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  • 2020-2023  (241)
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  • 2020  (241)
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  • 1
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    Flow Encountering Abrupt Topography (FLEAT): a multiscale observational and modeling program to understand how topography affects flows in the western North Pacific (2020)
    Oceanography Society
    Details
    Publication Date: 2022-05-26
    Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Johnston, T. M. S., Schonau, M. C., Paluszkiewicz, T., MacKinnon, J. A., Arbic, B. K., Colin, P. L., Alford, M. H., Andres, M., Centurioni, L., Graber, H. C., Helfrich, K. R., Hormann, V., Lermusiaux, P. F. J., Musgrave, R. C., Powell, B. S., Qiu, B., Rudnick, D. L., Simmons, H. L., St Laurent, L., Terrill, E. J., Trossman, D. S., Voet, G., Wijesekera, H. W., & Zeiden, K. L. Flow Encountering Abrupt Topography (FLEAT): a multiscale observational and modeling program to understand how topography affects flows in the western North Pacific. Oceanography, 32(4), (2019): 10-21, doi: 10.5670/oceanog.2019.407.
    Description: Using a combination of models and observations, the US Office of Naval Research Flow Encountering Abrupt Topography (FLEAT) initiative examines how island chains and submerged ridges affect open ocean current systems, from the hundreds of kilometer scale of large current features to the millimeter scale of turbulence. FLEAT focuses on the western Pacific, mainly on equatorial currents that encounter steep topography near the island nation of Palau. Wake eddies and lee waves as small as 1 km were observed to form as these currents flowed around or over the steep topography. The direction and vertical structure of the incident flow varied over tidal, inertial, seasonal, and interannual timescales, with implications for downstream flow. Models incorporated tides and had grids with resolutions of hundreds of meters to enable predictions of flow transformations as waters encountered and passed around Palau’s islands. In addition to making scientific advances, FLEAT had a positive impact on the local Palauan community by bringing new technology to explore local waters, expanding the country’s scientific infrastructure, maintaining collaborations with Palauan partners, and conducting outreach activities aimed at elementary and high school students, US embassy personnel, and Palauan government officials.
    Description: We are grateful to Captains David Murline and Tom Desjardins and the crew of R/V Roger Revelle, and to the staff of the Coral Reef Research Foundation, for their help in carrying out the field program; to ONR for funding this work; and to FLEAT colleagues for their collaboration. We wish to thank the Bureau of Marine Resources, Ministry of Natural Resources, Environment and Tourism of the Palau National Government, and the Angaur, Kayangel, Koror, and Peleliu State Governments for the relevant permits to conduct this research in Palau’s waters.
    Repository Name: Woods Hole Open Access Server
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  • 2
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    Genetic tool development in marine protists: emerging model organisms for experimental cell biology (2020)
    Nature Research
    Details
    Publication Date: 2022-05-26
    Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Faktorova, D., Nisbet, R. E. R., Robledo, J. A. F., Casacuberta, E., Sudek, L., Allen, A. E., Ares, M., Jr., Areste, C., Balestreri, C., Barbrook, A. C., Beardslee, P., Bender, S., Booth, D. S., Bouget, F., Bowler, C., Breglia, S. A., Brownlee, C., Burger, G., Cerutti, H., Cesaroni, R., Chiurillo, M. A., Clemente, T., Coles, D. B., Collier, J. L., Cooney, E. C., Coyne, K., Docampo, R., Dupont, C. L., Edgcomb, V., Einarsson, E., Elustondo, P. A., Federici, F., Freire-Beneitez, V., Freyria, N. J., Fukuda, K., Garcia, P. A., Girguis, P. R., Gomaa, F., Gornik, S. G., Guo, J., Hampl, V., Hanawa, Y., Haro-Contreras, E. R., Hehenberger, E., Highfield, A., Hirakawa, Y., Hopes, A., Howe, C. J., Hu, I., Ibanez, J., Irwin, N. A. T., Ishii, Y., Janowicz, N. E., Jones, A. C., Kachale, A., Fujimura-Kamada, K., Kaur, B., Kaye, J. Z., Kazana, E., Keeling, P. J., King, N., Klobutcher, L. A., Lander, N., Lassadi, I., Li, Z., Lin, S., Lozano, J., Luan, F., Maruyama, S., Matute, T., Miceli, C., Minagawa, J., Moosburner, M., Najle, S. R., Nanjappa, D., Nimmo, I. C., Noble, L., Vanclova, A. M. G. N., Nowacki, M., Nunez, I., Pain, A., Piersanti, A., Pucciarelli, S., Pyrih, J., Rest, J. S., Rius, M., Robertson, D., Ruaud, A., Ruiz-Trillo, I., Sigg, M. A., Silver, P. A., Slamovits, C. H., Smith, G. J., Sprecher, B. N., Stern, R., Swart, E. C., Tsaousis, A. D., Tsypin, L., Turkewitz, A., Turnsek, J., Valach, M., Verge, V., von Dassow, P., von der Haar, T., Waller, R. F., Wang, L., Wen, X., Wheeler, G., Woods, A., Zhang, H., Mock, T., Worden, A. Z., & Lukes, J. Genetic tool development in marine protists: emerging model organisms for experimental cell biology. Nature Methods, 17, (2020): 481-494, doi:10.1038/s41592-020-0796-x.
