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Recent Publications

  • Huang X., Rippy MA, Mehring A.S, Winfrey B.K, Jiang S.C, Grant S.B.  2018.  Shifts in dissolved organic matter and microbial community composition are associated with enhanced removal of fecal pollutants in urban stormwater wetlands. Water Research. 137:310-323.
    Abstract Summary:

    Constructed stormwater wetlands provide a host of ecosystem services, including potentially pathogen removal. We present results from a multi-wetland study that integrates across weather, chemical, microbiological and engineering design variables in order to identify patterns of microbial contaminant removal from inlet to outlet within wetlands and key drivers of those patterns. One or more microbial contaminants were detected at the inlet of...

  • Biard T., Krause J.W, Stukel M.R, Ohman MD.  2018.  The significance of giant phaeodarians (rhizaria) to biogenic silica export in the California Current ecosystem. Global Biogeochemical Cycles. 32:987-1004.
    Abstract Summary:

    In marine ecosystems, many planktonic organisms precipitate biogenic silica (bSiO(2)) to build silicified skeletons. Among them, giant siliceous rhizarians (>500 mu m), including Radiolaria and Phaeodaria, are important contributors to oceanic carbon pools but little is known about their contribution to the marine silica cycle. We report the first analyses of giant phaeodarians to bSiO(2) export in the California Current Ecosystem. We...

  • Du N., Gholami P., Kline DI, Dupont C.L, Dickson AG, Mendola D., Martz T., Allen A.E, Mitchell B.G.  2018.  Simultaneous quantum yield measurements of carbon uptake and oxygen evolution in microalgal cultures. Plos OnePlos One. 13
    Abstract Summary:

    The photosynthetic quantum yield (F), defined as carbon fixed or oxygen evolved per unit of light absorbed, is a fundamental but rarely determined biophysical parameter. A method to estimate Phi for both net carbon uptake and net oxygen evolution simultaneously can provide important insights into energy and mass fluxes. Here we present details for a novel system that allows quantification of carbon fluxes using pH oscillation and simultaneous...

  • Stevenson S., Powell B., Cobb K., Nusbaumer J., Merrifield M., Noone D..  2018.  Twentieth century seawater delta O-18 dynamics and implications for coral-based climate reconstruction. 33:606-625.
    Abstract Summary:

    The oxygen isotopic composition of tropical coral skeletons (delta O-18) is a crucial source of information on past El Nino/Southern Oscillation behavior. Both temperature and the delta O-18 of the surrounding seawater delta O-18(sw) ) affect coral delta O-18; a linear proportionality with delta O-18(sw) is often used to infer past salinity variations, but the degree to which dynamical influences on delta O-18(sw) may affect that relationship...

  • Sato K.N, Powell J., Rudie D., Levin L.A.  2018.  Evaluating the promise and pitfalls of a potential climate change-tolerant sea urchin fishery in southern California. Ices Journal of Marine Science. 75:1029-1041.
    Abstract Summary:

    Marine fishery stakeholders are beginning to consider and implement adaptation strategies in the face of growing consumer demand and potential deleterious climate change impacts such as ocean warming, ocean acidification, and deoxygenation. This study investigates the potential for development of a novel climate change-tolerant sea urchin fishery in southern California based on Strongylocentrotus fragilis (pink sea urchin), a deep-sea species...

  • Hofmeister J.KK, Kawana S.K, Walker B.J, Catton C.A, Taniguchi I., Stein D.M, Sowul K., Rogers-Bennett L..  2018.  Temporal and spatial patterns in behavioral responses of marine predators to a sudden influx of abalone prey (Haliotis rufescens). Hydrobiologia. 813:123-136.
    Abstract Summary:

    Predator-prey interactions exist on a variety of spatial and temporal scales; one of the earliest measurable responses to changes in these interactions is behavior. We examined the behavior of southern California kelp forest predators in response to a concentrated increase in the abundance of abalone during a restoration stocking experiment. We tested three hypotheses: (1) kelp forest predator density will increase following abalone stocking...

