ALBERT

Description: Dinoflagellates are microbial eukaryotes that have exceptionally large nuclear genomes; however, their organelle genomes are small and fragmented and contain fewer genes than those of other eukaryotes. The genus Amoebophrya (Syndiniales) comprises endoparasites with high genetic diversity that can infect other dinoflagellates, such as those forming harmful algal blooms (e.g., Alexandrium). We sequenced the genome (~100 Mb) of Amoebophrya ceratii to investigate the early evolution of genomic characters in dinoflagellates. The A. ceratii genome encodes almost all essential biosynthetic pathways for self-sustaining cellular metabolism, suggesting a limited dependency on its host. Although dinoflagellates are thought to have descended from a photosynthetic ancestor, A. ceratii appears to have completely lost its plastid and nearly all genes of plastid origin. Functional mitochondria persist in all life stages of A. ceratii, but we found no evidence for the presence of a mitochondrial genome. Instead, all mitochondrial proteins appear to be lost or encoded in the A. ceratii nucleus.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Frontiers in Microbiology 10 (2019): 115, doi:10.3389/fmicb.2019.00115.

Description: This Research Topic was supported by the National Key Research and Development Program of China grant 2016YFA0601303, China Ocean Mineral Resources R&D Association grant DY135-E2-1-04, China SOA grant GASI-03-01-02-05, NSFC grants 41676122, 91328209, and 91428308, and CNOOC grant CNOOC-KJ125FZDXM00TJ001-2014.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Wurch, L. L., Alexander, H., Frischkorn, K. R., Haley, S. T., Gobler, C. J., & Dyhrman, S. T. Transcriptional shifts highlight the role of nutrients in harmful brown tide dynamics. Frontiers in Microbiology, 10, (2019):136, doi:10.3389/fmicb.2019.00136.

Description: Harmful algal blooms (HABs) threaten ecosystems and human health worldwide. Controlling nitrogen inputs to coastal waters is a common HAB management strategy, as nutrient concentrations often suggest coastal blooms are nitrogen-limited. However, defining best nutrient management practices is a long-standing challenge: in part, because of difficulties in directly tracking the nutritional physiology of harmful species in mixed communities. Using metatranscriptome sequencing and incubation experiments, we addressed this challenge by assaying the in situ physiological ecology of the ecosystem destructive alga, Aureococcus anophagefferens. Here we show that gene markers of phosphorus deficiency were expressed in situ, and modulated by the enrichment of phosphorus, which was consistent with the observed growth rate responses. These data demonstrate the importance of phosphorus in controlling brown-tide dynamics, suggesting that phosphorus, in addition to nitrogen, should be evaluated in the management and mitigation of these blooms. Given that nutrient concentrations alone were suggestive of a nitrogen-limited ecosystem, this study underscores the value of directly assaying harmful algae in situ for the development of management strategies.

Description: This research was funded by NOAA Grant NA15NOS4780199 (SD), NA09NOA4780206 (SD and CG), and NA15NOS4780183 (CG) through the ECOHAB Program, publication number ECO929. Partial support was also provided by the World Surf League through the Columbia Center for Climate and Life, the Woods Hole Oceanographic Institution Coastal Ocean Institute, and the Link Foundation. Kyle Frischkorn was funded under a National Science Foundation Graduate Research Fellowship.

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published invan der Hoop, J. M., Fahlman, A., Shorter, K. A., Gabaldon, J., Rocho-Levine, J., Petrov, V., & Moore, M. J. Swimming energy economy in bottlenose dolphins under variable drag loading. Frontiers in Marine Science, 5, (2018):465, doi:10.3389/fmars.2018.00465.

Description: Instrumenting animals with tags contributes additional resistive forces (weight, buoyancy, lift, and drag) that may result in increased energetic costs; however, additional metabolic expense can be moderated by adjusting behavior to maintain power output. We sought to increase hydrodynamic drag for near-surface swimming bottlenose dolphins, to investigate the metabolic effect of instrumentation. In this experiment, we investigate whether (1) metabolic rate increases systematically with hydrodynamic drag loading from tags of different sizes or (2) whether tagged individuals modulate speed, swimming distance, and/or fluking motions under increased drag loading. We detected no significant difference in oxygen consumption rates when four male dolphins performed a repeated swimming task, but measured swimming speeds that were 34% (〉1 m s-1) slower in the highest drag condition. To further investigate this observed response, we incrementally decreased and then increased drag in six loading conditions. When drag was reduced, dolphins increased swimming speed (+1.4 m s-1; +45%) and fluking frequency (+0.28 Hz; +16%). As drag was increased, swimming speed (-0.96 m s-1; -23%) and fluking frequency (-14 Hz; 7%) decreased again. Results from computational fluid dynamics simulations indicate that the experimentally observed changes in swimming speed would have maintained the level of external drag forces experienced by the animals. Together, these results indicate that dolphins may adjust swimming speed to modulate the drag force opposing their motion during swimming, adapting their behavior to maintain a level of energy economy during locomotion.

Description: Funding for this project was provided by the National Oceanographic Partnership Program (National Science Foundation via the Office of Naval Research N00014-11-1-0113 to MM) and the Office of Naval Research (ONR YIP Award N000141410563 to AF). Dolphin Quest provided in-kind support of animals, crew, and access to resources. JvdH was supported by a Postgraduate Scholarship from the Natural Sciences and Engineering Research Council of Canada.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Battefeld, A., Popovic, M. A., van der Werf, D., & Kole, M. H. P. (2019). A versatile and open-source rapid LED switching system for one-photon imaging and photo-activation. Frontiers in Cellular Neuroscience, 12, (2019): 530. doi:10.3389/fncel.2018.00530.

Description: Combining fluorescence and transmitted light sources for microscopy is an invaluable method in cellular neuroscience to probe the molecular and cellular mechanisms of cells. This approach enables the targeted recording from fluorescent reporter protein expressing neurons or glial cells in brain slices and fluorescence-assisted electrophysiological recordings from subcellular structures. However, the existing tools to mix multiple light sources in one-photon microscopy are limited. Here, we present the development of several microcontroller devices that provide temporal and intensity control of light emitting diodes (LEDs) for computer controlled microscopy illumination. We interfaced one microcontroller with μManager for rapid and dynamic overlay of transmitted and fluorescent images. Moreover, on the basis of this illumination system we implemented an electronic circuit to combine two pulsed LED light sources for fast (up to 1 kHz) ratiometric calcium (Ca2+) imaging. This microcontroller enabled the calibration of intracellular Ca2+ concentration and furthermore the combination of Ca2+ imaging with optogenetic activation. The devices are based on affordable components and open-source hardware and software. Integration into existing bright-field microscope systems will take ∼1 day. The microcontroller based LED imaging substantially advances conventional illumination methods by limiting light exposure and adding versatility and speed.

Description: This work was supported by grants to MK: European Research Council (FP7/2007-2013)/ERC grant agreement P261114, National Multiple Sclerosis Society grant (RG 4924A1/1) and a NWO-Vici grant 865.17.003. AB received a Grass Fellowship from the Grass Foundation.

Description: Author Posting. © The Author(s), 2018. This is the author's version of the work. It is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences of the United States of America 115(52), (2018): E12275-E12284. doi: 10.1073/pnas.1805243115.

Description: Diatoms are prominent eukaryotic phytoplankton despite being limited by the micronutrient iron in vast expanses of the ocean. As iron inputs are often sporadic, diatoms have evolved mechanisms such as the ability to store iron that enable them to bloom when iron is resupplied and then persist when low iron levels are reinstated. Two iron storage mechanisms have been previously described: the protein ferritin and vacuolar storage. To investigate the ecological role of these mechanisms among diatoms, iron addition and removal incubations were conducted using natural phytoplankton communities from varying iron environments. We show that among the predominant diatoms, Pseudo-nitzschia were favored by iron removal and displayed unique ferritin expression consistent with a long-term storage function. Meanwhile, Chaetoceros and Thalassiosira gene expression aligned with vacuolar storage mechanisms. Pseudo-nitzschia also showed exceptionally high iron storage under steady-state high and low iron conditions, as well as following iron resupply to iron-limited cells. We propose that bloom-forming diatoms use different iron storage mechanisms and that ferritin utilization may provide an advantage in areas of prolonged iron limitation with pulsed iron inputs. As iron distributions and availability change, this speculated ferritin-linked advantage may result in shifts in diatom community composition that can alter marine ecosystems and biogeochemical cycles.

Description: We thank the captain and crew of the R/V Melville and the CCGS J. P. Tully as well as the participants of the IRNBRU (MV1405) cruise for the California-based data, particularly K. Ellis [University of North Carolina (UNC)], T. Coale (University of California, San Diego), F. Kuzminov (Rutgers), H. McNair [University of California, Santa Barbara (UCSB)], and J. Jones (UCSB). W. Burns (UNC), S. Haines (UNC), and S. Bargu (Louisiana State University) assisted with sample processing and analysis. This work was funded by the National Science Foundation Grants OCE-1334935 (to A.M.), OCE-1334632 (to B.S.T.), OCE-1333929 (to K.T.), OCE-1334387 (to M.A.B.), OCE-1259776 (to K.W.B), and DGE-1650116 (Graduate Research Fellowship to R.H.L).

