Coronavirus Information for the UC San Diego Community

Our leaders are working closely with federal and state officials to ensure your ongoing safety at the university. Stay up to date with the latest developments. Learn more.

Recent Publications

  • Mendoza WG, Weiss EL, Schieber B, B. Mitchell G.  2017.  Controls on the distribution of fluorescent dissolved organic matter during an under-ice algal bloom in the western Arctic Ocean. Global Biogeochemical Cycles. 31:1118-1140.
    Abstract Summary:

    In this study we used fluorescence excitation and emission matrix spectroscopy, hydrographic data, and a self-organizing map (SOM) analysis to assess the spatial distribution of labile and refractory fluorescent dissolved organic matter (FDOM) for the Chukchi and Beaufort Seas at the time of a massive under-ice phytoplankton bloom during early summer 2011. Biogeochemical properties were assessed through decomposition of water property classes...

  • Mendoza W.G, Weiss E.L, Schieber B., Mitchell B.G.  2017.  Controls on the distribution of fluorescent dissolved organic matter during an under-ice algal bloom in the western Arctic Ocean. Global Biogeochemical Cycles. 31:1118-1140.
    Abstract Summary:

    In this study we used fluorescence excitation and emission matrix spectroscopy, hydrographic data, and a self-organizing map (SOM) analysis to assess the spatial distribution of labile and refractory fluorescent dissolved organic matter (FDOM) for the Chukchi and Beaufort Seas at the time of a massive under-ice phytoplankton bloom during early summer 2011. Biogeochemical properties were assessed through decomposition of water property classes...

  • Diner RE, Noddings CM, Lian NC, Kang AK, McQuaid JB, Jablanovic J, Espinoza JL, Nguyen NA, Anzelmatti MA, Jansson J et al..  2017.  Diatom centromeres suggest a mechanism for nuclear DNA acquisition. Proceedings of the National Academy of Sciences. 114:E6015-E6024.
    Abstract Summary:

    Centromeres are essential for cell division and growth in all eukaryotes, and knowledge of their sequence and structure guides the development of artificial chromosomes for functional cellular biology studies. Centromeric proteins are conserved among eukaryotes; however, centromeric DNA sequences are highly variable. We combined forward and reverse genetic approaches with chromatin immunoprecipitation to identify centromeres of the model...

  • Diner R.E, Nodding C.M, Lian N.C, Kang A.K, McQuaid J.B, Jablanovic J., Espinoza J.L, Nguyen N.A, Anzelmatti M.A, Jansson J. et al..  2017.  Diatom centromeres suggest a mechanism for nuclear DNA acquisition. Proceedings of the National Academy of Sciences of the United States of America. 114:E6015-E6024.
    Abstract Summary:

    Centromeres are essential for cell division and growth in all eukaryotes, and knowledge of their sequence and structure guides the development of artificial chromosomes for functional cellular biology studies. Centromeric proteins are conserved among eukaryotes; however, centromeric DNA sequences are highly variable. We combined forward and reverse genetic approaches with chromatin immunoprecipitation to identify centromeres of the model...

  • Menapace W., Volker D., Kaul N., Tryon M.D, Kopf A.J.  2017.  The role of mud volcanism and deep-seated dewatering processes in the Nankai Trough accretionary prism and Kumano Basin, Japan. Geochemistry Geophysics Geosystems. 18:2486-2509.
    Abstract Summary:

    Circulation of water at moderate depths in subduction zones is dominantly driven by clay mineral dehydration over distinct pressure and temperature gradients. The signature of these dehydration reactions is found in mud volcano pore waters, however, it is largely unknown, how much of the deep-seated fluids are emitted at mud volcanoes. To unravel this relation for the region off the Kii Peninsula, Japan, we calculated the water volume that is...