  • Abstract Summary:

    Anthropogenic impacts on marine environments can be far-reaching and variable, and in an effort to mitigate these impacts, marine protected areas (MPAs) have been established globally. Indirect effects of MPAs on marine food webs and consumer behavior can be revealed through the diet of generalist predators, like octopuses, since their diet is a reflection of both preference and prey availability. Octopuses (Octopus bimaculatus Verrill, 1883...

  • Jessica M, R. MMatthew, K. CTeresa.  2018.  Interfacial form stress in the Southern Ocean state estimate. Journal of Geophysical Research: Oceans. 123:3368-3385.
    Abstract Summary:

    The wind stress that drives the Antarctic Circumpolar Current (ACC) exits the fluid via topographic form stress (TFS) at the sea floor; interfacial form stress (IFS) is thought to carry much of this momentum from source to sink. These form stresses combine to help set the strength and structure of the Southern Ocean meridional overturning circulation (MOC), a key nexus of heat and gas exchange between the deep ocean and the atmosphere. For...

  • Netburn A.N, Koslow JA.  2018.  Mesopelagic fish assemblages across oceanic fronts: A comparison of three frontal systems in the southern California Current Ecosystem. Deep-Sea Research Part I-Oceanographic Research Papers. 134:80-91.
    Abstract Summary:

    With strong horizontal gradients in physical properties, oceanic frontal regions can lead to disproportionately high biological productivity. We examined cross-frontal changes in mesopelagic fish assemblages at three separate frontal systems in the southern California Current Ecosystem (CCE) as part of the CCE Long Term Ecological Research program: the A-Front sampled in October 2008, the C-Front in June/July 2011, and the E-Front in July/...

  • Haver S.M, Gedamke J., Hatch L.T, Dziak R.P, Van Parijs S., McKenna MF, Barlow J, Berchok C., DiDonato E., Hanson B. et al..  2018.  Monitoring long-term soundscape trends in US Waters: The NOAA/NPS Ocean Noise Reference Station Network. Marine Policy. 90:6-13.
    Abstract Summary:

    The National Oceanic and Atmospheric Administration (NOAA)/National Park Service (NPS) Ocean Noise Reference Station (NRS) Network is an array of currently twelve calibrated autonomous passive acoustic recorders. The first NRS was deployed in June 2014, and eleven additional stations were added to the network during the following two years. The twelve stations record data that can be used to quantify baseline levels and multi-year trends in...

  • Kahru M, Elmgren R., Di Lorenzo E, Savchuk O..  2018.  Unexplained interannual oscillations of cyanobacterial blooms in the Baltic Sea. Scientific Reports. 8
    Abstract Summary:

    Population oscillations in multi-species or even single species systems are well-known but have rarely been detected at the lower trophic levels in marine systems. Nitrogen fixing cyanobacteria are a major component of the Baltic Sea ecosystem and sometimes form huge surface accumulations covering most of the sea surface. By analysing a satellite-derived 39-year (1979-2017) data archive of surface cyanobacteria concentrations we have found...

  • Gormley K., McLellan F., McCabe C., Hinton C., Ferris J., Kline DI, Scott B.E.  2018.  Automated image analysis of offshore infrastructure marine biofouling. 6
    Abstract Summary:

    In the UK, some of the oldest oil and gas installations have been in the water for over 40 years and have considerable colonisation by marine organisms, which may lead to both industry challenges and/or potential biodiversity benefits (e.g., artificial reefs). The project objective was to test the use of an automated image analysis software (CoralNet) on images of marine biofouling from offshore platforms on the UK continental shelf, with the...

  • Highlighted Publication P. tricornutum
    McQuaid JB, Kustka AB, Oborník M, Horák A, McCrow JP, Karas BJ, Zheng H, Kindeberg T, Andersson AJ, Barbeau KA et al..  2018.  Carbonate-sensitive phytotransferrin controls high-affinity iron uptake in diatoms. Nature. 555:534.
    Abstract Summary:

    In vast areas of the ocean, the scarcity of iron controls the growth and productivity of phytoplankton. Although most dissolved iron in the marine environment is complexed with organic molecules, picomolar amounts of labile inorganic iron species (labile iron) are maintained within the euphotic zone and serve as an important source of iron for eukaryotic phytoplankton and particularly for diatoms. Genome-enabled studies of labile iron...