Description: 2019-06-11

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Torres-Beltran, M., Mueller, A., Scofield, M., Pachiadaki, M. G., Taylor, C., Tyshchenko, K., Michiels, C., Lam, P., Ulloa, O., Jurgens, K., Hyun, J., Edgcomb, V. P., Crowe, S. A., & Hallam, S. J. Sampling and processing methods impact microbial community structure and potential activity in a seasonally anoxic fjord: Saanich Inlet, British Columbia. Frontiers in Marine Science, 6,(2019):132, doi:10.3389/fmars.2019.00132.

Description: The Scientific Committee on Oceanographic Research (SCOR) Working Group 144 Microbial Community Responses to Ocean Deoxygenation workshop held in Vancouver, B.C on July 2014 had the primary objective of initiating a process to standardize operating procedures for compatible process rate and multi-omic (DNA, RNA, protein, and metabolite) data collection in marine oxygen minimum zones and other oxygen depleted waters. Workshop attendees participated in practical sampling and experimental activities in Saanich Inlet, British Columbia, a seasonally anoxic fjord. Experiments were designed to compare and cross-calibrate in situ versus bottle sampling methods to determine effects on microbial community structure and potential activity when using different filter combinations, filtration methods, and sample volumes. Resulting biomass was preserved for small subunit ribosomal RNA (SSU or 16S rRNA) and SSU rRNA gene (rDNA) amplicon sequencing followed by downstream statistical and visual analyses. Results from these analyses showed that significant community shifts occurred between in situ versus on ship processed samples. For example, Bacteroidetes, Alphaproteobacteria, and Opisthokonta associated with on-ship filtration onto 0.4 μm filters increased fivefold compared to on-ship in-line 0.22 μm filters or 0.4 μm filters processed and preserved in situ. In contrast, Planctomycetes associated with 0.4 μm in situ filters increased fivefold compared to on-ship filtration onto 0.4 μm filters and on-ship in-line 0.22 μm filters. In addition, candidate divisions and Chloroflexi were primarily recovered when filtered onto 0.4 μm filters in situ. Results based on rRNA:rDNA ratios for microbial indicator groups revealed previously unrecognized roles of candidate divisions, Desulfarculales, and Desulfuromandales in sulfur cycling, carbon fixation and fermentation within anoxic basin waters. Taken together, filter size and in situ versus on-ship filtration had the largest impact on recovery of microbial groups with the potential to influence downstream metabolic reconstruction and process rate measurements. These observations highlight the need for establishing standardized and reproducible techniques that facilitate cross-scale comparisons and more accurately assess in situ activities of microbial communities.

Description: This work was performed under the auspices of the Scientific Committee on Oceanographic Research (SCOR), the United States Department of Energy (DOE) Joint Genome Institute, an Office of Science User Facility, supported by the Office of Science of the United States Department of Energy under Contract DE-AC02- 05CH11231, the G. Unger Vetlesen and Ambrose Monell Foundations, the Tula Foundation-funded Centre for Microbial Diversity and Evolution, the Natural Sciences and Engineering Research Council of Canada, Genome British Columbia, the Canada Foundation for Innovation, and the Canadian Institute for Advanced Research through grants awarded to SH. McLane Research Laboratories and Connie Lovejoy contributed access to instrumentation for field work. Ship time support was provided by NSERC between 2007 and 2014 through grants awarded to SC, SH and Philippe Tortell MT-B was funded by Consejo Nacional de Ciencia y Tecnología (CONACyT) and the Tula Foundation.

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Benson, A., Brooks, C. M., Canonico, G., Duffy, E., Muller-Karger, F., Sosik, H. M., Miloslavich, P., & Klein, E.. Integrated observations and informatics improve understanding of changing marine ecosystems. Frontiers in Marine Science, 5, (2018):428, doi:10.3389/fmars.2018.00428.

Description: Marine ecosystems have numerous benefits for human societies around the world and many policy initiatives now seek to maintain the health of these ecosystems. To enable wise decisions, up to date and accurate information on marine species and the state of the environment they live in is required. Moreover, this information needs to be openly accessible to build indicators and conduct timely assessments that decision makers can use. The questions and problems being addressed demand global-scale investigations, transdisciplinary science, and mechanisms to integrate and distribute data that otherwise would appear to be disparate. Essential Ocean Variables (EOVs) and marine Essential Biodiversity Variables (EBVs), conceptualized by the Global Ocean Observing System (GOOS) and the Marine Biodiversity Observation Network (MBON), respectively, guide observation of the ocean. Additionally, significant progress has been made to coordinate efforts between existing programs, such as the GOOS, MBON, and Ocean Biogeographic Information System collaboration agreement. Globally and nationally relevant indicators and assessments require increased sharing of data and analytical methods, sustained long-term and large-scale observations, and resources to dedicated to these tasks. We propose a vision and key tenets as a guiding framework for building a global integrated system for understanding marine biological diversity and processes to address policy and resource management needs. This framework includes: using EOVs and EBVs and implementing the guiding principles of Findable, Accessible, Interoperable, Reusable (FAIR) data and action ecology. In doing so, we can encourage relevant, rapid, and integrative scientific advancement that can be implemented by decision makers to maintain marine ecosystem health.

Description: We thank T.Malone and A. Knap for the invitation to contribute our ideas to this topic. We also thank the two reviewers and editor for their comments, which strengthened our manuscript.

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Johnson, M. D., Beaudoin, D. J., Frada, M. J., Brownlee, E. F., & Stoecker, D. K. High grazing rates on cryptophyte algae in Chesapeake Bay. Frontiers in Marine Science, 5, (2018): 241. doi:10.3389/fmars.2018.00241.

Description: Cryptophyte algae are globally distributed photosynthetic flagellates found in freshwater, estuarine, and neritic ecosystems. While cryptophytes can be highly abundant and are consumed by a wide variety of protistan predators, few studies have sought to quantify in situ grazing rates on their populations. Here we show that autumnal grazing rates on in situ communities of cryptophyte algae in Chesapeake Bay are high throughout the system, while growth rates, particularly in the lower bay, were low. Analysis of the genetic diversity of cryptophyte populations within dilution experiments suggests that microzooplankton may be selectively grazing the fastest-growing members of the population, which were generally Teleaulax spp. We also demonstrate that potential grazing rates of ciliates and dinoflagellates on fluorescently labeled (FL) Rhodomonas salina, Storeatula major, and Teleaulax amphioxeia can be high (up to 149 prey predator−1 d−1), and that a Gyrodinium sp. and Mesodinium rubrum could be selective grazers. Potential grazing was highest for heterotrophic dinoflagellates, but due to its abundance, M. rubrum also had a high overall impact. This study reveals that cryptophyte algae in Chesapeake Bay can experience extremely high grazing pressure from phagotrophic protists, and that this grazing likely shapes their community diversity.

Description: The authors thank the National Science Foundation (OCE 1031718 and 1436169) for providing support for this research.

Description: The Protocol on Environmental Protection of the Antarctic Treaty stipulates that the protection of the Antarctic environment and associated ecosystems be fundamentally considered in the planning and conducting of all activities in the Antarctic Treaty area. One of the key pollutants created by human activities in the Antarctic is noise, which is primarily caused by ship traffic (from tourism, fisheries, and research), but also by geophysical research (e.g., seismic surveys) and by research station support activities (including construction). Arguably, amongst the species most vulnerable to noise are marine mammals since they specialize in using sound for communication, navigation and foraging, and therefore have evolved the highest auditory sensitivity among marine organisms. Reported effects of noise on marine mammals in lower-latitude oceans include stress, behavioral changes such as avoidance, auditory masking, hearing threshold shifts, and—in extreme cases—death. Eight mysticete species, 10 odontocete species, and six pinniped species occur south of 60�S (i.e., in the Southern or Antarctic Ocean). For many of these, the Southern Ocean is a key area for foraging and reproduction. Yet, little is known about how these species are affected by noise. We review the current prevalence of anthropogenic noise and the distribution of marine mammals in the Southern Ocean, and the current research gaps that prevent us from accurately assessing noise impacts on Antarctic marine mammals. A questionnaire given to 29 international experts on marine mammals revealed a variety of research needs. Those that received the highest rankings were (1) improved data on abundance and distribution of Antarctic marine mammals, (2) hearing data for Antarctic marine mammals, in particular a mysticete audiogram, and (3) an assessment of the effectiveness of various noise mitigation options. The management need with the highest score was a refinement of noise exposure criteria. Environmental evaluations are a requirement before conducting activities in the Antarctic. Because of a lack of scientific data on impacts, requirements and noise thresholds often vary between countries that conduct these evaluations, leading to different standards across countries. Addressing the identified research needs will help to implement informed and reasonable thresholds for noise production in the Antarctic and help to protect the Antarctic environment.