  • Bromirski PD, Chen Z., Stephen R.A, Gerstoft P, Arcas D., Diez A., Aster R.C, Wiens D.A, Nyblade A..  2017.  Tsunami and infragravity waves impacting Antarctic ice shelves. Journal of Geophysical Research-Oceans. 122:5786-5801.
    Abstract Summary:

    The responses of the Ross Ice Shelf (RIS) to the 16 September 2015 8.3 (M-w) Chilean earthquake tsunami (>75 s period) and to oceanic infragravity (IG) waves (50-300 s period) were recorded by a broadband seismic array deployed on the RIS from November 2014 to November 2016. Here we show that tsunami and IG-generated signals within the RIS propagate at gravity wave speeds (similar to 70 m/s) as water-ice coupled flexural-gravity waves. IG...

  • Jayne SR, Roemmich D., Zilberman N., Riser S.C, Johnson K.S, Johnson G.C, Piotrowicz S.R.  2017.  The Argo Program Present and Future. Oceanography. 30:18-28.
    Abstract Summary:

    The Argo Program has revolutionized large-scale physical oceanography through its contributions to basic research, national and international climate assessment, education, and ocean state estimation and forecasting. This article discusses the present status of Argo and enhancements that are underway. Extensions of the array into seasonally ice-covered regions and marginal seas as well as increased numbers of floats along the equator and...

  • Bowman J.S, Amaral-Zettler L.A, Rich J.J, Luria C.M, Ducklow H.W.  2017.  Bacterial community segmentation facilitates the prediction of ecosystem function along the coast of the western Antarctic Peninsula. Isme Journal. 11:1460-1471.
    Abstract Summary:

    Bacterial community structure can be combined with observations of ecophysiological data to build predictive models of microbial ecosystem function. These models are useful for understanding how function might change in response to a changing environment. Here we use five spring-summer seasons of bacterial community structure and flow cytometry data from a productive coastal site along the western Antarctic Peninsula to construct models of...

  • Koslow JA, McMonagle H., Watson W.  2017.  Influence of climate on the biodiversity and community structure of fishes in the southern California Current. Marine Ecology Progress Series. 571:193-206.
    Abstract Summary:

    Previous studies have reported dramatic declines of midwater fishes in the southern California Current System (CCS) in response to reduced deepwater oxygen concentration, and many CCS endemics and cool-water affinity taxa have also declined since 1969. Here we show that these abundance changes are associated with changes in the diversity of the CCS fish community. Species richness was positively associated with periods of relatively high...

  • Lee ZM-P, Poret-Peterson AT, Siefert JL, Kaul D, Moustafa A, Allen AE, Dupont CL, Eguiarte LE, Souza V, Elser JJ.  2017.  Nutrient stoichiometry shapes microbial community structure in an evaporitic shallow pond. Frontiers in Microbiology. 8
    Abstract Summary:

    Nutrient availability and ratios can play an important role in shaping microbial communities of freshwater ecosystems. The Cuatro Ciénegas Basin (CCB) in Mexico is a desert oasis where, perhaps paradoxically, high microbial diversity coincides with extreme oligotrophy. To better understand the effects of nutrients on microbial communities in CCB, a mesocosm experiment was implemented in a stoichiometrically imbalanced pond, Lagunita, which...

  • Lee Z.MP, Poret-Peterson A.T, Siefert J.L, Kaul D., Moustafa A., Allen A.E, Dupont C.L, Eguiarte L.E, Souza V., Elser J.J.  2017.  Nutrient stoichiometry shapes microbial community structure in an evaporitic shallow pond. Frontiers in Microbiology. 8
    Abstract Summary:

    Nutrient availability and ratios can play an important role in shaping microbial communities of freshwater ecosystems. The Cuatro Cienegas Basin (CCB) in Mexico is a desert oasis where, perhaps paradoxically, high microbial diversity coincides with extreme oligotrophy. To better understand the effects of nutrients on microbial communities in CCB, a mesocosm experiment was implemented in a stoichiometrically imbalanced pond, Lagunita, which...

  • Parker E.A, Rippy MA, Mehring A.S, Winfrey B.K, Ambrose R.F, Levin L.A, Grant S.B.  2017.  Predictive power of clean bed filtration theory for fecal indicator bacteria removal in stormwater biofilters. Environmental Science & Technology. 51:5703-5712.
    Abstract Summary:

    Green infrastructure (also referred to as low impact development, or LID) has the potential to transform urban stormwater runoff from an environmental threat to a valuable water resource. In this paper we focus on the removal of fecal indicator bacteria (FIB, a pollutant responsible for runoff associated inland and coastal beach closures) in stormwater biofilters (a common type of green infrastructure). Drawing on a combination of previously...