  • Niner H.J, Ardron J.A, Escobar E.G, Gianni M., Jaeckel A., Jones D.OB, Levin L.A, Smith C.R, Thiele T., Turner P.J et al..  2018.  Deep-sea mining with no net loss of biodiversity-an impossible aim. Frontiers in Marine Science. 5
    Abstract Summary:

    Deep-sea mining is likely to result in biodiversity loss, and the significance of this to ecosystem function is not known. "Out of kind" biodiversity offsets substituting one ecosystem type (e.g., coral reefs) for another (e.g., abyssal nodule fields) have been proposed to compensate for such loss. Here we consider a goal of no net loss (NNL) of biodiversity and explore the challenges of applying this aim to deep seabed mining, based on the...

  • Briseno-Avena C., Franks PJS, Roberts P.LD, Jaffe J.S.  2018.  A diverse group of echogenic particles observed with a broadband, high frequency echosounder. Ices Journal of Marine Science. 75:471-482.
    Abstract Summary:

    In 1980, Holliday and Pieper stated: "Most sound scattering in the ocean volume can be traced to a biotic origin." However, most of the bio-acoustics research in the past three decades has focused on only a few groups of organisms. Targets such as small gelatinous organisms, marine snow, and phytoplankton, e.g. have been generally to be considered relatively transparent to acoustic waves due to their sizes and relatively low sound speed and...

  • Rastogi A, Maheswari U, Dorrell RG, Vieira FRocha Jime, Maumus F, Kustka A, McCarthy J, Allen AE, Kersey P, Bowler C et al..  2018.  Integrative analysis of large scale transcriptome data draws a comprehensive landscape of Phaeodactylum tricornutum genome and evolutionary origin of diatoms. Scientific Reports. 8:4834.
    Abstract Summary:

    Diatoms are one of the most successful and ecologically important groups of eukaryotic phytoplankton in the modern ocean. Deciphering their genomes is a key step towards better understanding of their biological innovations, evolutionary origins, and ecological underpinnings. Here, we have used 90 RNA-Seq datasets from different growth conditions combined with published expressed sequence tags and protein sequences from multiple taxa to...

  • Highlighted Publication
    Abstract Summary:

    We used a combination of epifluorescence microscopy and flow cytometry to investigate variability of phytoplankton biomass and size structure with ocean richness, measured as autotrophic carbon (AC) or chlorophyll a (chl a). Samples were collected from mixed layers of 4 North Pacific ecosystems: the California Current (CCE), Equatorial Pacific, Costa Rica Dome, and subtropical gyre (station ALOHA). Both nano- (2-20 mu m) and...

  • Roncalli V., Cieslak M.C, Sommer S.A, Hoperoft R.R, Lenz P.H.  2018.  De novo transcriptome assembly of the calanoid copepod Neocalanus flemingeri: A new resource for emergence from diapause. 37:114-119.
    Abstract Summary:

    Copepods, small planktonic crustaceans, are key links between primary producers and upper trophic levels, including many economically important fishes. In the subarctic North Pacific, the life cycle of copepods like Neocalanus flemingeri includes an ontogenetic migration to depth followed by a period of diapause (a type of dormancy) characterized by arrested development and low metabolic activity. The end of diapause is marked by the...

  • Berg C, Dupont CL, Asplund-Samuelsson J, Celepli NA, Eiler A, Allen AE, Ekman M, Bergman B, Ininbergs K.  2018.  Dissection of microbial community functions during a cyanobacterial bloom in the Baltic Sea via metatranscriptomics. Frontiers in Marine Science. 5
    Abstract Summary:

    Marine and brackish surface waters are highly dynamic habitats that undergo repeated seasonal variations in microbial community composition and function throughout time. While succession of the various microbial groups has been well investigated, little is known about the underlying gene-expression of the microbial community. We investigated microbial interactions via metatranscriptomics over a spring to fall seasonal cycle in the brackish...

