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Marine ecosystem models have advanced to incorporate metabolic pathways discovered with genomic sequencing, but direct comparisons between models and “omics” data are lacking. We developed a model that directly simulates metagenomes and metatranscriptomes for comparison with observations. Model microbes were randomly assigned genes for specialized functions, and communities of 68 species were simulated in the Atlantic Ocean. Unfit organisms were replaced, and the model self-organized to develop community genomes and transcriptomes. Emergent communities from simulations that were initialized with different cohorts of randomly generated microbes all produced realistic vertical and horizontal ocean nutrient, genome, and transcriptome gradients. Thus, the library of gene functions available to the community, rather than the distribution of functions among specific organisms, drove community assembly and biogeochemical gradients in the model ocean.

The nutrient-rich waters of the Amazon River plume (ARP) support dense blooms of diatom-diazotroph assemblages (DDAs) that introduce large quantities of new nitrogen to the planktonic ecosystem and, unlike other nitrogen-fixers, are likely to directly fuel vertical carbon flux. To investigate the factors controlling DDA blooms, we develop a five phytoplankton (cyanobacteria, diatoms, unicellular microbial diazotrophs, DDAs, and Trichodesmium), two zooplankton model and embed it within a 1/6° resolution physical model of the tropical and subtropical Atlantic. The model generates realistic DDA blooms in the ARP and also exhibits basin-wide primary production, nitrogen fixation, and grazing rates consistent with observed values. By following ARP water parcels with synthetic Lagrangian drifters released at the river mouth we are able to assess the relative impacts of grazing, nutrient supply, and physical forcing on DDA bloom formation. DDA bloom formation is stimulated in the nitrogen-poor and silica-rich water of the ARP by decreases in grazing pressure when mesozooplankton (which co-occur in high densities with coastal diatom blooms) concentrations decrease. Bloom termination is driven primarily by silica limitation of the DDAs. In agreement with in situ data, this net growth niche for DDAs exists in a salinity range from ∼20–34 PSU, although this co-occurrence is coincidental rather than causative. Because net growth rates are relatively modest, bloom formation in ARP water parcels depends critically on the time spent in this ideal habitat, with high DDA biomass only occurring when water parcels spent >23 days in the optimal habitat niche.

Current research in prosthetic device design aims to mimic natural movements using a feedback system that connects to the patient's own nerves to control the device. The first step in using neurons to control motion is to make and maintain contact between neurons and the feedback sensors. Therefore, the goal of this project was to determine if changes in electrode resistance could be detected when a neuron extended a neurite to contact a sensor. Dorsal root ganglia (DRG) were harvested from chick embryos and cultured on a collagen-coated carbon nanotube microelectrode array for two days. The DRG were seeded along one side of the array so the processes extended across the array, contacting about half of the electrodes. Electrode resistance was measured both prior to culture and after the two day culture period. Phase contrast images of the microelectrode array were taken after two days to visually determine which electrodes were in contact with one or more DRG neurite or tissue. Electrodes in contact with DRG neurites had an average change in resistance of 0.15 MΩ compared with the electrodes without DRG neurites. Using this method, we determined that resistance values can be used as a criterion for identifying electrodes in contact with a DRG neurite. These data are the foundation for future development of an autonomous feedback resistance measurement system to continuously monitor DRG neurite outgrowth at specific spatial locations.

This study presents new measurements of the concentrations and turnover rates of dimethyl sulfide (DMS), dimethylsulfoniopropionate (DMSP), and dimethyl sulfoxide (DMSO) in coastal waters near Palmer Station, Antarctica, during the spring and summer of 2012–2013. Using several novel analytical and experimental techniques, we document variability in DMS, DMSP, and DMSO (DMS/P/O) concentrations and quantify dominant production and removal terms in the mixed layer DMS budget. Our results demonstrate considerable seasonal variability in the concentration of DMS (range 0–20 nM), total DMSP (8–160 nM), and total DMSO (4–160 nM). Over the seasonal cycle, dissolved DMSP concentrations were well correlated with total DMSP concentrations and the abundance of Phaeocystis antarctica, while DMSO concentrations (total and dissolved) were well correlated with DMS concentrations. DMSP cleavage from the dissolved pool (mean rate = 5.5 nM d-1) and release from microzooplankton grazing (mean 5.6 nM d-1) were the dominant sources of DMS, with smaller DMS production rates associated with DMSO reduction from the dissolved pool (mean 2.6 nM d-1) and krill grazing (mean 0.82 nM d-1). Specific rate constants for DMSP cleavage were inversely related to net primary production. Bacterial uptake was a primary contributor to DMS removal (mean -12 nM d-1), and we observed a significant correlation between bacterial production and gross DMS loss rate constants. Estimated sea-air flux and photo-oxidation constituted secondary DMS sinks. Our experimental and analytical methods provide insight into the DMS/P/O cycle at Palmer Station, and a starting point for future studies examining inter-annual DMS/P/O variability in coastal Antarctic waters.

Neurons and neural stem cells are sensitive to their mechanical and topographical environment, and cell–substrate binding contributes to this sensitivity to activate signaling pathways for basic cell functions. Many transmembrane proteins transmit signals into and out of the cell, including integrins, growth factor receptors, G-protein-coupled receptors, cadherins, cell adhesion molecules, and ion channels. Specifically, integrins are one of the main transmembrane proteins that transmit force across the cell membrane between a cell and its extracellular matrix, making them critical in the study of cell–material interactions. This review focuses on mechanotransduction, defined as the conversion of force a cell generates through cell–substrate bonds to a chemical signal, of neural cells. The chemical signals relay information via pathways through the cellular cytoplasm to the nucleus, where signaling events can affect gene expression. Pathways and the cellular response initiated by substrate binding are explored to better understand their effect on neural cells mechanotransduction. As the results of mechanotransduction affect cell adhesion, cell shape, and differentiation, knowledge regarding neural mechanotransduction is critical for most regenerative strategies in tissue engineering, where novel environments are developed to improve conduit design for central and peripheral nervous system repair in vivo .