  • Shen S.G, Thompson A.R, Correa J., Fietzek P., Ayon P., Checkley DM.  2017.  Spatial patterns of Anchoveta (Engraulis ringens) eggs and larvae in relation to pCO(2) in the Peruvian upwelling system. Proceedings of the Royal Society B-Biological Sciences. 284
    Abstract Summary:

    Large and productive fisheries occur in regions experiencing or projected to experience ocean acidification. Anchoveta (Engraulis ringens) constitute the world's largest single-species fishery and live in one of the ocean's highest pCO(2) regions. We investigated the relationship of the distribution and abundance of Anchoveta eggs and larvae to natural gradients in pCO(2) in the Peruvian upwelling system. Eggs and larvae, zooplankton, and...

  • Highlighted Publication Locations of the study area and sampling sites.
    Abstract Summary:

    It is generally accepted that organic matter content and accumulation rate at the seafloor attenuate with increasing water depth. However, hadal trenches, which represent the deepest portion of the hydrosphere on Earth, do not abide by this universal rule. It has been speculated that hadal trenches would serve as organic matter depocenters, where bacteria-mediated organic matter degradation intensifies. Here we examine the contents of total...

  • Highlighted Publication Typical bleaching in October 2005 on the fringing reef inside Bahia Almirante, Bocas del Toro.
    Neal B.P, Khen A., Treibitz T., Beijbom O., O'Connor G., Coffroth M.A, Knowlton N, Kriegman D., Mitchell B.G, Kline DI.  2017.  Caribbean massive corals not recovering from repeated thermal stress events during 2005-2013. Ecology and Evolution. 7:1339-1353.
    Abstract Summary:

    Massive coral bleaching events associated with high sea surface temperatures are forecast to become more frequent and severe in the future due to climate change. Monitoring colony recovery from bleaching disturbances over multiyear time frames is important for improving predictions of future coral community changes. However, there are currently few multiyear studies describing long-term outcomes for coral colonies following acute bleaching...

  • Kahru M, Lee Z.P, Mitchell B.G.  2017.  Contemporaneous disequilibrium of bio-optical properties in the Southern Ocean. Geophysical Research Letters. 44:2835-2842.
    Abstract Summary:

    Significant changes in satellite-detected net primary production (NPP, mgCm(-2)d(-1)) were observed in the Southern Ocean during 2011-2016: an increase in the Pacific sector and a decrease in the Atlantic sector. While no clear physical forcing was identified, we hypothesize that the changes in NPP were associated with changes in the phytoplankton community and reflected in the concomitant bio-optical properties. Satellite algorithms for...

  • Agarwal V, Blanton JM, Podell S, Taton A, Schorn MA, Busch J, Lin Z, Schmidt EW, Jensen PR, Paul VJ et al..  2017.  Metagenomic discovery of polybrominated diphenyl ether biosynthesis by marine sponges. Nat Chem Biol. advance online publication
    Abstract Summary:

    Naturally produced polybrominated diphenyl ethers (PBDEs) pervade the marine environment and structurally resemble toxic man-made brominated flame retardants. PBDEs bioaccumulate in marine animals and are likely transferred to the human food chain. However, the biogenic basis for PBDE production in one of their most prolific sources, marine sponges of the order Dysideidae, remains unidentified. Here, we report the discovery of PBDE...

  • Kumar N., Feddersen F.  2017.  A new offshore transport mechanism for shoreline-released tracer induced by transient rip currents and stratification. Geophysical Research Letters. 44:2843-2851.
    Abstract Summary:

    Offshore transport from the shoreline across the inner shelf of early-stage larvae and pathogens is poorly understood yet is critical for understanding larval fate and dilution of polluted shoreline water. With a novel coupling of a transient rip current (TRC) generating surf zone model and an ocean circulation model, we show that transient rip currents ejected onto a stratified inner shelf induce a new, previously unconsidered offshore...