  • Valencia B., Decima M, Landry MR.  2018.  Environmental Effects on Mesozooplankton Size Structure and Export Flux at Station ALOHA, North Pacific Subtropical Gyre. Global Biogeochemical Cycles. 32:289-305.
    Abstract Summary:

    Using size-fractionated mesozooplankton biomass data collected over 23 years (1994-2016) of increasing primary production (PP) at station ALOHA (A Long-Term Oligotrophic Habitat Assessment), we evaluate how changing environmental conditions affect mesozooplankton size structure, trophic cycling, and export fluxes in the subtropical North Pacific. From generalized additive model analysis, size structure is significantly influenced by a...

  • Sweetman A.K, Thurber AR, Smith C.R, Levin L.A, Mora C., Wei C.L, Gooday A.J, Jones D.OB, Rex M., Yasuhara M. et al..  2017.  Major impacts of climate change on deep-sea benthic ecosystems. 5:1-23.
    Abstract Summary:

    The deep sea encompasses the largest ecosystems on Earth. Although poorly known, deep seafloor ecosystems provide services that are vitally important to the entire ocean and biosphere. Rising atmospheric greenhouse gases are bringing about significant changes in the environmental properties of the ocean realm in terms of water column oxygenation, temperature, pH and food supply, with concomitant impacts on deep-sea ecosystems. Projections...

  • Abstract Summary:

    Energetically costly lunge feeding at depth causes the respiratory patterns and feeding performance of rorqual whales (Family Balaenopteridae) to hinge in part upon prey patch depth. This contingency has the potential to precipitate differences in prey preference and habitat suitability for sympatric species and may be a factor in competitive interactions, but comparative respiration studies are a necessary first step in assessing this...

  • Young A.P.  2018.  Decadal-scale coastal cliff retreat in southern and central California. Geomorphology. 300:164-175.
    Abstract Summary:

    Airborne LiDAR data collected in 1998 and 2009-2010 were used to measure coastal cliff erosion and retreat between the Mexico/California border and Bodega Head, California. Cliff erosion was detected along 44% of the 595 km of shoreline evaluated, while the remaining cliffs were relatively stable. The mean cliff top retreat rate was 0.12 m/yr, while mean retreat averaged over the entire cliff face was 0.04 m/yr. The maximum cliff top and face...

  • Breitburg D, Levin LA, Oschlies A, Grégoire M, Chavez FP, Conley DJ, Garçon V, Gilbert D, Gutiérrez D, Isensee K et al..  2018.  Declining oxygen in the global ocean and coastal waters. Science. 359
    Abstract Summary:

    As plastic waste pollutes the oceans and fish stocks decline, unseen below the surface another problem grows: deoxygenation. Breitburg et al. review the evidence for the downward trajectory of oxygen levels in increasing areas of the open ocean and coastal waters. Rising nutrient loads coupled with climate change—each resulting from human activities—are changing ocean biogeochemistry and increasing oxygen consumption. This results in...

  • Tatters AO, Schnetzer A, Xu K, Walworth NG, Fu F, Spackeen JL, Sipler RE, Bertrand EM, McQuaid JB, Allen AE et al..  2018.  Interactive effects of temperature, CO2 and nitrogen source on a coastal California diatom assemblage. Journal of Plankton Research. 40:151-164.
    Abstract Summary:

    Diatoms are often considered to be a single functional group, yet there is a great deal of morphological, genetic and ecological diversity within the class. How these differences will translate into species-specific responses to rapid changes in the ocean environment resulting from climate change and eutrophication is currently poorly understood. We investigated the response of a natural diatom-dominated assemblage in coastal California...