    Description: Diverse microbial ecosystems underpin life in the sea. Among these microbes are many unicellular eukaryotes that span the diversity of the eukaryotic tree of life. However, genetic tractability has been limited to a few species, which do not represent eukaryotic diversity or environmentally relevant taxa. Here, we report on the development of genetic tools in a range of protists primarily from marine environments. We present evidence for foreign DNA delivery and expression in 13 species never before transformed and for advancement of tools for eight other species, as well as potential reasons for why transformation of yet another 17 species tested was not achieved. Our resource in genetic manipulation will provide insights into the ancestral eukaryotic lifeforms, general eukaryote cell biology, protein diversification and the evolution of cellular pathways.
    Description: We thank M. Salisbury and D. Lacono, C. Poirier, M. Hamilton, C. Eckmann, H. Igel, C. Yung and K. Hoadley for assistance; V.K. Nagarajan, M. Accerbi and P.J. Green who carried out Agrobacterium studies in Heterosigma akashiwo, and N. Kraeva, C. Bianchi and V. Yurchenko for the help with designing the p57-V5+NeoR construct. We are also grateful to the protocols.io team (L. Teytelman and A. Broellochs) for their support. This collaborative effort was supported by the Gordon and Betty Moore Foundation EMS Program of the Marine Microbiology Initiative (grant nos. GBMF4972 and 4972.01 to F.-Y.B.; GBMF4970 and 4970.01 to M.A. and A.Z.W.; GBMF3788 to A.Z.W.; GBMF 4968 and 4968.01 to H.C.; GBMF4984 to V.H.; GBMF4974 and 4974.01 to C. Brownlee; GBMF4964 to Y. Hirakawa; GBMF4961 to T. Mock; GBMF4958 to P.S.; GBMF4957 to A.T.; GBMF4960 to G.J.S.; GBMF4979 to K.C.; GBMF4982 and 4982.01 to J.L.C.; GBMF4964 to P.J.K.; GBMF4981 to P.v.D.; GBMF5006 to A.E.A.; GBMF4986 to C.M.; GBMF4962 to J.A.F.R.; GBMF4980 and 4980.01 to S.L.; GBMF 4977 and 4977.01 to R.F.W.; GBMF4962.01 to C.H.S.; GBMF4985 to J.M.; GBMF4976 and 4976.01 to C.H.; GBMF4963 and 4963.01 to V.E.; GBMF5007 to C.L.D.; GBMF4983 and 4983.01 to J.L.; GBMF4975 and 4975.01 to A.D.T.; GBMF4973 and 4973.01 to I.R.-T. and GBMF4965 to N.K.), by The Leverhulme Trust (RPG-2017-364) to T. Mock and A. Hopes, and by ERD funds (16_019/0000759) from the Czech Ministry of Education to J.L.
    Repository Name: Woods Hole Open Access Server
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  • 3
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    Illuminating water cycle modifications and Earth system resilience in the Anthropocene (2020)
    In:  Water Resources Research
    Details
    Publication Date: 2022-03-21
    Description: Fresh water—the bloodstream of the biosphere—is at the center of the planetary drama of the Anthropocene. Water fluxes and stores regulate the Earth's climate and are essential for thriving aquatic and terrestrial ecosystems, as well as water, food, and energy security. But the water cycle is also being modified by humans at an unprecedented scale and rate. A holistic understanding of freshwater's role for Earth system resilience and the detection and monitoring of anthropogenic water cycle modifications across scales is urgent, yet existing methods and frameworks are not well suited for this. In this paper we highlight four core Earth system functions of water (hydroclimatic regulation, hydroecological regulation, storage, and transport) and key related processes. Building on systems and resilience theory, we review the evidence of regional‐scale regime shifts and disruptions of the Earth system functions of water. We then propose a framework for detecting, monitoring, and establishing safe limits to water cycle modifications and identify four possible spatially explicit methods for their quantification. In sum, this paper presents an ambitious scientific and policy grand challenge that could substantially improve our understanding of the role of water in the Earth system and cross‐scale management of water cycle modifications that would be a complementary approach to existing water management tools.