  • Reiss CS, Cossio A., Santora J.A, Dietrich K.S, Murray A., Mitchell B.G, Walsh J., Weiss E.L, Gimpel C., Jones CD et al..  2017.  Overwinter habitat selection by Antarctic krill under varying sea-ice conditions: implications for top predators and fishery management. Marine Ecology Progress Series. 568:1-16.
    Abstract Summary:

    Climate change will affect Antarctic krill Euphausia superba, krill-dependent predators, and fisheries in the Southern Ocean as areas typically covered by sea ice become ice-free in some winters. Research cruises conducted around the South Shetland Islands of the Antarctic Peninsula during winters with contrasting ice conditions provide the first acoustic estimates of krill biomass, habitat use, and association with top predators to examine...

  • Highlighted Publication 2011 algal bloom photo by Eddie Kisfaludy
    McGowan JA, Deyle ER, Ye H, Carter ML, Perretti CT, Seger KD, de Verneil A, Sugihara G.  2017.  Predicting coastal algal blooms in Southern California. Ecology.
    Abstract Summary:

    The irregular appearance of planktonic algae blooms off the coast of southern California has been a source of wonder for over a century. Although large algal blooms can have significant negative impacts on ecosystems and human health, a predictive understanding of these events has eluded science, and many have come to regard them as ultimately random phenomena. However, the highly nonlinear nature of ecological dynamics can give the...

  • Abstract Summary:

    Analyses of intrinsic biogeochemical markers, such as stable carbon (delta C-13) and nitrogen (delta N-15) isotopes, in animal tissues are used to investigate multiple ecological parameters for marine species. Their successful application relies on a mechanistic understanding of isotopic variations at the base of the food web because those variations influence isotope values in higher trophic level species. To better determine the potential...

  • Keen E.M, Wray J., Meuter H., Thompson K.L, Barlow JP, Picard C.R.  2017.  'Whale wave': shifting strategies structure the complex use of critical fjord habitat by humpbacks. Marine Ecology Progress Series. 567:211-233.
    Abstract Summary:

    A decade of visual surveys (2005-2014) revealed that humpbacks Megaptera novaeangliae occupy a temperate fjord system in British Columbia, Canada, in a wave pattern that propagates from outer channels in the summer to deep inland channels in late fall. Monte Carlo randomization confirmed this apparent pattern statistically. 'Before' and 'after' shift phases were most evident in July and October, respectively. We hypothesized that the 'whale...

  • Allen LZeigler, McCrow JP, Ininbergs K, Dupont CL, Badger JH, Hoffman JM, Ekman M, Allen AE, Bergman B, J. Venter C.  2017.  The Baltic Sea virome: Diversity and transcriptional activity of DNA and RNA viruses. mSystems. 2
    Abstract Summary:

    Metagenomic and metatranscriptomic data were generated from size-fractionated samples from 11 sites within the Baltic Sea and adjacent marine waters of Kattegat and freshwater Lake Torneträsk in order to investigate the diversity, distribution, and transcriptional activity of virioplankton. Such a transect, spanning a salinity gradient from freshwater to the open sea, facilitated a broad genome-enabled investigation of natural as well as...

  • Davis A., Abbriano R., Smith S.R, Hildebrand M.  2017.  Clarification of photorespiratory processes and the role of malic enzyme in diatoms. Protist. 168:134-153.
    Abstract Summary:

    Evidence suggests that diatom photorespiratory metabolism is distinct from other photosynthetic eukaryotes in that there may be at least two routes for the metabolism of the photorespiratory metabolite glycolate. One occurs primarily in the mitochondria and is similar to the C2 photorespiratory pathway, and the other processes glycolate through the peroxisomal glyoxylate cycle. Genomic analysis has identified the presence of key genes...

  • Zhang S.W, Chan K.YK, Shen Z., Cheung S.Y, Landry MR, Liu H.B.  2017.  A cryptic marine ciliate feeds on progametes of Noctiluca scintillans. Protist. 168:1-11.
    Abstract Summary:

    The dinoflagellate Noctiluca scintillans (Noctiluca) has the ability to reproduce sexually, which may help to increase or restore its population size during periods of blooms or environmental stress. Here, we documented for the first time a marine ciliate Strombidium sp. that feeds on Noctiluca's progametes undergoing stages 5 to 9 of nuclear division. This ciliate frequently swam on or around gametogenic and some vegetative Noctiluca cells....