  • Fiedler J.W, Smit P.B, Brodie K.L, McNinch J., Guza RT.  2018.  Numerical modeling of wave runup on steep and mildly sloping natural beaches. Coastal Engineering. 131:106-113.
    Abstract Summary:

    Runup on ocean beaches includes steady wave setup and oscillating swash, often decomposed into wind generated sea-swell (SS), and lower frequency infragravity (IG) waves. We show that the numerically fast, open-source numerical model 1D SWASH predicts accurately the bulk properties of runup observed on two natural beaches (one steep and one shallow sloped) for a range of incident wave conditions. The runup tongue shape was measured with a...

  • Tort M., Winters KB.  2018.  Poleward propagation of near-inertial waves induced by fluctuating winds over a baroclinically unstable zonal jet. Journal of Fluid Mechanics. 834:510-530.
    Abstract Summary:

    We investigate the excitation and radiation of near-inertial internal gravity waves continuously excited by a latitudinally confined temporally fluctuating wind in a numerical model of a stratified ocean on a beta-plane at mid-latitude. The surface wind forcing contains both high- and low-frequency components which excite propagating waves and a baroclinically unstable zonal jet respectively. Wentzel-Kramers-Brillouin (WKB) ray theory implies...

  • Neira C., Vales M., Mendoza G., Hoh E., Levin L.A.  2018.  Polychlorinated biphenyls (PCBs) in recreational marina sediments of San Diego Bay, southern California. Marine Pollution Bulletin. 126:204-214.
    Abstract Summary:

    Polychlorinated biphenyl (PCB) concentrations were determined in surface sediments from three recreational marinas in San Diego Bay, California. Total PCB concentrations ranged from 23 to 153, 31-294, and 151-1387 ng g(-1) for Shelter Island Yacht Basin (SIYB), Harbor Island West (HW) and Harbor Island East (HE), respectively. PCB concentrations were significantly higher in HE and PCB group composition differed relative to HW and SIYB, which...

  • Abstract Summary:

    Particles and aggregates created in the surface layers of the ocean are transported not only by gravity, but also by the horizontal and vertical advection of the surrounding water. Subduction, in particular, can transport organic matter from the surface ocean to the mesopelagic in a manner that is not likely to be detected by typical in situ carbon export measurements (e.g., sediment traps and U-238-Th-234 disequilibrium). To assess the...

  • Nezlin N.P, McLaughlin K., Booth J.AT, Cash C.L, Diehl D.W, Davis K.A, Feit A., Goericke R, Gully J.R, Howard M.DA et al..  2018.  Spatial and temporal patterns of chlorophyll concentration in the Southern California Bight. Journal of Geophysical Research-Oceans. 123:231-245.
    Abstract Summary:

    Distinguishing between local, anthropogenic nutrient inputs and large-scale climatic forcing as drivers of coastal phytoplankton biomass is critical to developing effective nutrient management strategies. Here we assess the relative importance of these two drivers by comparing trends in chlorophyll-a between shallow coastal (0.1-16.5 km) and deep offshore (17-700 km) areas, hypothesizing that coastal regions influenced by anthropogenic...

  • Colosi J.A, Kumar N., Suanda S.H, Freismuth T.M, Macmahan J.H.  2018.  Statistics of internal tide bores and internal solitary waves observed on the inner continental shelf off Point Sal, California. Journal of Physical Oceanography. 48:123-143.
    Abstract Summary:

    Moored observations of temperature and current were collected on the inner continental shelf off Point Sal, California, between 9 June and 8 August 2015. The measurements consist of 10 moorings in total: 4 moorings each on the 50- and 30-m isobaths covering a 10-km along-shelf distance and an across-shelf section of moorings on the 50-, 40-, 30-, and 20-m isobaths covering a 5-km distance. Energetic, highly variable, and strongly dissipating...

  • Cyronak T., Andersson AJ, Langdon C., Albright R., Bates NR, Caldeira K., Carlton R., Corredor J.E, Dunbar R.B, Enochs I. et al..  2018.  Taking the metabolic pulse of the world's coral reefs. Plos One. 13
    Abstract Summary:

    Worldwide, coral reef ecosystems are experiencing increasing pressure from a variety of anthropogenic perturbations including ocean warming and acidification, increased sedimentation, eutrophication, and overfishing, which could shift reefs to a condition of net calcium carbonate (CaCO3) dissolution and erosion. Herein, we determine the net calcification potential and the relative balance of net organic carbon metabolism (net community...