    Type: info:eu-repo/semantics/article
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  • 4
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    Advances in understanding and managing catastrophic ecosystem shifts in mediterranean ecosystems (2020)
    In:  Frontiers in Ecology and Evolution
    Details
    Publication Date: 2022-03-21
    Description: One of the most challenging issues in Mediterranean ecosystems to date has been to understand the emergence of discontinuous changes or catastrophic shifts. In the era of the 2030 Sustainable Development Goals, which encompass ideas around Land Degradation Neutrality, advancing this understanding has become even more critical and urgent. The aim of this paper is to synthesize insights into the drivers, processes and management of catastrophic shifts to highlight ways forward for the management of Mediterranean ecosystems. We use a multidisciplinary approach that extends beyond the typical single site, single scale, single approach studies in the current literature. We link applied and theoretical ecology at multiple scales with analyses and modeling of human–environment–climate relations and stakeholder engagement in six field sites in Mediterranean ecosystems to address three key questions: i) How do major degradation drivers affect ecosystem functioning and services in Mediterranean ecosystems? ii) What processes happen in the soil and vegetation during a catastrophic shift? iii) How can management of vulnerable ecosystems be optimized using these findings? Drawing together the findings from the use of different approaches allows us to address the whole pipeline of changes from drivers through to action. We highlight ways to assess ecosystem vulnerability that can help to prevent ecosystem shifts to undesirable states; identify cost-effective management measures that align with the vision and plans of land users; and evaluate the timing of these measures to enable optimization of their application before thresholds are reached. Such a multidisciplinary approach enables improved identification of early warning signals for discontinuous changes informing more timely and cost-effective management, allowing anticipation of, adaptation to, or even prevention of, undesirable catastrophic ecosystem shifts.
    Language: English
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  • 5
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    Report on ICDP Deep Dust workshops: probing continental climate of the late Paleozoic icehouse–greenhouse transition and beyond (2020)
    In:  Scientific Drilling
    Details
    Publication Date: 2022-03-21
    Description: Chamberlin and Salisbury's assessment of the Permian a century ago captured the essence of the period: it is an interval of extremes yet one sufficiently recent to have affected a biosphere with near-modern complexity. The events of the Permian – the orogenic episodes, massive biospheric turnovers, both icehouse and greenhouse antitheses, and Mars-analog lithofacies – boggle the imagination and present us with great opportunities to explore Earth system behavior. The ICDP-funded workshops dubbed “Deep Dust,” held in Oklahoma (USA) in March 2019 (67 participants from nine countries) and Paris (France) in January 2020 (33 participants from eight countries), focused on clarifying the scientific drivers and key sites for coring continuous sections of Permian continental (loess, lacustrine, and associated) strata that preserve high-resolution records. Combined, the two workshops hosted a total of 91 participants representing 14 countries, with broad expertise. Discussions at Deep Dust 1.0 (USA) focused on the primary research questions of paleoclimate, paleoenvironments, and paleoecology of icehouse collapse and the run-up to the Great Dying and both the modern and Permian deep microbial biosphere. Auxiliary science topics included tectonics, induced seismicity, geothermal energy, and planetary science. Deep Dust 1.0 also addressed site selection as well as scientific approaches, logistical challenges, and broader impacts and included a mid-workshop field trip to view the Permian of Oklahoma. Deep Dust 2.0 focused specifically on honing the European target. The Anadarko Basin (Oklahoma) and Paris Basin (France) represent the most promising initial targets to capture complete or near-complete stratigraphic coverage through continental successions that serve as reference points for western and eastern equatorial Pangaea.