Description: The last extended time period when climate may have been warmer than today was during the Last Interglacial (LIG; ca. 129 to 120 thousand years ago). However, a global view of LIG precipitation is lacking. Here, seven new LIG climate models are compared to the first global database of proxies for LIG precipitation. In this way, models are assessed in their ability to capture important hydroclimatic processes during a different climate. The models can reproduce the proxy-based positive precipitation anomalies from the preindustrial period over much of the boreal continents. Over the Southern Hemisphere, proxy-model agreement is partial. In models, LIG boreal monsoons have 42% wider area than in the preindustrial and produce 55% more precipitation and 50% more extreme precipitation. Austral monsoons are weaker. The mechanisms behind these changes are consistent with stronger summer radiative forcing over boreal high latitudes and with the associated higher temperatures during the LIG.

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Braun, C. D., Skomal, G. B., & Thorrold, S. R. (2018). Integrating archival tag data and a high-resolution oceanographic model to estimate basking shark (Cetorhinus maximus) movements in the western Atlantic. Frontiers in Marine Science, 5, (2018):25, doi:10.3389/fmars.2018.00025.

Description: Basking shark (Cetorhinus maximus) populations are considered “vulnerable” globally and “endangered” in the northeast Atlantic by the International Union for the Conservation of Nature (IUCN). Much of our knowledge of this species comes from surface observations in coastal waters, yet recent evidence suggests the majority of their lives may be spent in the deep ocean. Depth preferences of basking sharks have significantly limited movement studies that used pop-up satellite archival transmitting (PSAT) tags as conventional light-based geolocation is impossible for tagged animals that spend significant time below the photic zone. We tagged 57 basking sharks with PSAT tags in the NW Atlantic from 2004 to 2011. Many individuals spent several months at meso- and bathy-pelagic depths where accurate light-level geolocation was impossible during fall, winter and spring. We applied a newly-developed geolocation approach for the PSAT data by comparing three-dimensional depth-temperature profile data recorded by the tags to modeled in situ oceanographic data from the high-resolution HYbrid Coordinate Ocean Model (HYCOM). Observation-based likelihoods were leveraged within a state-space hidden Markov model (HMM). The combined tracks revealed that basking sharks moved from waters around Cape Cod, MA to as far as the SE coast of Brazil (20°S), a total distance of over 17,000 km. Moreover, 59% of tagged individuals with sufficient deployment durations (〉250 days) demonstrated seasonal fidelity to Cape Cod and the Gulf of Maine, with one individual returning to within 60 km of its tagging location 1 year later. Tagged sharks spent most of their time at epipelagic depths during summer months around Cape Cod and in the Gulf of Maine. During winter months, sharks spent extended periods at depths of at least 600 m while moving south to the Sargasso Sea, the Caribbean Sea, or the western tropical Atlantic. Our work demonstrates the utility of applying advances in oceanographic modeling to understanding habitat use of highly migratory, often meso- and bathy-pelagic, ocean megafauna. The large-scale movement patterns of tagged sharks highlight the need for international cooperation when designing and implementing conservation strategies to ensure that the species recovers from the historical effects of over-fishing throughout the North Atlantic Ocean.

Description: We thank B. Galuardi and C. H. Lam for contributing analysis code, and H. Dewar, U. Thygesen and I. Jonsen for valuable feedback on the manuscript. We gratefully acknowledge funding from the US National Science Foundation (OCE 0825148), the National Aeronautics and Space Administration (NNS06AA96G), the Massachusetts Environmental Trust, and the Federal Aid in Sport Fish Restoration Program. Computational support was provided by the AWS Cloud Credits for Research program. CB was funded by the Martin Family Society of Fellows for Sustainability Fellowship at the Massachusetts Institute of Technology, the Grassle Fellowship and Ocean Venture Fund at the Woods Hole Oceanographic Institution, and the NASA Earth and Space Science Fellowship. Funding for the development of HYCOM has been provided by the National Ocean Partnership Program and the Office of Naval Research. Data assimilative products using HYCOM are funded by the U.S. Navy. Computer time for HYCOM was made available by the DoD High Performance Computing Modernization Program.

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in DeCarlo, T. M., Hen, H., & Farfan, G. A. (2018). The origin and role of organic matrix in coral calcification: Insights from comparing coral skeleton and abiogenic aragonite. Frontiers in Marine Science, 5, (2018): 170. doi:10.3389/fmars.2018.00170.

Description: Understanding the mechanisms of coral calcification is critical for accurately projecting coral reef futures under ocean acidification and warming. Recent suggestions that calcification is primarily controlled by organic molecules and the biological activity of the coral polyp imply that ocean acidification may not affect skeletal accretion. The basis for these suggestions relies heavily on correlating the presence of organic matter with the orientation and disorder of aragonite crystals in the skeleton, carrying the assumption that organic matter observed in the skeleton was produced by the polyp to control calcification. Here we use Raman spectroscopy to test whether there are differences in organic matter content between coral skeleton and abiogenic aragonites precipitated from seawater, both before and after thermal annealing (heating). We measured the background fluxorescence and intensity of C-H bonding signals in the Raman spectra, which are commonly attributed to coral polyp-derived skeletal organic matrix (SOM) and have been used to map its distribution. Surprisingly, we found no differences in either fluorescence or C-H bonding between abiogenic aragonite and coral skeleton. Annealing reduced the molecular disorder in coral skeleton, potentially due to removal of organic matter, but the same effect was also observed in the abiogenic aragonites. The presence of organic molecules in the abiogenic aragonites is further supported by measurements of N content and δ15N. Together, our data suggest that some of what has been interpreted in previous studies as polyp-derived SOM may actually be seawater-sourced organic matter or some other signal not unique to biogenic aragonite. Finally, we create a high-resolution Raman map of a Pocillopora skeleton to demonstrate how patterns of fluorescence and elevated calcifying fluid aragonite saturation state (ΩAr) along centers of calcification are consistent with both biological and physico-chemical controls. Our aim is to advance discussion on biological mediation of calcification and the implications for coral resilience in a high-CO2 world.

Description: This study was supported by an ARC Laureate Fellowship (FL120100049) awarded to Professor Malcolm McCulloch and the ARC Centre of Excellence for Coral Reef Studies (CE140100020).

Description: © The Author(s), 2018. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Bundy, R. M., Boiteau, R. M., McLean, C., Turk-Kubo, K. A., Mcllvin, M. R., Saito, M. A., Van Mooy, B. A. S., & Repeta, D. J.. Distinct siderophores contribute to iron cycling in the mesopelagic at station ALOHA. Frontiers in Marine Science, 5, (2018): 61. doi:10.3389/fmars.2018.00061.

Description: The distribution of dissolved iron (Fe), total organic Fe-binding ligands, and siderophores were measured between the surface and 400 m at Station ALOHA, a long term ecological study site in the North Pacific Subtropical Gyre. Dissolved Fe concentrations were low throughout the water column and strong organic Fe-binding ligands exceeded dissolved Fe at all depths; varying from 0.9 nmol L−1 in the surface to 1.6 nmol L−1 below 150 m. Although Fe does not appear to limit microbial production, we nevertheless found siderophores at nearly all depths, indicating some populations of microbes were responding to Fe stress. Ferrioxamine siderophores were most abundant in the upper water column, with concentrations between 0.1 and 2 pmol L−1, while a suite of amphibactins were found below 200 m with concentrations between 0.8 and 11 pmol L−1. The distinct vertical distribution of ferrioxamines and amphibactins may indicate disparate strategies for acquiring Fe from dust in the upper water column and recycled organic matter in the lower water column. Amphibactins were found to have conditional stability constants (log KcondFeL1,Fe′) ranging from 12.0 to 12.5, while ferrioxamines had much stronger conditional stability constants ranging from 14.0 to 14.4, within the range of observed L1 ligands by voltammetry. We used our data to calculate equilibrium Fe speciation at Station ALOHA to compare the relative concentration of inorganic and siderophore complexed Fe. The results indicate that the concentration of Fe bound to siderophores was up to two orders of magnitude higher than inorganic Fe, suggesting that even if less bioavailable, siderophores were nevertheless a viable pathway for Fe acquisition by microbes at our study site. Finally, we observed rapid production of ferrioxamine E by particle-associated bacteria during incubation of freshly collected sinking organic matter. Fe-limitation may therefore be a factor in regulating carbon metabolism and nutrient regeneration in the mesopelagic.