  • Suanda S.H, Feddersen F, Kumar N..  2017.  The effect of barotropic and baroclinic tides on coastal stratification and mixing. Journal of Geophysical Research-Oceans. 122:10156-10173.
    Abstract Summary:

    The effects of barotropic and baroclinic tides on subtidal stratification and vertical mixing are examined with high-resolution, three-dimensional numerical simulations of the Central Californian coastal upwelling region. A base simulation with realistic atmospheric and regional-scale boundary forcing but no tides (NT) is compared to two simulations with the addition of predominantly barotropic local tides ( LT) and with combined barotropic...

  • Haddock S.HD, Christianson L.M, Francis W.R, Martini S., Dunn C.W, Pugh P.R, Mills C.E, Osborn K.J, Seibel B.A, Choy C.A et al..  2017.  Insights into the biodiversity, behavior, and bioluminescence of deep-sea organisms using molecular and maritime technology. Oceanography. 30:38-47.
    Abstract Summary:

    Since its founding, the Monterey Bay Aquarium Research Institute (MBARI) has pioneered unique capabilities for accessing the deep ocean and its inhabitants through focused peer relationships between scientists and engineers. This focus has enabled breakthroughs in our understanding of life in the sea, leading to fundamental advances in describing the biology and the ecology of open-ocean and deep-sea animals. David Packard's founding...

  • Giddings S.N, MacCready P..  2017.  Reverse estuarine circulation due to local and remote wind forcing, enhanced by the presence of along-coast estuaries. Journal of Geophysical Research-Oceans. 122:10184-10205.
    Abstract Summary:

    Estuarine exchange flow governs the interaction between oceans and estuaries and thus plays a large role in their biogeochemical processes. This study investigates the variability in estuarine exchange flow due to offshore oceanic conditions including upwelling/downwelling, and the presence of a river plume offshore (from a neighboring estuary). We address these processes via numerical simulations at the mouth of the Salish Sea, a large...

  • Wells B.K, Schroeder I.D, Bograd SJ, Hazen E.L, Jacox M.G, Leising A., Mantua N., Santora J.A, Fisher J., Peterson W.T et al..  2017.  State Of The California Current 2016-17: Still Anything But "Normal" In The North. California Cooperative Oceanic Fisheries Investigations Reports. 58:1-55.
    Abstract Summary:

    This report examines the ecosystem state of the California Current System (CCS) from spring 2016-spring 2017. Basin-scale indices suggest conditions that would support average to below average coast-wide production across the CCS during this time period. Regional surveys in 2016 sampled anomalously warm surface and subsurface waters across the CCS. Chlorophyll concentrations were low across the CCS in 2016 and, concomitant with that, copepod...

  • Highlighted Publication A schematic representation of the generalized Southern California Current System food web model
    Lindegren M, Checkley DM, Koslow JA, Goericke R, Ohman MD.  2017.  Climate-mediated changes in marine ecosystem regulation during El Niño. Global Change Biology. :n/a-n/a.
    Abstract Summary:

    The degree to which ecosystems are regulated through bottom-up, top-down, or direct physical processes represents a long-standing issue in ecology, with important consequences for resource management and conservation. In marine ecosystems, the role of bottom-up and top-down forcing has been shown to vary over spatio-temporal scales, often linked to highly variable and heterogeneously distributed environmental conditions. Ecosystem dynamics in...

  • Ziegler A.F, Smith C.R, Edwards K.F, Vernet M.  2017.  Glacial dropstones: islands enhancing seafloor species richness of benthic megafauna in West Antarctic Peninsula fjords. Marine Ecology Progress Series. 583:1-14.
    Abstract Summary:

    The West Antarctic Peninsula (WAP) margin is dominated by glaciomarine fjords and has experienced rapid climate warming in recent decades. Glacial calving along the peninsula delivers icerafted debris (e.g. dropstones) to heavily sedimented fjord basins and the open continental shelf. Dropstones provide hard substrate, increase habitat heterogeneity, and may function as island habitats surrounded by mud. We used seafloor photographic...