  • Barnard P.L, Hoover D., Hubbard D.M, Snyder A., Ludka B.C, Allan J., Kaminsky G.M, Ruggiero P., Gallien T.W, Gabel L. et al..  2017.  Extreme oceanographic forcing and coastal response due to the 2015-2016 El Nino. Nature Communications. 8
    Abstract Summary:

    The El Nino-Southern Oscillation is the dominant mode of interannual climate variability across the Pacific Ocean basin, with influence on the global climate. The two end members of the cycle, El Nino and La Nina, force anomalous oceanographic conditions and coastal response along the Pacific margin, exposing many heavily populated regions to increased coastal flooding and erosion hazards. However, a quantitative record of coastal impacts is...

  • Abstract Summary:

    Diatoms are eukaryotic microalgae that are responsible for up to 40% of the ocean’s primary productivity. How diatoms respond to environmental perturbations such as elevated carbon concentrations in the atmosphere is currently poorly understood. We developed a transcriptional regulatory network based on various transcriptome sequencing expression libraries for different environmental responses to gain insight into the marine diatom’s...

  • Stukel M.R, Aluwihare LI, Barbeau K.A, Chekalyuk A.M, Goericke R, Miller AJ, Ohman MD, Ruacho A., Song H., Stephens B.M et al..  2017.  Mesoscale ocean fronts enhance carbon export due to gravitational sinking and subduction. Proceedings of the National Academy of Sciences of the United States of America. 114:1252-1257.
    Abstract Summary:

    Enhanced vertical carbon transport (gravitational sinking and subduction) at mesoscale ocean fronts may explain the demonstrated imbalance of new production and sinking particle export in coastal upwelling ecosystems. Based on flux assessments from U-238:Th-234 disequilibrium and sediment traps, we found 2 to 3 times higher rates of gravitational particle export near a deep-water front (305 mg C.m(-2).d(-1)) compared with adjacent water or to...

  • Gierach M.M, Holt B., Trinh R., Pan B.J, Rains C..  2017.  Satellite detection of wastewater diversion plumes in Southern California. Estuarine Coastal and Shelf Science. 186:171-182.
    Abstract Summary:

    Multi-sensor satellite observations proved useful in detecting surfacing wastewater plumes during the 2006 Hyperion Treatment Plant (HTP) and 2012 Orange County Sanitation District (OCSD) wastewater diversion events in Southern California. Satellite sensors were capable of detecting biophysical signatures associated with the wastewater, compared to ambient ocean waters, enabling monitoring of environmental impacts over a greater spatial...

  • Shen Y., Benner R., Murray A.E, Gimpel C., Mitchell B.G, Weiss E.L, Reiss C.  2017.  Bioavailable dissolved organic matter and biological hot spots during austral winter in Antarctic waters. Journal of Geophysical Research-Oceans. 122:508-520.
    Abstract Summary:

    Primary production and heterotrophic bacterial activity in the Antarctic Ocean are generally low during the austral winter. Organic carbon is considered to be a major factor limiting bacterial metabolism, but few studies have investigated the bioavailability of organic matter during winter. Herein, the chemical composition and bioavailability of dissolved organic matter (DOM) were investigated in surface (5-100 m) and mesopelagic (200-750 m)...

  • Zilberman N.V, Roemmich D.H, Gille ST.  2017.  The East Pacific Rise current: Topographic enhancement of the interior flow in the South Pacific Ocean. Geophysical Research Letters. 44:277-285.
    Abstract Summary:

    Observations of absolute velocity based on Argo float profiles and trajectories in the ocean interior show evidence for an equatorward current, the East Pacific Rise current, between 42 degrees S and 30 degrees S, along the western flank of the East Pacific Rise. The East Pacific Rise current carries predominantly intermediate water masses, including Subantarctic Mode Water and Antarctic Intermediate Water, and deeper waters, from the...