Description: We thank Chief Scientists Tara Clemente and Sam Wilson for leading the SCOPE Diel cruises. We also thank the Captain and crew of the R/V Ka'imikai-O-Kanaloa, as well as Paul Henderson in the Woods Hole Oceanographic Nutrient Analytical Facility for nutrient analyses. This work was funded by the Woods Hole Oceanographic Postdoctoral Fellowship for RaB, the Simons Foundation (Award 329108), and the National Science Foundation (OCE-1356747). We also thank two reviewers for helpful comments on the manuscript.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Rodriguez, E., Bourassa, M., Chelton, D., Farrar, J. T., Long, D., Perkovic-Martin, D., & Samelson, R. The winds and currents mission concept. Frontiers in Marine Science, 6, (2019): 438, doi:10.3389/fmars.2019.00438.

Description: The Winds and Currents Mission (WaCM) is a proposed approach to meet the need identified by the NRC Decadal Survey for the simultaneous measurements of ocean vector winds and currents. WaCM features a Ka-band pencil-beam Doppler scatterometer able to map ocean winds and currents globally. We review the principles behind the WaCM measurement and the requirements driving the mission. We then present an overview of the WaCM observatory and tie its capabilities to other OceanObs reviews and measurement approaches.

Description: ER was funded under NASA grant NNN13D462T. DC was funded under NASA grant NNX10AO98G. JF was funded under NASA grants NNX14AM71G and NNX16AH76G. DL was funded under NASA grant NNX14AM67G. DP-M was funded under NASA grant NNH13ZDA001N. RS was funded under NASA grant NNX14AM66G.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Szuts, Z. B., Bower, A. S., Donohue, K. A., Girton, J. B., Hummon, J. M., Katsumata, K., Lumpkin, R., Ortner, P. B., Phillips, H. E., Rossby, H. T., Shay, L. K., Sun, C., & Todd, R. E. The scientific and societal uses of global measurements of subsurface velocity. Frontiers in Marine Science, 6, (2019): 358, doi:10.3389/fmars.2019.00358.

Description: Ocean velocity defines ocean circulation, yet the available observations of subsurface velocity are under-utilized by society. The first step to address these concerns is to improve visibility of and access to existing measurements, which include acoustic sampling from ships, subsurface float drifts, and measurements from autonomous vehicles. While multiple programs provide data publicly, the present difficulty in finding, understanding, and using these data hinder broader use by managers, the public, and other scientists. Creating links from centralized national archives to project specific websites is an easy but important way to improve data discoverability and access. A further step is to archive data in centralized databases, which increases usage by providing a common framework for disparate measurements. This requires consistent data standards and processing protocols for all types of velocity measurements. Central dissemination will also simplify the creation of derived products tailored to end user goals. Eventually, this common framework will aid managers and scientists in identifying regions that need more sampling and in identifying methods to fulfill those demands. Existing technologies are capable of improving spatial and temporal sampling, such as using ships of opportunity or from autonomous platforms like gliders, profiling floats, or Lagrangian floats. Future technological advances are needed to fill sampling gaps and increase data coverage.

Description: This work was supported by the National Science Foundation, United States, Grant Numbers 1356383 to ZBS, OCE 1756361 to ASB at the Woods Hole Oceanographic Institution, and 1536851 to KAD and HTR; the National Oceanographic and Atmospheric Administration, United States, Ocean Observations and Monitoring Division and Atlantic Oceanographic and Meteorological Laboratory to RL; Royal Caribbean Cruise Ltd., to PBO; the Australian Government Department of the Environment and Energy National Environmental Science Programme and Australian Research Council Centre of Excellence for Climate Extremes to HEP; and the Gulf of Mexico Research Initiative Grant V-487 to LS.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Sloyan, B. M., Wilkin, J., Hill, K. L., Chidichimo, M. P., Cronin, M. F., Johannessen, J. A., Karstensen, J., Krug, M., Lee, T., Oka, E., Palmer, M. D., Rabe, B., Speich, S., von Schuckmann, K., Weller, R. A., & Yu, W. Evolving the physical global ocean observing system for research and application services through international coordination. Frontiers in Marine Science, 6, (2019): 449, doi:10.3389/fmars.2019.00449.

Description: Climate change and variability are major societal challenges, and the ocean is an integral part of this complex and variable system. Key to the understanding of the ocean’s role in the Earth’s climate system is the study of ocean and sea-ice physical processes, including its interactions with the atmosphere, cryosphere, land, and biosphere. These processes include those linked to ocean circulation; the storage and redistribution of heat, carbon, salt and other water properties; and air-sea exchanges of heat, momentum, freshwater, carbon, and other gasses. Measurements of ocean physics variables are fundamental to reliable earth prediction systems for a range of applications and users. In addition, knowledge of the physical environment is fundamental to growing understanding of the ocean’s biogeochemistry and biological/ecosystem variability and function. Through the progress from OceanObs’99 to OceanObs’09, the ocean observing system has evolved from a platform centric perspective to an integrated observing system. The challenge now is for the observing system to evolve to respond to an increasingly diverse end user group. The Ocean Observations Physics and Climate panel (OOPC), formed in 1995, has undertaken many activities that led to observing system-related agreements. Here, OOPC will explore the opportunities and challenges for the development of a fit-for-purpose, sustained and prioritized ocean observing system, focusing on physical variables that maximize support for fundamental research, climate monitoring, forecasting on different timescales, and society. OOPC recommendations are guided by the Framework for Ocean Observing which emphasizes identifying user requirements by considering time and space scales of the Essential Ocean Variables. This approach provides a framework for reviewing the adequacy of the observing system, looking for synergies in delivering an integrated observing system for a range of applications and focusing innovation in areas where existing technologies do not meet these requirements.

Description: BS received support from the Centre for Southern Hemisphere Oceans Research, a collaboration between the CSIRO and the Qingdao National Laboratory for Marine Science and Technology and the Australian Government Department of the Environment and CSIRO through the Australian Climate Change Science Programme and by the National Environmental Science Program. JK was supported by the European Union’s Horizon 2020 Research and Innovation Programme under the grant agreement no. 633211 (AtlantOS). MP was supported by the Met Office Hadley Centre Climate Programme funded by the BEIS and Defra. SS was supported by the Ecole Normale Supérieure, CNRS, and Ifremer funded by the European Union’s Horizon 2020 Research and Innovation Programme under the grant agreement no. 633211 (AtlantOS), CNES, and ANR grants.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Domingues, R., Kuwano-Yoshida, A., Chardon-Maldonado, P., Todd, R. E., Halliwell, G., Kim, H., Lin, I., Sato, K., Narazaki, T., Shay, L. K., Miles, T., Glenn, S., Zhang, J. A., Jayne, S. R., Centurioni, L., Le Henaff, M., Foltz, G. R., Bringas, F., Ali, M. M., DiMarco, S. F., Hosoda, S., Fukuoka, T., LaCour, B., Mehra, A., Sanabia, E. R., Gyakum, J. R., Dong, J., Knaff, J. A., & Goni, G. Ocean observations in support of studies and forecasts of tropical and extratropical cyclones. Frontiers in Marine Science, 6, (2019): 446, doi:10.3389/fmars.2019.00446.

Description: Over the past decade, measurements from the climate-oriented ocean observing system have been key to advancing the understanding of extreme weather events that originate and intensify over the ocean, such as tropical cyclones (TCs) and extratropical bomb cyclones (ECs). In order to foster further advancements to predict and better understand these extreme weather events, a need for a dedicated observing system component specifically to support studies and forecasts of TCs and ECs has been identified, but such a system has not yet been implemented. New technologies, pilot networks, targeted deployments of instruments, and state-of-the art coupled numerical models have enabled advances in research and forecast capabilities and illustrate a potential framework for future development. Here, applications and key results made possible by the different ocean observing efforts in support of studies and forecasts of TCs and ECs, as well as recent advances in observing technologies and strategies are reviewed. Then a vision and specific recommendations for the next decade are discussed.

Description: This study was supported by the National Oceanic and Atmospheric Administration and JSPS KAKENHI (Grant Numbers: JP17K19093, JP16K12591, and JP16H01846).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Proceedings of the National Academy of Sciences.of the United States of America 116(36), (2019): 17666-17672. doi:10.1073/pnas.1907871116.

Description: The conditions of methane (CH4) formation in olivine-hosted secondary fluid inclusions and their prevalence in peridotite and gabbroic rocks from a wide range of geological settings were assessed using confocal Raman spectroscopy, optical and scanning electron microscopy, electron microprobe analysis, and thermodynamic modeling. Detailed examination of 160 samples from ultraslow- to fast-spreading midocean ridges, subduction zones, and ophiolites revealed that hydrogen (H2) and CH4 formation linked to serpentinization within olivine-hosted secondary fluid inclusions is a widespread process. Fluid inclusion contents are dominated by serpentine, brucite, and magnetite, as well as CH4(g) and H2(g) in varying proportions, consistent with serpentinization under strongly reducing, closed-system conditions. Thermodynamic constraints indicate that aqueous fluids entering the upper mantle or lower oceanic crust are trapped in olivine as secondary fluid inclusions at temperatures higher than ∼400 °C. When temperatures decrease below ∼340 °C, serpentinization of olivine lining the walls of the fluid inclusions leads to a near-quantitative consumption of trapped liquid H2O. The generation of molecular H2 through precipitation of Fe(III)-rich daughter minerals results in conditions that are conducive to the reduction of inorganic carbon and the formation of CH4. Once formed, CH4(g) and H2(g) can be stored over geological timescales until extracted by dissolution or fracturing of the olivine host. Fluid inclusions represent a widespread and significant source of abiotic CH4 and H2 in submarine and subaerial vent systems on Earth, and possibly elsewhere in the solar system.