  • Gallo N.D, Victor D.G, Levin L.A.  2017.  Ocean commitments under the Paris Agreement. Nature Climate Change. 7:833-+.
    Abstract Summary:

    Under the Paris Agreement nations made pledges known as nationally determined contributions (NDCs), which indicate how national governments are evaluating climate risks and policy opportunities. We find that NDCs reveal important systematic patterns reflecting national interests and capabilities. Because the ocean plays critical roles in climate mitigation and adaptation, we created a quantitative marine focus factor (MFF) to evaluate how...

  • Roncalli V., Christie A.E, Sommer S.A, Cieslak M.C, Hartline D.K, Lenz P.H.  2017.  A deep transcriptomic resource for the copepod crustacean Labidocera madurae: A potential indicator species for assessing near shore ecosystem health. Plos One. 12
    Abstract Summary:

    Coral reef ecosystems of many sub-tropical and tropical marine coastal environments have suffered significant degradation from anthropogenic sources. Research to inform management strategies that mitigate stressors and promote a healthy ecosystem has focused on the ecology and physiology of coral reefs and associated organisms. Few studies focus on the surrounding pelagic communities, which are equally important to ecosystem function....

  • Decima M, Landry MR, Bradley C.J, Fogel M.L.  2017.  Alanine delta(15) N trophic fractionation in heterotrophic protists. Limnology and Oceanography. 62:2308-2322.
    Abstract Summary:

    We evaluated differences in the N-15 isotopic enrichment factors of trophic amino acids (AA) for protistan (microzooplankton) and metazoan (mesozooplankton) consumers, testing the hypothesis that delta N-15 of alanine (ala) increases in both consumer types, while glutamic acid (glu) enriches mainly in mesozooplankton. AA delta N-15 values were measured for dinoflagellate and ciliate grazers and their respective algal prey (Oxyrrhis marina/...

  • Abstract Summary:

    The eastern oyster (Crassostrea virginica) is a foundation species providing significant ecosystem services. However, the roles of oyster microbiomes have not been integrated into any of the services, particularly nitrogen removal through denitrification. We investigated the composition and denitrification potential of oyster microbiomes with an approach that combined 16S rRNA gene analysis, metabolic inference, qPCR of the nitrous oxide...

  • Melgar D, Riquelrne S., Xu X.H, Baez J.C, Geng JH, Moreno M..  2017.  The first since 1960: A large event in the Valdivia segment of the Chilean Subduction Zone, the 2016 M7.6 Melinka earthquake. Earth and Planetary Science Letters. 474:68-75.
    Abstract Summary:

    We present results for joint kinematic inversion of high-rate GPS, strong motion and InSAR data for the 2016 M7.6 Melinka earthquake. We show that the source is a compact 35 s long rupture with 5.0 +/- 0.15 m of peak slip. We find the Melinka earthquake occurs inside the slip region for the 1960 M9.5 Valdivia earthquake and within the highly locked portion of the megathrust inferred from inter-seismic velocity analysis. We show that there is...

  • Cuomo G., Guza RT.  2017.  Infragravity Seiches in a Small Harbor. Journal of Waterway Port Coastal and Ocean Engineering. 143
    Abstract Summary:

    A method is developed to estimate harbor seiche at Marina di Carrara, Italy, from the properties of wind-generated incident waves outside the harbor. A linear model of the spatial structure of amplified seiche modes is combined with empirical estimates of the response of each mode to variable incident wave forcing. These empirical coefficients parameterize the complex nonlinear transfer of energy from wind waves to lower frequency seiche. As...