  • Kumar N., Feddersen F.  2017.  The effect of Stokes drift and transient rip currents on the inner shelf. Part i: No stratification. Journal of Physical Oceanography. 47:227-241.
    Abstract Summary:

    This is part one of a two-part study focused on Stokes drift and transient rip current (TRC) effects on the unstratified (this paper) and stratified (see Part II) inner shelf. A TRC-generating, wave-resolving model funwaveC is coupled to the 3D, wave-averaged wave and circulation model Coupled Ocean-Atmosphere-Wave- Sediment Transport (COAWST). Two simulations (R1 and R2) are performed on an unstratified inner shelf and surfzone with typical...

  • Kumar N., Feddersen F.  2017.  The effect of Stokes drift and transient rip currents on the inner shelf. Part ii: With stratification. Journal of Physical Oceanography. 47:243-260.
    Abstract Summary:

    This is Part II of a two-part study focused on Stokes drift and transient rip current (TRC) effects on the unstratified (Part I) and stratified (this paper) inner shelf. Part I focuses on funwaveC-Coupled Ocean-Atmosphere- Wave-Sediment Transport (COAWST) coupling and TRC effects on mixing and exchange on an unstratified inner shelf. Here, two simulations (R3 and R4) are performed on a stratified inner shelf and surfzone with typical...

  • Mock T, Otillar RP, Strauss J, McMullan M, Paajanen P, Schmutz J, Salamov A, Sanges R, Toseland A, Ward BJ et al..  2017.  Evolutionary genomics of the cold-adapted diatom Fragilariopsis cylindrus. Nature. :1-5.
    Abstract Summary:

    The Southern Ocean houses a diverse and productive community of organisms. Unicellular eukaryotic diatoms are the main primary producers in this environment, where photosynthesis is limited by low concentrations of dissolved iron and large seasonal fluctuations in light, temperature and the extent of sea ice. How diatoms have adapted to this extreme environment is largely unknown. Here we present insights into the genome evolution of a cold-...

  • Luo M, Algeo TJ, Tong H, Gieskes J, Chen L, Shi X, Chen D.  2017.  More reducing bottom-water redox conditions during the Last Glacial Maximum in the southern Challenger Deep (Mariana Trench, western Pacific) driven by enhanced productivity. Deep Sea Research Part II: Topical Studies in Oceanography.
    Abstract Summary:

    The modern southern Mariana Trench is characterized by oligotrophic surface waters, resulting in low primary productivity and well-oxygenated bottom waters. This study investigates changes in the redox conditions of bottom waters in the southern Mariana Trench during the Last Glacial Maximum (LGM) and their potential causes. We measured major, trace, and rare earth elements (REE) in three gravity cores (GC03, GC04, and GC05) and one box core...

  • Neira C, Cossaboon J, Mendoza G, Hoh E, Levin LA.  2017.  Occurrence and distribution of polycyclic aromatic hydrocarbons in surface sediments of San Diego Bay marinas. Marine Pollution Bulletin. 114:466-479.
    Abstract Summary:

    Polycyclic aromatic hydrocarbons (PAHs) have garnered much attention due to their bioaccumulation, carcinogenic properties, and persistence in the environment. Investigation of the spatial distribution, composition, and sources of PAHs in sediments of three recreational marinas in San Diego Bay, California revealed significant differences among marinas, with concentrations in one site exceeding 16,000 ng g− 1. ‘Hotspots’ of PAH concentration...

  • Jagannathan A., Winters KB, Armi L..  2017.  Stability of stratified downslope flows with an overlying stagnant isolating layer. Journal of Fluid Mechanics. 810:392-411.
    Abstract Summary:

    We investigate the dynamic stability of stratified flow configurations characteristic of hydraulically controlled downslope flow over topography. Extraction of the correct 'base state' for stability analysis from spatially and temporally evolving flows that exhibit instability is not easy since the observed flow in most cases has already been modified by nonlinear interactions between the instability modes and the mean flow. Analytical...