Description: We are indebted to J. Eckert for his support with FE-EMPA; to K. Aquinho and E. Codillo for providing samples from Zambales; to K. Aquinho for Raman analysis of some of the samples from Zambales and Mt. Dent; to H. Dick for providing access to his thin section collection; to the curators of the IODP core repositories for providing access to Ocean Drilling Program (ODP) and Integrated Ocean Drilling Program (IODP) samples; and to the captains and crews of the many cruises without whom the collection of these samples would not have been possible. Reviews by Peter Kelemen and an anonymous referee greatly improved this manuscript. This study is supported with funds provided by the National Science Foundation (NSF-OCE Award 1634032 to F.K. and J.S.S.).

Description: 2020-02-19

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Weller, R. A., Baker, D. J., Glackin, M. M., Roberts, S. J., Schmitt, R. W., Twigg, E. S., & Vimont, D. J. The challenge of sustaining ocean observations. Frontiers in Marine Science, 6, (2019):105, doi:10.3389/fmars.2019.00105.

Description: Sustained ocean observations benefit many users and societal goals but could benefit many more. Such information is critical for using ocean resources responsibly and sustainably as the ocean becomes increasingly important to society. The contributions of many nations cooperating to develop the Global Ocean Observing System has resulted in a strong base of global and regional ocean observing networks. However, enhancement of the existing observation system has been constrained by flat funding and limited cooperation among present and potential users. At the same time, a variety of actors are seeking new deployments in remote and newly ice-free regions and new observing capabilities, including biological and biogeochemical sensors. Can these new needs be met? In this paper, a vision for how to sustain ocean observing in the future is presented. A key evolution will be to grow the pool of users, engaging end users across society. Users with shared values need to be brought together with commitment to sustainable use of the ocean in the broadest sense. Present planning for sustained observations builds on the development of the Global Ocean Observing System which has primarily targeted increased scientific understanding of ocean processes and of the ocean's role in climate. We must build on that foundation to develop an Ocean Partnership for Sustained Observing that will incorporate the growing needs of a broad constituency of users beyond climate and make the case for new resources. To be most effective this new Partnership should incorporate the principles of a collective impact organization, enabling closer engagement with the private sector, philanthropies, governments, NGOs, and other groups. Steps toward achieving this new Partnership are outlined in this paper, with the intent of establishing it early in the UN Decade of Ocean Science.

Description: This activity was supported by the National Oceanic and Atmospheric Administration under Award Number WC133R-11-CQ-0048 and the National Academy of Sciences' Arthur L. Day Fund.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Terlouw, G. J., Knor, L. A. C. M., De Carlo, E. H., Drupp, P. S., Mackenzie, F. T., Li, Y. H., Sutton, A. J., Plueddemann, A. J., & Sabine, C. L. Hawaii coastal seawater CO2 network: A statistical evaluation of a decade of observations on tropical coral reefs. Frontiers in Marine Science, 6, (2019):226, doi:10.3389/fmars.2019.00226.

Description: A statistical evaluation of nearly 10 years of high-resolution surface seawater carbon dioxide partial pressure (pCO2) time-series data collected from coastal moorings around O’ahu, Hawai’i suggest that these coral reef ecosystems were largely a net source of CO2 to the atmosphere between 2008 and 2016. The largest air-sea flux (1.24 ± 0.33 mol m−2 yr−1) and the largest variability in seawater pCO2 (950 μatm overall range or 8x the open ocean range) were observed at the CRIMP-2 site, near a shallow barrier coral reef system in Kaneohe Bay O’ahu. Two south shore sites, Kilo Nalu and Ala Wai, also exhibited about twice the surface water pCO2 variability of the open ocean, but had net fluxes that were much closer to the open ocean than the strongly calcifying system at CRIMP-2. All mooring sites showed the opposite seasonal cycle from the atmosphere, with the highest values in the summer and lower values in the winter. Average coastal diurnal variabilities ranged from a high of 192 μatm/day to a low of 32 μatm/day at the CRIMP-2 and Kilo Nalu sites, respectively, which is one to two orders of magnitude greater than observed at the open ocean site. Here we examine the modes and drivers of variability at the different coastal sites. Although daily to seasonal variations in pCO2 and air-sea CO2 fluxes are strongly affected by localized processes, basin-scale climate oscillations also affect the variability on interannual time scales.

Description: We acknowledge with gratitude the financial support of our research provided in part by a grant/cooperative agreement from the National Oceanic and Atmospheric Administration, Project R/IR-27, which is sponsored by the University of Hawaii Sea Grant College Program, SOEST, under Institutional Grant No. NA14OAR4170071 from NOAA Office of Sea Grant, Department of Commerce. Additional support was granted by the NOAA/Ocean Acidification Program (to EDC and AS) and the NOAA/Climate Program Office (AP), and the NOAA Ocean Observing and Monitoring Division, Climate Program Office (FundRef number 100007298) through agreement NA14OAR4320158 of the NOAA Cooperative Institute for the North Atlantic Region (AP). The views expressed herein are those of the author(s) and do not necessarily reflect the views of NOAA or any of its subagencies. This is SOEST contribution number 10684, PMEL contribution number 4845, and Hawai’i Sea Grant contribution UNIHI-SEAGRANT-JC-15-30.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Hein, C. J., Fallon, A. R., Rosen, P., Hoagland, P., Georgiou, I. Y., FitzGerald, D. M., Morris, M., Baker, S., Marino, G. B., & Fitzsimons, G. Shoreline dynamics along a developed river mouth barrier island: Multi-decadal cycles of erosion and event-driven mitigation. Frontiers in Earth Science, 7(103), (2019), doi:10.3389/feart.2019.00103.

Description: Human modifications in response to erosion have altered the natural transport of sediment to and across the coastal zone, thereby potentially exacerbating the impacts of future erosive events. Using a combination of historical shoreline-change mapping, sediment sampling, three-dimensional beach surveys, and hydrodynamic modeling of nearshore and inlet processes, this study explored the feedbacks between periodic coastal erosion patterns and associated mitigation responses, focusing on the open-ocean and inner-inlet beaches of Plum Island and the Merrimack River Inlet, Massachusetts, United States. Installation of river-mouth jetties in the early 20th century stabilized the inlet, allowing residential development in northern Plum Island, but triggering successive, multi-decadal cycles of alternating beach erosion and accretion along the inner-inlet and oceanfront beaches. At a finer spatial scale, the formation and southerly migration of an erosion “hotspot” (a setback of the high-water line by ∼100 m) occurs regularly (every 25–40 years) in response to the refraction of northeast storm waves around the ebb-tidal delta. Growth of the delta progressively shifts the focus of storm wave energy further down-shore, replenishing updrift segments with sand through the detachment, landward migration, and shoreline-welding of swash bars. Monitoring recent hotspot migration (2008–2014) demonstrates erosion (〉30,000 m3 of sand) along a 350-m section of beach in 6 months, followed by recovery, as the hotspot migrated further south. In response to these erosion cycles, local residents and governmental agencies attempted to protect shorefront properties with a variety of soft and hard structures. The latter have provided protection to some homes, but enhanced erosion elsewhere. Although the local community is in broad agreement about the need to plan for long-term coastal changes associated with sea-level rise and increased storminess, real-time responses have involved reactions mainly to short-term (〈5 years) erosion threats. A collective consensus for sustainable management of this area is lacking and the development of a longer-term adaptive perspective needed for proper planning has been elusive. With a deepening understanding of multi-decadal coastal dynamics, including a characterization of the relative contributions of both nature and humans, we can be more optimistic that adaptations beyond mere reactions to shoreline change are achievable.

Description: This work was supported financially by the National Science Foundation (NSF) Coastal SEES program (awards OCE 1325430 and OCE 1325366). PH also received partial support through the NSF Coupled Natural-Human Systems program (award AGS 1518503) and the Northeast Regional Sea Grant and Woods Hole Sea Grant Programs (NOAA Cooperative Agreement award NA14OAR4170074).

Description: Author Posting. © The Author(s), 2019. This is the author's version of the work. It is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences of the United States of America 116(20), (2019):9925-9930, doi:10.1073/pnas.1818349116.