    Language: English
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  • 6
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    Ensemble modelling of carbon fluxes in grasslands and croplands (2020)
    In:  Field Crops Research
    Details
    Publication Date: 2022-03-21
    Description: Croplands and grasslands are agricultural systems that contribute to land–atmosphere exchanges of carbon (C). We evaluated and compared gross primary production (GPP), ecosystem respiration (RECO), net ecosystem exchange (NEE) of CO2, and two derived outputs - C use efficiency (CUE=-NEE/GPP) and C emission intensity (IntC= -NEE/Offtake [grazed or harvested biomass]). The outputs came from 23 models (11 crop-specific, eight grassland-specific, and four models covering both systems) at three cropping sites over several rotations with spring and winter cereals, soybean and rapeseed in Canada, France and India, and two temperate permanent grasslands in France and the United Kingdom. The models were run independently over multi-year simulation periods in five stages (S), either blind with no calibration and initialization data (S1), using historical management and climate for initialization (S2), calibrated against plant data (S3), plant and soil data together (S4), or with the addition of C and N fluxes (S5). Here, we provide a framework to address methodological uncertainties and contextualize results. Most of the models overestimated or underestimated the C fluxes observed during the growing seasons (or the whole years for grasslands), with substantial differences between models. For each simulated variable, changes in the multi-model median (MMM) from S1 to S5 was used as a descriptor of the ensemble performance. Overall, the greatest improvements (MMM approaching the mean of observations) were achieved at S3 or higher calibration stages. For instance, grassland GPP MMM was equal to 1632 g C m−2 yr-1 (S5) while the observed mean was equal to 1763 m-2 yr-1 (average for two sites). Nash-Sutcliffe modelling efficiency coefficients indicated that MMM outperformed individual models in 92.3 % of cases. Our study suggests a cautious use of large-scale, multi-model ensembles to estimate C fluxes in agricultural sites if some site-specific plant and soil observations are available for model calibration. The further development of crop/grassland ensemble modelling will hinge upon the interpretation of results in light of the way models represent the processes underlying C fluxes in complex agricultural systems (grassland and crop rotations including fallow periods).
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  • 7
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    OPENMODS 2.0 “Instrument Jamming Meeting” report (2020)
    In:  EPIC320 p.
    Details
    Publication Date: 2022-04-06
    Description: Major achievements The feedback provided by potential users on their needs was very much appreciated. They underlined the importance of having: ● an easy to deploy instrument (i.e.: from small fishing boats); ● multi-parameter sensors in ONE device; ● less maintenance effort and prioritized the variables to measure. Although, there are technical limitations and different solutions and there is no one tool that can do everything, which is low cost, has high resolution and low maintenance, the outcomes of the platforms/sensors/communications working group meet the main requirements that emerged. Priority was given to: ● a platform that will operate in drifter mode which is extremely easy to deploy and perfect for studies associated with search and rescue operations (another need that has emerged). It also constantly guarantees the knowledge of the instrument position. The platform can be easily converted into the moored mode. ● temperature and pressure sensors. The sensors will be low -cost with the idea to replace them rather than calibrate them; ● LoRaWAN communications preferably with Bluetooth integration for the in-situ download of the data.
    Repository Name: EPIC Alfred Wegener Institut
    Type: Miscellaneous , notRev
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  • 8
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    Representing the function and sensitivity of coastal interfaces in earth system models (2020)
    Nature Research
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    Publication Date: 2022-05-25
    Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Ward, N. D., Megonigal, J. P., Bond-Lamberty, B., Bailey, V. L., Butman, D., Canuel, E. A., Diefenderfer, H., Ganju, N. K., Goni, M. A., Graham, E. B., Hopkinson, C. S., Khangaonkar, T., Langley, J. A., McDowell, N. G., Myers-Pigg, A. N., Neumann, R. B., Osburn, C. L., Price, R. M., Rowland, J., Sengupta, A., Simard, M., Thornton, P. E., Tzortziou, M., Vargas, R., Weisenhorn, P. B., & Windham-Myers, L. Representing the function and sensitivity of coastal interfaces in earth system models. Nature Communications, 11(1), (2020): 2458, doi:10.1038/s41467-020-16236-2.
    Description: Between the land and ocean, diverse coastal ecosystems transform, store, and transport material. Across these interfaces, the dynamic exchange of energy and matter is driven by hydrological and hydrodynamic processes such as river and groundwater discharge, tides, waves, and storms. These dynamics regulate ecosystem functions and Earth’s climate, yet global models lack representation of coastal processes and related feedbacks, impeding their predictions of coastal and global responses to change. Here, we assess existing coastal monitoring networks and regional models, existing challenges in these efforts, and recommend a path towards development of global models that more robustly reflect the coastal interface.
