to inorganic nutrient supply and nutrient drawdown, as DOP build-up was observed to intensify under decreasing N:P supply. Low nutrient N:P conditions in coastal upwelling areas overlying O2-deficient waters seem to represent a net source for DOP, which may stimulate growth of diazotrophic phytoplankton. These results demonstrate that microbial nutrient assimilation and partitioning of organic matter between the particulate and the dissolved phase are controlled by the N:P ratio of upwelled nutrients, implying substantial consequences for nutrient cycling and organic matter pools in the course of decreasing nutrient N:P stoichiometry.

Description: Simultaneous analysis of carbon, nitrogen and sulphur stable isotope ratios was applied in this pilot study to examine the food web of a Zostera marina L. system in the western Baltic Sea. Samples of three potential food sources: eelgrass, epiphytic algae and seston, as well as 69 consumer species were collected during the growing season of Z. marina from March to September 2011. The measured δ13C values of epiphytes (-14.1‰ ± 1.8 SD) were close to δ13C values of eelgrass (-11.6‰ ± 1.8 SD), impeding a clear distinction of those two carbon sources, whereas seston δ13C values (-20.9‰ ± 3.5 SD) were clearly different. This frequently encountered problem was solved by the additional use of δ34S, which resulted in easily distinguishable values for sediment and seawater derived sulphur. Values of primary producer δ34S ranged from 5.6‰ (± 2.3 SD) for Z. marina leaves to 14.2‰ (± 1.6 SD) for epiphytes and 11.9‰ (± 3.3 SD) for seston. The combination of δ34S and δ13C values made a separation of carbon sources possible and enabled the allocation of potential food sources to consumers and a description of their trophic relationships. The data of stable isotope ratio analysis of this eelgrass community strongly indicate a food web based on epiphyte and seston production. δ15N values show a food web consisting of large numbers of generalists and a high degree of omnivory amongst the consumer species analysed. This implies an occupation of every trophic position possible, which is supported by a continuous distribution of δ15N values. Previously described eelgrass food webs may have to be re-evaluated to include sulfur in order to provide a clear picture on primary carbon sources.

Description: The Eastern Tropical North Atlantic (ETNA) is characterised by a strong east to west gradient in the vertical upward flux of dissolved inorganic nitrogen to the photic zone. We measured the stable nitrogen isotope (δ15N) signatures of various zooplankton taxa covering twelve stations in the ETNA (04°–14°N, 016–030°W) in fall 2009, and observed significant differences in δ15N values among stations. These spatial differences in δ15N within zooplankton taxa exceeded those between trophic levels and revealed an increasing atmospheric input of nitrogen by N2 fixation and Aeolian dust in the open ocean as opposed to remineralised NO3− close to the NW African upwelling. In order to investigate the spatial distribution of upwelling-fuelled versus atmospheric-derived nitrogen more closely, we examined the δ15N signatures in size-fractionated zooplankton as well as in three widely distributed epipelagic copepod species on a second cruise in fall 2010 in the ETNA (02-17°35′N, 015–028°W). Copepods were sampled for δ15N and RNA/DNA as a proxy for nutritional condition on 25 stations. At the same stations, vertical profiles of chlorophyll-a and dissolved nutrients were obtained. High standing stocks of chl-a were associated with shallow mixed layer depth and thickening of the nutricline. As the nitracline was generally deeper and less thick than the phosphacline, it appears that non-diazotroph primary production was limited by N rather than P throughout the study area, which is in line with enrichment experiments during these cruises. Estimated by the δ15N in zooplankton, atmospheric sources of new N contributed less than 20% close to the African coast and in the Guinea Dome area and up to 60% at the offshore stations, depending on the depth of the nitracline. δ15N of the three different copepod species investigated strongly correlated with each other, in spite of their distinct feeding ecology, which resulted in different spatial patterns of nutritional condition as indicated by RNA/DNA. Highlights: ► We studied δ15N and RNA/DNA of eastern tropical Atlantic zooplankton along with nutrients and Chl-α. ► Zooplankton −δ15N was decreasing from east (West African Shelf) to west (oligotrophic open ocean). ► Total integrated Chl-a depended mainly on nutricline depth and was N-limited throughout the area. ► Zooplankton δ15N and nutricline depth were used to estimate atmospheric N sources to the food web. ► Estimated atmospheric nitrogen sources were less than 20% at the shelf slope and up to 60% offshore.

Description: Total dissolved inorganic carbon (CT) is one of the most frequently measured parameters used to calculate the partial pressure of carbon dioxide in seawater. Its determination has become increasingly important because of the rising interest in the biological effects of ocean acidification. Coulometric and infrared detection methods are currently favored in order to precisely quantify CT. These methods however are not sufficiently validated for CT measurements of biological experiments manipulating seawater carbonate chemistry with an extended CT measurement range (~1250–2400 μmol kg–1) compared to natural open ocean seawater (~1950–2200 μmol kg−1). The requirement of total sample amounts between 0.1–1 L seawater in the coulometric- and infrared detection methods potentially exclude their use for experiments working with much smaller volumes. Additionally, precise CT analytics become difficult with high amounts of biomass (e.g., phytoplankton cultures) or even impossible in the presence of planktonic calcifiers without sample pre-filtration. Filtration however, can alter CT concentration through gas exchange induced by high pressure. Addressing these problems, we present precise quantification of CT using a small, basic and inexpensive gas chromatograph as a CT analyzer. Our technique is able to provide a repeatability of ±3.1 μmol kg−1, given by the pooled standard deviation over a CT range typically applied in acidification experiments. 200 μL of sample is required to perform the actual CT measurement. The total sample amount needed is 12 mL. Moreover, we show that sample filtration is applicable with only minor alteration of the CT. The method is simple, reliable and with low cumulative material costs. Hence, it is potentially attractive for all researchers experimentally manipulating the seawater carbonate system.

Description: This work presents a new open source framework for medical image reconstruction called the “Gadgetron.” The framework implements a flexible system for creating streaming data processing pipelines where data pass through a series of modules or “Gadgets” from raw data to reconstructed images. The data processing pipeline is configured dynamically at run-time based on an extensible markup language configuration description. The framework promotes reuse and sharing of reconstruction modules and new Gadgets can be added to the Gadgetron framework through a plugin-like architecture without recompiling the basic framework infrastructure. Gadgets are typically implemented in C/C++, but the framework includes wrapper Gadgets that allow the user to implement new modules in the Python scripting language for rapid prototyping. In addition to the streaming framework infrastructure, the Gadgetron comes with a set of dedicated toolboxes in shared libraries for medical image reconstruction. This includes generic toolboxes for data-parallel (e.g., GPU-based) execution of compute-intensive components. The basic framework architecture is independent of medical imaging modality, but this article focuses on its application to Cartesian and non-Cartesian parallel magnetic resonance imaging. Magn Reson Med, 2012. © 2012 Wiley Periodicals, Inc.