Description: Microbial capacity to metabolize arsenic is ancient, arising in response to its pervasive presence in the environment, which was largely in the form of As(III) in the early anoxic ocean. Many biological arsenic transformations are aimed at mitigating toxicity; however, some microorganisms can respire compounds of this redox-sensitive element to reap energetic gains. In several modern anoxic marine systems concentrations of As(V) are higher relative to As(III) than what would be expected from the thermodynamic equilibrium, but the mechanism for this discrepancy has remained unknown. Here we present evidence of a complete respiratory arsenic cycle, consisting of dissimilatory As(V) reduction and chemoautotrophic As(III) oxidation, in the pelagic ocean. We identified the presence of genes encoding both subunits of the respiratory arsenite oxidase AioA and the dissimilatory arsenate reductase ArrA in the Eastern Tropical North Pacific (ETNP) oxygen-deficient zone (ODZ). The presence of the dissimilatory arsenate reductase gene arrA was enriched on large particles (〉30 um), similar to the forward bacterial dsrA gene of sulfate-reducing bacteria, which is involved in the cryptic cycling of sulfur in ODZs. Arsenic respiratory genes were expressed in metatranscriptomic libraries from the ETNP and the Eastern Tropical South Pacific (ETSP) ODZ, indicating arsenotrophy is a metabolic pathway actively utilized in anoxic marine water columns. Together these results suggest arsenic-based metabolisms support organic matter production and impact nitrogen biogeochemical cycling in modern oceans. In early anoxic oceans, especially during periods of high marine arsenic concentrations, they may have played a much larger role.

Description: We thank John Baross and Rika Anderson for helpful discussions and feedback on this project. We also thank the chief scientists of the research cruise, Al Devol and Bess Ward, as well as the captain and crew of the R/V Thomas G. Thompson. This work was supported through a NASA Earth and Space Sciences Graduate Research Fellowship to J.K.S. and National Science Foundation Grant OCE-1138368 (to G.R.).

Description: 2019-10-29

Description: Author Posting. © National Academy of Sciences, 2019. This article is posted here by permission of National Academy of Sciences for personal use, not for redistribution. The definitive version was published in Proceedings of the National Academy of Sciences 116 (24), (2019):11646-11651, doi:10.1073/pnas.1900371116.

Description: Measurements show large decadal variability in the rate of CO2 accumulation in the atmosphere that is not driven by CO2 emissions. The decade of the 1990s experienced enhanced carbon accumulation in the atmosphere relative to emissions, while in the 2000s, the atmospheric growth rate slowed, even though emissions grew rapidly. These variations are driven by natural sources and sinks of CO2 due to the ocean and the terrestrial biosphere. In this study, we compare three independent methods for estimating oceanic CO2 uptake and find that the ocean carbon sink could be responsible for up to 40% of the observed decadal variability in atmospheric CO2 accumulation. Data-based estimates of the ocean carbon sink from pCO2 mapping methods and decadal ocean inverse models generally agree on the magnitude and sign of decadal variability in the ocean CO2 sink at both global and regional scales. Simulations with ocean biogeochemical models confirm that climate variability drove the observed decadal trends in ocean CO2 uptake, but also demonstrate that the sensitivity of ocean CO2 uptake to climate variability may be too weak in models. Furthermore, all estimates point toward coherent decadal variability in the oceanic and terrestrial CO2 sinks, and this variability is not well-matched by current global vegetation models. Reconciling these differences will help to constrain the sensitivity of oceanic and terrestrial CO2 uptake to climate variability and lead to improved climate projections and decadal climate predictions.

Description: We thank Rebecca Wright and Erik Buitenhuis at University of East Anglia, Norwich, for providing updated runs from the NEMO-PlankTOM5 model. T.D. was supported by NSF Grant OCE-1658392. C.L.Q. thanks the UK Natural Environment Research Council for supporting the SONATA Project (Grant NE/P021417/1). P.L. was supported by the Max Planck Society for the Advancement of Science. J.H. was supported under Helmholtz Young Investigator Group Marine Carbon and Ecosystem Feedbacks in the Earth System (MarESys) Grant VH-NG-1301. S.B. and R.S. were supported by the H2020 project CRESCENDO “Coordinated Research in Earth Systems and Climate: Experiments, Knowledge, Dissemination and Outreach,” which received funding from the European Union’s Horizon 2020 research and innovation program under Grant No 641816. SOCAT is an international effort, endorsed by the International Ocean Carbon Coordination Project, the Surface Ocean-Lower Atmosphere Study, and the Integrated Marine Biosphere Research program, to deliver a uniformly quality-controlled surface ocean CO2 database. The many researchers and funding agencies responsible for the collection of data and quality control are thanked for their contributions to SOCAT.

Description: 2019-11-28

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in [citation], doi:[doi]. Morrow, R., Fu, L., Ardhuin, F., Benkiran, M., Chapron, B., Cosme, E., d'Ovidio, F., Farrar, J. T., Gille, S. T., Lapeyre, G., Le Traon, P., Pascual, A., Ponte, A., Qiu, B., Rascle, N., Ubelmann, C., Wang, J., & Zaron, E. D. Global observations of fine-scale ocean surface topography with the surface water and ocean topography (SWOT) mission. Frontiers in Marine Science, 6(232),(2019), doi:10.3389/fmars.2019.00232.

Description: The future international Surface Water and Ocean Topography (SWOT) Mission, planned for launch in 2021, will make high-resolution 2D observations of sea-surface height using SAR radar interferometric techniques. SWOT will map the global and coastal oceans up to 77.6∘ latitude every 21 days over a swath of 120 km (20 km nadir gap). Today’s 2D mapped altimeter data can resolve ocean scales of 150 km wavelength whereas the SWOT measurement will extend our 2D observations down to 15–30 km, depending on sea state. SWOT will offer new opportunities to observe the oceanic dynamic processes at scales that are important in the generation and dissipation of kinetic energy in the ocean, and that facilitate the exchange of energy between the ocean interior and the upper layer. The active vertical exchanges linked to these scales have impacts on the local and global budgets of heat and carbon, and on nutrients for biogeochemical cycles. This review paper highlights the issues being addressed by the SWOT science community to understand SWOT’s very precise sea surface height (SSH)/surface pressure observations, and it explores how SWOT data will be combined with other satellite and in situ data and models to better understand the upper ocean 4D circulation (x, y, z, t) over the next decade. SWOT will provide unprecedented 2D ocean SSH observations down to 15–30 km in wavelength, which encompasses the scales of “balanced” geostrophic eddy motions, high-frequency internal tides and internal waves. This presents both a challenge in reconstructing the 4D upper ocean circulation, or in the assimilation of SSH in models, but also an opportunity to have global observations of the 2D structure of these phenomena, and to learn more about their interactions. At these small scales, ocean dynamics evolve rapidly, and combining SWOT 2D SSH data with other satellite or in situ data with different space-time coverage is also a challenge. SWOT’s new technology will be a forerunner for the future altimetric observing system, and so advancing on these issues today will pave the way for our future.

Description: The authors were mostly funded through the NASA Physical Oceanography Program and the CNES/TOSCA programs for the SWOT and OSTST Science teams. AnP acknowledges support from the Spanish Research Agency and the European Regional Development Fund (Award No. CTM2016-78607-P). AuP acknowledges support from the ANR EQUINOx (ANR-17-CE01-0006-01).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Levin, L. A., Bett, B. J., Gates, A. R., Heimbach, P., Howe, B. M., Janssen, F., McCurdy, A., Ruhl, H. A., Snelgrove, P., Stocks, K., I., Bailey, D., Baumann-Pickering, S., Beaverson, C., Benfield, M. C., Booth, D. J., Carreiro-Silva, M., Colaco, A., Eble, M. C., Fowler, A. M., Gjerde, K. M., Jones, D. O. B., Katsumata, K., Kelley, D., Le Bris, N., Leonardi, A. P., Lejzerowicz, F., Macreadie, P., I., McLean, D., Meitz, F., Morato, T., Netburn, A., Pawlowski, J., Smith, C. R., Sun, S., Uchida, H., Vardaro, M. F., Venkatesan, R., & Weller, R. A. Global observing needs in the deep ocean. Frontiers in Marine Science, 6, (2019):241, doi: 10.3389/fmars.2019.00241.