    Description: Funding for this work was provided by Pacific Northwest National Laboratory (PNNL) Laboratory Directed Research & Development (LDRD) as part of the Predicting Ecosystem Resilience through Multiscale Integrative Science (PREMIS) Initiative. PNNL is operated by Battelle for the U.S. Department of Energy under Contract DE-AC05-76RL01830. Additional support to J.P.M. was provided by the NSF-LTREB program (DEB-0950080, DEB-1457100, DEB-1557009), DOE-TES Program (DE-SC0008339), and the Smithsonian Institution. This manuscript was motivated by discussions held by co-authors during a three-day workshop at PNNL in Richland, WA: The System for Terrestrial Aquatic Research (STAR) Workshop: Terrestrial-Aquatic Research in Coastal Systems. The authors thank PNNL artist Nathan Johnson for preparing the figures in this manuscript and Terry Clark, Dr. Charlette Geffen, and Dr. Nancy Hess for their aid in organizing the STAR workshop. The authors thank all workshop participants not listed as authors for their valuable insight: Lihini Aluwihare (contributed to biogeochemistry discussions and development of concept for Fig. 3), Gautam Bisht (contributed to modeling discussion), Emmett Duffy (contributed to observational network discussions), Yilin Fang (contributed to modeling discussion), Jeremy Jones (contributed to biogeochemistry discussions), Roser Matamala (contributed to biogeochemistry discussions), James Morris (contributed to biogeochemistry discussions), Robert Twilley (contributed to biogeochemistry discussions), and Jesse Vance (contributed to observational network discussions). A full report on the workshop discussions can be found at https://www.pnnl.gov/publications/star-workshop-terrestrial-aquatic-research-coastal-systems.
    Repository Name: Woods Hole Open Access Server
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  • 9
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    C-14 Blank Corrections for 25-100 mu G samples at the National Ocean Sciences AMS Laboratory (2020)
    Cambridge University Press
    Details
    Publication Date: 2022-10-26
    Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Roberts, Mark L., Elder, Kathryn L., Jenkins, William J., Gagnon, Alan R., Xu, Li, Hlavenka, Joshua D., & Longworth, Brett E. C-14 Blank Corrections for 25-100 mu G samples at the National Ocean Sciences AMS Laboratory. Radiocarbon, 61(5), (2019): 1403-1411, Doi: 10.1017/RDC.2019.74.
    Description: Replicate radiocarbon (14C) measurements of organic and inorganic control samples, with known Fraction Modern values in the range Fm = 0–1.5 and mass range 6 μg–2 mg carbon, are used to determine both the mass and radiocarbon content of the blank carbon introduced during sample processing and measurement in our laboratory. These data are used to model, separately for organic and inorganic samples, the blank contribution and subsequently “blank correct” measured unknowns in the mass range 25–100 μg. Data, formulas, and an assessment of the precision and accuracy of the blank correction are presented.
    Description: This work is supported by a Cooperative Agreement (OCE-1755125) with the U.S. National Science Foundation.
    Keywords: AMS ; AMS dating ; Blank corrections
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  • 10
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    Scientific challenges and present capabilities in underwater robotic vehicle design and navigation for oceanographic exploration under-ice (2020)
    MDPI
    Details
    Publication Date: 2022-10-20
    Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Barker, L. D. L., Jakuba, M., V., Bowen, A. D., German, C. R., Maksym, T., Mayer, L., Boetius, A., Dutrieux, P., & Whitcomb, L. L. Scientific challenges and present capabilities in underwater robotic vehicle design and navigation for oceanographic exploration under-ice. Remote Sensing, 12(16), (2020): 2588, doi:10.3390/rs12162588.
    Description: This paper reviews the scientific motivation and challenges, development, and use of underwater robotic vehicles designed for use in ice-covered waters, with special attention paid to the navigation systems employed for under-ice deployments. Scientific needs for routine access under fixed and moving ice by underwater robotic vehicles are reviewed in the contexts of geology and geophysics, biology, sea ice and climate, ice shelves, and seafloor mapping. The challenges of under-ice vehicle design and navigation are summarized. The paper reviews all known under-ice robotic vehicles and their associated navigation systems, categorizing them by vehicle type (tethered, untethered, hybrid, and glider) and by the type of ice they were designed for (fixed glacial or sea ice and moving sea ice).
    Description: Barker and Whitcomb gratefully acknowledge the support of the National Science Foundation under Award 1319667 and 1909182, and support of the first author under a Graduate Fellowship from the Johns Hopkins Department of Mechanical Engineering. Jakuba, Bowen, and German gratefully acknowledge the support of the National Aeronautics and Space Administration under Planetary Science and Technology through Analog Research (PSTAR) award NNX16AL04G. Maksym was supported by National Science Foundation Award CMMI-1839063. Dutrieux was supported by his Center for Climate and Life Fellowship from the Earth Institute of Columbia University. Boetius acknowledges funding from the Helmholtz Association for the FRAM infrastructure, and from her ERC Adv. Grant ABYSS (294757). Mayer’s work is supported by NOAA Grant NA15NOS4000200.
    Keywords: Underwater robotic vehicles ; Under-ice navigation ; Tethered vehicles ; Hybrid vehicles ; Gliders ; Ocean science ; Ocean exploration
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