  • McCormick L.R, Levin L.A.  2017.  Physiological and ecological implications of ocean deoxygenation for vision in marine organisms. Philosophical Transactions of the Royal Society a-Mathematical Physical and Engineering Sciences. 375
    Abstract Summary:

    Climate change has induced ocean deoxygenation and exacerbated eutrophication-driven hypoxia in recent decades, affecting the physiology, behaviour and ecology of marine organisms. The high oxygen demand of visual tissues and the known inhibitory effects of hypoxia on human vision raise the questions if and how ocean deoxygenation alters vision in marine organisms. This is particularly important given the rapid loss of oxygen and strong...

  • Sosa-Avalos R., Durazo R., Mitchell B.G, Cepeda-Morales J., Gaxiola-Castro G..  2017.  Phytoplankton photosynthetic parameters off Baja California: A tool to estimate primary production with remote sensing data. Ciencias Marinas. 43:157-172.
    Abstract Summary:

    Phytoplankton photosynthetic parameters (maximum light utilization coefficient, alpha*; maximum photosynthetic rate, P-m*; maximum quantum yield, phi(max)) off Baja California were estimated from samples collected at the 50% light level during winter, spring, summer, and autumn 1999. Chlorophyll concentration was also determined, and in situ experiments were conducted using the C-14 method to determine primary production (PP) in the euphotic...

  • Crosby S.C, Cornuelle BD, O'Reilly W.C, Guza RT.  2017.  Assimilating Global Wave Model Predictions and Deep-Water Wave Observations in Nearshore Swell Predictions. Journal of Atmospheric and Oceanic Technology. 34:1823-1836.
    Abstract Summary:

    Nearshore wave predictions with high resolution in space and time are needed for boating safety, to assess flood risk, and to support nearshore processes research. This study presents methods for improving regional nearshore predictions of swell-band wave energy (0.04-0.09 Hz) by assimilating local buoy observations into a linear wave propagation model with a priori guidance from global WAVEWATCH III (WW3) model predictions. Linear wave...

  • Jones W.A, Checkley DM.  2017.  Classification of otoliths of fishes common in the Santa Barbara Basin based on morphology and chemical composition. Canadian Journal of Fisheries and Aquatic Sciences. 74:1195-1207.
    Abstract Summary:

    Morphological and chemical features of fish otoliths are used to distinguish between populations and stocks. We hypothesized that these features can also be used to distinguish between fishes of different taxonomic groups common in and near the Santa Barbara Basin, including mesopelagic, pelagic, and demersal fish. Sagittal otoliths obtained from 905 fish representing six taxonomic groups were imaged, and 12 geometric and 59 elliptic Fourier...

  • McCarthy JK, Smith S.R, McCrow J.P, Tan M., Zheng H., Beeri K., Roth R., Lichtle C., Goodenough U., Bowler C.P et al..  2017.  Nitrate reductase knockout uncouples nitrate transport from nitrate assimilation and drives repartitioning of carbon flux in a model pennate diatom. Plant Cell. 29:2047-2070.
    Abstract Summary:

    The ecological prominence of diatoms in the ocean environment largely results from their superior competitive ability for dissolved nitrate (NO3-). To investigate the cellular and genetic basis of diatom NO3- assimilation, we generated a knockout in the nitrate reductase gene (NR-KO) of the model pennate diatom Phaeodactylum tricornutum. In NR-KO cells, N-assimilation was abolished although NO3- transport remained intact. Unassimilated NO3-...

  • Highlighted Publication Public domain sea urchin photo by Kevin Lee
    P. Parnell E, Fumo JT, Lennert-Cody CE, Schroeter SC, Dayton PK.  2017.  Sea urchin behavior in a Southern California Kelp Forest: Food, fear, behavioral niches, and scaling up individual behavior. Journal of Shellfish Research. 36:529-543.
    Abstract Summary:

    Red and purple sea urchins (Mesocentrotus francisanus and Strongylocentrotus purpuratus) cohabit the west coast of North America and exhibit behavioral switching between sheltering, when food is abundant, and emergence and overgrazing, when food is scarce. To better understand individual urchin foraging behavior, we conducted a series of time-lapse behavioral studies within and at the edge of a resilient sea urchin barren. Photographs were...

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