Description: The deep ocean below 200 m water depth is the least observed, but largest habitat on our planet by volume and area. Over 150 years of exploration has revealed that this dynamic system provides critical climate regulation, houses a wealth of energy, mineral, and biological resources, and represents a vast repository of biological diversity. A long history of deep-ocean exploration and observation led to the initial concept for the Deep-Ocean Observing Strategy (DOOS), under the auspices of the Global Ocean Observing System (GOOS). Here we discuss the scientific need for globally integrated deep-ocean observing, its status, and the key scientific questions and societal mandates driving observing requirements over the next decade. We consider the Essential Ocean Variables (EOVs) needed to address deep-ocean challenges within the physical, biogeochemical, and biological/ecosystem sciences according to the Framework for Ocean Observing (FOO), and map these onto scientific questions. Opportunities for new and expanded synergies among deep-ocean stakeholders are discussed, including academic-industry partnerships with the oil and gas, mining, cable and fishing industries, the ocean exploration and mapping community, and biodiversity conservation initiatives. Future deep-ocean observing will benefit from the greater integration across traditional disciplines and sectors, achieved through demonstration projects and facilitated reuse and repurposing of existing deep-sea data efforts. We highlight examples of existing and emerging deep-sea methods and technologies, noting key challenges associated with data volume, preservation, standardization, and accessibility. Emerging technologies relevant to deep-ocean sustainability and the blue economy include novel genomics approaches, imaging technologies, and ultra-deep hydrographic measurements. Capacity building will be necessary to integrate capabilities into programs and projects at a global scale. Progress can be facilitated by Open Science and Findable, Accessible, Interoperable, Reusable (FAIR) data principles and converge on agreed to data standards, practices, vocabularies, and registries. We envision expansion of the deep-ocean observing community to embrace the participation of academia, industry, NGOs, national governments, international governmental organizations, and the public at large in order to unlock critical knowledge contained in the deep ocean over coming decades, and to realize the mutual benefits of thoughtful deep-ocean observing for all elements of a sustainable ocean.

Description: Preparation of this manuscript was supported by NNX16AJ87A (NASA) Consortium for Ocean Leadership, Sub-Award No. SA16-33. AC was supported by FCT-Investigador contract (IF/00029/2014/CP1230/CT0002). LL was supported by a NASA subaward from the Consortium for Ocean Leadership. AG and HR were supported by Horizon 2020, EU Project “EMSO Link” grant ID 731036. AG, BB, DJ, and HR contributions were supported by the UK Natural Environment Research Council Climate Linked Atlantic Section Science project (NE/R015953/1). JP was funded by the Swiss Network for International Studies, and the Swiss National Science Foundation (grant 31003A_179125). TM was supported by Program Investigador FCT (IF/01194/2013), IFCT Exploratory Project (IF/01194/2013/CP1199/CT0002), H2020 Atlas project (GA 678760), and the H2020 MERCES project (GA 689518). This is PMEL contribution number 4965.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Benway, H. M., Lorenzoni, L., White, A. E., Fiedler, B., Levine, N. M., Nicholson, D. P., DeGrandpre, M. D., Sosik, H. M., Church, M. J., O'Brien, T. D., Leinen, M., Weller, R. A., Karl, D. M., Henson, S. A., & Letelier, R. M. Ocean time series observations of changing marine ecosystems: An era of integration, synthesis, and societal applications. Frontiers in Marine Science, 6, (2019): 393, doi:10.3389/fmars.2019.00393.

Description: Sustained ocean time series are critical for characterizing marine ecosystem shifts in a time of accelerating, and at times unpredictable, changes. They represent the only means to distinguish between natural and anthropogenic forcings, and are the best tools to explore causal links and implications for human communities that depend on ocean resources. Since the inception of sustained ocean observations, ocean time series have withstood many challenges, most prominently availability of uninterrupted funding and retention of trained personnel. This OceanObs’19 review article provides an overarching vision for sustained ocean time series observations for the next decade, focusing on the growing challenges of maintaining sustained ocean time series, including ship-based and autonomous coastal and open-ocean platforms, as well as remote sensing. In addition to increased diversification of funding sources to include the private sector, NGOs, and other groups, more effective engagement of stakeholders and other end-users will be critical to ensure the sustainability of ocean time series programs. Building a cohesive international time series network will require dedicated capacity to coordinate across observing programs and leverage existing infrastructure and platforms of opportunity. This review article outlines near-term observing priorities and technology needs; explores potential mechanisms to broaden ocean time series data applications and end-user communities; and describes current tools and future requirements for managing increasingly complex multi-platform data streams and developing synthesis products that support science and society. The actionable recommendations outlined herein ultimately form the basis for a robust, sustainable, fit-for-purpose time series network that will foster a predictive understanding of changing ocean systems for the benefit of society.

Description: This work was led by HB in the Ocean Carbon and Biogeochemistry (OCB) Project Office, which is supported by the NSF OCE (1558412) and the NASA (NNX17AB17G).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in O'Brien, F. J. M., Almaraz, M., Foster, M. A., Hill, A. F., Huber, D. P., King, E. K., Langford, H., Lowe, M., Mickan, B. S., Miller, V. S., Moore, O. W., Mathes, F., Gleeson, D., & Leopold, M. Soil salinity and pH drive soil bacterial community composition and diversity along a lateritic slope in the Avon River critical zone observatory, Western Australia. Frontiers in Microbiology, 10, (2019): 1486, doi:10.3389/fmicb.2019.01486.

Description: Soils are crucial in regulating ecosystem processes, such as nutrient cycling, and supporting plant growth. To a large extent, these functions are carried out by highly diverse and dynamic soil microbiomes that are in turn governed by numerous environmental factors including weathering profile and vegetation. In this study, we investigate geophysical and vegetation effects on the microbial communities of iron-rich lateritic soils in the highly weathered landscapes of Western Australia (WA). The study site was a lateritic hillslope in southwestern Australia, where gradual erosion of the duricrust has resulted in the exposure of the different weathering zones. High-throughput amplicon sequencing of the 16S rRNA gene was used to investigate soil bacterial community diversity, composition and functioning. We predicted that shifts in the microbial community would reflect variations in certain edaphic properties associated with the different layers of the lateritic profile and vegetation cover. Our results supported this hypothesis, with electrical conductivity, pH and clay content having the strongest correlation with beta diversity, and many of the differentially abundant taxa belonging to the phyla Actinobacteria and Proteobacteria. Soil water repellence, which is associated with Eucalyptus vegetation, also affected beta diversity. This enhanced understanding of the natural system could help to improve future crop management in WA since the physicochemical properties of the agricultural soils in this region are inherited from laterites via the weathering and pedogenesis processes.

Description: This work was funded by the WUN and the individual authors’ institutions. MA and MF were funded by the Critical Zone Observatory Program, NSF ICER 1445346.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Sprintall, J., Gordon, A. L., Wijffels, S. E., Feng, M., Hu, S., Koch-Larrouy, A., Phillips, H., Nugroho, D., Napitu, A., Pujiana, K., Susanto, R. D., Sloyan, B., Yuan, D., Riama, N. F., Siswanto, S., Kuswardani, A., Arifin, Z., Wahyudi, A. J., Zhou, H., Nagai, T., Ansong, J. K., Bourdalle-Badie, R., Chanuts, J., Lyard, F., Arbic, B. K., Ramdhani, A., & Setiawan, A. Detecting change in the Indonesian Seas. Frontiers in Marine Science, 6, (2019):257, doi:10.3389/fmars.2019.00257.

Description: The Indonesian seas play a fundamental role in the coupled ocean and climate system with the Indonesian Throughflow (ITF) providing the only tropical pathway connecting the global oceans. Pacific warm pool waters passing through the Indonesian seas are cooled and freshened by strong air-sea fluxes and mixing from internal tides to form a unique water mass that can be tracked across the Indian Ocean basin and beyond. The Indonesian seas lie at the climatological center of the atmospheric deep convection associated with the ascending branch of the Walker Circulation. Regional SST variations cause changes in the surface winds that can shift the center of atmospheric deep convection, subsequently altering the precipitation and ocean circulation patterns within the entire Indo-Pacific region. Recent multi-decadal changes in the wind and buoyancy forcing over the tropical Indo-Pacific have directly affected the vertical profile, strength, and the heat and freshwater transports of the ITF. These changes influence the large-scale sea level, SST, precipitation and wind patterns. Observing long-term changes in mass, heat and freshwater within the Indonesian seas is central to understanding the variability and predictability of the global coupled climate system. Although substantial progress has been made over the past decade in measuring and modeling the physical and biogeochemical variability within the Indonesian seas, large uncertainties remain. A comprehensive strategy is needed for measuring the temporal and spatial scales of variability that govern the various water mass transport streams of the ITF, its connection with the circulation and heat and freshwater inventories and associated air-sea fluxes of the regional and global oceans. This white paper puts forward the design of an observational array using multi-platforms combined with high-resolution models aimed at increasing our quantitative understanding of water mass transformation rates and advection within the Indonesian seas and their impacts on the air-sea climate system. Introduction

Description: JS acknowledges funding to support her effort by the National Science Foundation under Grant Number OCE-1736285 and NOAA’s Climate Program Office, Climate Variability and Predictability Program under Award Number NA17OAR4310257. SH was supported by the National Natural Science Foundation of China (Grant 41776018) and the Key Research Program of Frontier Sciences, CAS (QYZDB-SSW-SYS023). HP acknowledges support from the Australian Government’s National Environmental Science Programme. HZ acknowledges support from National Science Foundation under Grant No. 41876009. RS was supported by National Science Foundation Grant No. OCE-07-25935; Office of Naval Research Grant No. N00014-08-01-0618 and National Aeronautics and Space Administration Grant No. 80NSSC18K0777. SW, MF, and BS were supported by Center for Southern Hemisphere Oceans Research (CSHOR), which is a joint initiative between the Qingdao National Laboratory for Marine Science and Technology (QNLM), CSIRO, University of New South Wales and University of Tasmania.