COSINUS is a dark matter (DM) direct search experiment that uses sodium iodide (NaI) crystals as cryogenic calorimeters. Thanks to the low nuclear recoil energy threshold and event-by-event discrimination capability, COSINUS will address the long-standing DM claim made by the DAMA/LIBRA collaboration. The experiment is currently under construction at the Laboratori Nazionali del Gran Sasso, Italy, and employs a large cylindrical water tank as a passive shield to meet the required background rate. However, muon-induced neutrons can mimic a DM signal therefore requiring an active veto system, which is achieved by instrumenting the water tank with an array of photomultiplier tubes (PMTs). This study optimizes the number, arrangement, and trigger conditions of the PMTs as well as the size of an optically invisible region. The objective was to maximize the muon veto efficiency while minimizing the accidental trigger rate due to the ambient and instrumental background. The final configuration predicts a veto efficiency of 99.63 ± 0.16% and 44.4 ± 5.6% in the tagging of muon events and showers of secondary particles, respectively. The active veto will reduce the cosmogenic neutron background rate to 0.11 ± 0.02 cts · kg - 1 · year - 1 , corresponding to less than one background event in the region of interest for the whole COSINUS-1 π exposure of 1000 kg · days.

COSINUS will be among the first underground experiments to operate Transition Edge Sensors in a dry dilution refrigerator, measuring temperature changes on the order of μ K. A pulse tube cryocooler is used to cool down to 3K, trading simplified handling, by not using liquid noble gases, for an increased vibration noise level in the acoustic frequency range. As the signals measured with a TES are in the same frequency region, it is necessary to decouple the detectors from all possible noise sources. In COSINUS, a two-level passive decoupling system was developed and tested using piezo-based accelerometers. At the first level, the refrigerator is mechanically isolated from all external noise sources. For the second level an internal spring-based system was developed and tested on a mockup system. On the first level a reduction of the vibrational background up to a factor 4 below 10 Hz could be measured. On the second level a resonance frequency of 1.2 Hz with damping of higher frequencies was achieved.

COSINUS is a new cryogenic observatory for rare event searches located in the Laboratori Nazionali del Gran Sasso in Italy. COSINUS’s first goal is to clarify whether the signal detected by the DAMA/LIBRA experiment originates from dark matter particle interactions or has a different nature. To this aim, sodium iodide (NaI) cryogenic scintillating calorimeters read out by transition edge sensors (TESs) are developed. To preserve the NaI crystal from the TES fabrication process, COSINUS implemented a novel design, the remoTES, where the TES is deposited on a separate wafer and coupled to the absorber through a Au-bonding wire and a Au-phonon collector. This design has reached baseline resolutions below 100 eV for Si, 200 eV for TeO 2 and 400 eV for NaI absorbers. These results show that the remoTES not only brings COSINUS close to its performance goal of 1 keV energy threshold, but also offers the possibility to employ delicate crystals previously excluded for cryogenic applications as absorbers and to avoid the exposure of the absorbers to the TES fabrication process. It therefore extends the choice of target materials of the rare event searches using TES. In this work, we will provide a detailed description of the remoTES design and present the results of the latest prototypes.

In the last years, the COSINUS (Cryogenic Observatory for SIgnals seen in Next generation Underground Searches) experiment has made significant progress both in the construction of its facility and in pursuing its physics goals: At Laboratori Nazionali del Gran Sasso (LNGS) in Italy, an underground facility was constructed, which will house experimental detectors for dark matter direct detection in a dry dilution cryostat. Construction of the main structures at the COSINUS site is finished, including the control building, the cryostat access level, and the water tank which will serve as a Cherenkov muon veto around the cryostat. With a nuclear recoil threshold of 4 keV, the latest COSINUS detector prototype approaches the design goal of 1 keV, and particle discrimination on event-by-event basis has been demonstrated. This contribution gives a brief overview on the status of COSINUS.

Mesozooplankton can directly impact global biogeochemical cycles by repackaging particulate organic carbon (POC) into dense, rapidly sinking fecal pellets and by undertaking vertical migrations that transport carbon and nutrients to depth. We assessed these contributions of mesozooplankton to vertical flux in the California Current Ecosystem, a productive but spatiotemporally variable coastal upwelling system, during cruises in April 2007 and October 2008. Sediment traps and Thorium-234 (234Th) disequilibrium measurements were used to assess the total passive flux of sinking POC, while pigment analyses and microscopic enumeration of sediment trap samples provided estimates of total fecal carbon transport. Identification of mesozooplankton in paired day-night, vertically stratified plankton tows allowed calculation of the active transport of carbon by the dominant taxa of vertically migrating mesozooplankton (particularly copepods and euphausiids). Across the range of 9 ecosystem conditions encountered on the cruises, recognizable fecal pellet mass flux varied from 3.5 to 135 mg C m–2 d–1 (3 to 94% of total passive flux) at the 100 m depth horizon. The active transport of carbon by migratory mesozooplankton taxa contributed an additional 2.4 to 47.1 mg C m–2 d–1 (1.9 to 40.5% of total passive flux). Inter-cruise comparisons suggest that fecal pellets contributed a higher portion of passive export during the productive spring cruise, when fecal material may have been responsible for close to 100% of sinking material. During the fall cruise, a gradient was observed with carbon export in productive water parcels driven by a large contribution of fecal pellets. In the less productive regions, fall vertical fluxes contained a higher proportion of marine snow and unidentifiable particles.