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Boas, A. B. V., Ardhuin, F., Ayet, A., Bourassa, M. A., Brandt, P., Chapron, B., Cornuelle, B. D., Farrar, J. T., Fewings, M. R., Fox-Kemper, B., Gille, S. T., Gommenginger, C., Heimbach, P., Hell, M. C., Li, Q., Mazloff, M. R., Merrifield, S. T., Mouche, A., Rio, M. H., Rodriguez, E., Shutler, J. D., Subramanian, A. C., Terrill, E. J., Tsamados, M., Ubelmann, C., & van Sebille, E. Integrated observations of global surface winds, currents, and waves: Requirements and challenges for the next decade. Frontiers in Marine Science, 6, (2019): 425, doi:10.3389/fmars.2019.00425.

Description: Ocean surface winds, currents, and waves play a crucial role in exchanges of momentum, energy, heat, freshwater, gases, and other tracers between the ocean, atmosphere, and ice. Despite surface waves being strongly coupled to the upper ocean circulation and the overlying atmosphere, efforts to improve ocean, atmospheric, and wave observations and models have evolved somewhat independently. From an observational point of view, community efforts to bridge this gap have led to proposals for satellite Doppler oceanography mission concepts, which could provide unprecedented measurements of absolute surface velocity and directional wave spectrum at global scales. This paper reviews the present state of observations of surface winds, currents, and waves, and it outlines observational gaps that limit our current understanding of coupled processes that happen at the air-sea-ice interface. A significant challenge for the coming decade of wind, current, and wave observations will come in combining and interpreting measurements from (a) wave-buoys and high-frequency radars in coastal regions, (b) surface drifters and wave-enabled drifters in the open-ocean, marginal ice zones, and wave-current interaction “hot-spots,” and (c) simultaneous measurements of absolute surface currents, ocean surface wind vector, and directional wave spectrum from Doppler satellite sensors.

Description: AV was funded by NASA Earth and Space Science Fellowship award number 80NSSC17K0326. MB was funded by NOAA (FundRef number 100007298) through the NGI (grant number 18-NGI3-42). SG was funded by NASA grants NNX16AH67G, NNX14A078G, NNX17AH53G, and 80NSSC19K0059. MT acknowledges support from the Natural Environment Research Council (grant number NE/R000654/1). MT, MR, JS, and EvS were partially funded by the SKIM Mission Science Study (SKIM-SciSoc) project ESA RFP 3-15456/18/NL/CT/gp. AA was supported by DGA grant No D0456JE075 and the French Brittany Regional Council. MF was supported by NASA Ocean Vector Winds Science Team Grant 80NSSC18K1611 and Jet Propulsion Laboratory/CalTech subcontract 1531731. FA, BC, and AM were supported by ESA under the Sea State CCI project, with additional support from CNES and ANR grants for ISblue (ANR-17-EURE-0015) and LabexMER (ANR-10-LABX-19). MZ was funded by NASA (grant number NNX16AH67G).

Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in [citation], doi:[doi]. Frajka-Williams, E., Ansorge, I. J., Baehr, J., Bryden, H. L., Chidichimo, M. P., Cunningham, S. A., Danabasoglu, G., Dong, S., Donohue, K. A., Elipot, S., Heimbach, P., Holliday, N. P., Hummels, R., Jackson, L. C., Karstensen, J., Lankhorst, M., Le Bras, I. A., Lozier, M. S., McDonagh, E. L., Meinen, C. S., Mercier, H., Moat, B., I., Perez, R. C., Piecuch, C. G., Rhein, M., Srokosz, M. A., Trenberth, K. E., Bacon, S., Forget, G., Goni, G., Kieke, D., Koelling, J., Lamont, T., McCarthy, G. D., Mertens, C., Send, U., Smeed, D. A., Speich, S., van den Berg, M., Volkov, D., & Wilson, C. Atlantic meridional overturning circulation: Observed transport and variability. Frontiers in Marine Science, 6, (2019): 260, doi:10.3389/fmars.2019.00260.

Description: The Atlantic Meridional Overturning Circulation (AMOC) extends from the Southern Ocean to the northern North Atlantic, transporting heat northwards throughout the South and North Atlantic, and sinking carbon and nutrients into the deep ocean. Climate models indicate that changes to the AMOC both herald and drive climate shifts. Intensive trans-basin AMOC observational systems have been put in place to continuously monitor meridional volume transport variability, and in some cases, heat, freshwater and carbon transport. These observational programs have been used to diagnose the magnitude and origins of transport variability, and to investigate impacts of variability on essential climate variables such as sea surface temperature, ocean heat content and coastal sea level. AMOC observing approaches vary between the different systems, ranging from trans-basin arrays (OSNAP, RAPID 26°N, 11°S, SAMBA 34.5°S) to arrays concentrating on western boundaries (e.g., RAPID WAVE, MOVE 16°N). In this paper, we outline the different approaches (aims, strengths and limitations) and summarize the key results to date. We also discuss alternate approaches for capturing AMOC variability including direct estimates (e.g., using sea level, bottom pressure, and hydrography from autonomous profiling floats), indirect estimates applying budgetary approaches, state estimates or ocean reanalyses, and proxies. Based on the existing observations and their results, and the potential of new observational and formal synthesis approaches, we make suggestions as to how to evaluate a comprehensive, future-proof observational network of the AMOC to deepen our understanding of the AMOC and its role in global climate.

Description: OSNAP is funded by the US National Science Foundation (NSF, OCE-1259013), UK Natural Environment Research Council (NERC, projects: OSNAP NE/K010875/1, Extended Ellett Line and ACSIS); China's national key research and development projects (2016YFA0601803), the National Natural Science Foundation of China (41521091 and U1606402) and the Fundamental Research Funds for the Central Universities (201424001); the German Ministry BMBF (RACE program); Fisheries and Oceans Canada (DFO: AZOMP). Additional support was received from the European Union 7th Framework Programme (FP7 2007–2013: NACLIM 308299) and the Horizon 2020 program (Blue-Action 727852, ATLAS 678760, AtlantOS 633211), and the French Centre National de la Recherche Scientifique (CNRS). RAPID and MOCHA moorings at 26°N are funded by NERC and NSF (OCE1332978). ABC fluxes is funded by the NERC RAPID-AMOC program (grant number: NE/M005046/1). Florida Current cable array is funded by the US National Oceanic and Atmospheric Administration (NOAA). The Meridional Overturning Variability Experiment (MOVE) was funded by the NOAA Climate Program Office-Ocean Observing and Monitoring Division, and initially by the German Federal Ministry of Education and Research (BMBF). SAMBA 34.5°S is funded by the NOAA Climate Program Office-Ocean Observing and Monitoring Division (100007298), the French SAMOC project (11–ANR-56-004), from Brazilian National Council for Scientific and Technological development (CNPq: 302018/2014-0) and Sao Paulo Research Foundation (FAESP: SAMOC-Br grants 2011/50552-4 and 2017/09659-6), the South African DST-NRF-SANAP program and South African Department of Environmental Affairs. The Line W project was funded by NSF (grant numbers: OCE-0726720, 1332667, and 1332834), with supplemental contributions from Woods Hole Oceanographic Institution (WHOI)'s Ocean and Climate Change Institute. The Oleander Program is funded by NOAA and NSF (grant numbers: OCE1536517, OCE1536586, OCE1536851). The 47°N array NOAC is funded by the BMBF (grant numbers: 03F0443C, 03F0605C, 03F0561C, 03F0792A). The Senate Commission of Oceanography from the DFG granted shiptime and costs for travel, transports and consumables. JB's work is funded by DFG under Germany's Excellence Strategy (EXC 2037 Climate, Climatic Change, and Society, Project Number: 390683824), contribution to the Center for Earth System Research and Sustainability (CEN) of Universitat Hamburg. LCJ was funded by the Copernicus Marine Environment Monitoring Service (CMEMS: 23-GLO-RAN LOT 3). MSL was supported by the Overturning in the Subpolar North Atlantic Program (NSF grant: OCE-1259013). GDM was supported by the Blue-Action project (European Union's Horizon 2020 research and innovation programme, grant number: 727852). HM was supported by CNRS. RH acknowledges financial support by the BMBF as part of the cooperative projects RACE (03F0605B, 03F0824C). The National Centre for Atmospheric Research (NCAR) is sponsored by NSF under Cooperative Agreement No. 1852977. JKO was supported by NASA Headquarters under the NASA Earth and Space Science Fellowship Program (Grant NNX16AO39H).