  • Barkan R, Winters KB, McWilliams J.C.  2017.  Stimulated imbalance and the enhancement of eddy kinetic energy dissipation by internal waves. Journal of Physical Oceanography. 47:181-198.
    Abstract Summary:

    The effects of internal waves (IWs), externally forced by high-frequency wind, on energy pathways are studied in submesoscale-resolving numerical simulations of an idealized wind-driven channel flow. Two processes are examined: the direct extraction of mesoscale energy by externally forced IWs followed by an IW forward energy cascade to dissipation and stimulated imbalance, a mechanism through which externally forced IWs trigger a forward...

  • Highlighted Publication
    Jaffe JS, Franks PJS, Roberts PLD, Mirza D, Schurgers C, Kastner R, Boch A.  2017.  A swarm of autonomous miniature underwater robot drifters for exploring submesoscale ocean dynamics. Nature Communications. 8:14189.
    Abstract Summary:

    Measuring the ever-changing 3-dimensional (3D) motions of the ocean requires simultaneous sampling at multiple locations. In particular, sampling the complex, nonlinear dynamics associated with submesoscales (<1–10 km) requires new technologies and approaches. Here we introduce the Mini-Autonomous Underwater Explorer (M-AUE), deployed as a swarm of 16 independent vehicles whose 3D trajectories are measured near-continuously, underwater. As...

  • Smith SR, Gillard JTF, Kustka AB, McCrow JP, Badger JH, Zheng H, New AM, Dupont CL, Obata T, Fernie AR et al..  2016.  Transcriptional orchestration of the global cellular response of a model pennate diatom to diel light cycling under iron limitation. Plos Genetics. 12:e1006490.
    Abstract Summary:

    Author Summary Oceanic diatoms live in constantly fluctuating environments to which they must adapt in order to survive. During sunlit hours, photosynthesis occurs allowing diatoms to store energy used at night to sustain energy demands. Cellular and molecular mechanisms for regulation of phytoplankton growth are important to understand because of their environmental roles at the base of food webs and in regulating carbon flux out of the...

  • Palaseanu-Lovejoy M., Danielson J., Thatcher C., Foxgrover A., Barnard P., Brock J., Young A..  2016.  Automatic delineation of seacliff limits using lidar-derived high-resolution DEMs in Southern California. Journal of Coastal Research. :162-173.
    Abstract Summary:

    Seacliff erosion is a serious hazard with implications for coastal management and is often estimated using successive hand-digitized cliff tops or bases (toe) to assess cliff retreat. Even if efforts are made to standardize manual digitizing and eliminate subjectivity, the delineation of cliffs is time-consuming and depends on the analyst's interpretation. An automatic procedure is proposed to extract cliff edges from high-resolution lidar-...

  • Levin L.A, Mengerink K., Gjerde K.M, Rowden A.A, Van Dover C.L, Clark M.R, Ramirez-Llodra E., Currie B., Smith C.R, Sato K.N et al..  2016.  Defining "serious harm" to the marine environment in the context of deep-seabed mining. Marine Policy. 74:245-259.
    Abstract Summary:

    Increasing interest in deep-seabed mining has raised many questions surrounding its potential environmental impacts and how to assess the impacts' significance. Under the United Nations Convention on the Law of the Sea (UNCLOS), the International Seabed Authority (ISA) is charged with ensuring effective protection of the marine environment as part of its responsibilities for managing mining in seabed areas beyond national jurisdiction (the...

  • Navarro M.O, Kwan G.T, Batalov O., Choi C.Y, Pierce N.T, Levin L.A.  2016.  Development of embryonic market squid, Doryteuthis opalescens, under chronic exposure to low environmental pH and O-2. Plos One. 11
    Abstract Summary:

    The market squid, Doryteuthis opalescens, is an important forage species for the inshore ecosystems of the California Current System. Due to increased upwelling and expansion of the oxygen minimum zone in the California Current Ecosystem, the inshore environment is expected to experience lower pH and [O-2] conditions in the future, potentially impacting the development of seafloor-attached encapsulated embryos. To understand the consequences...

  • Valencia B., Landry MR, Decima M, Hannides C.CS.  2016.  Environmental drivers of mesozooplankton biomass variability in the North Pacific Subtropical Gyre. Journal of Geophysical Research-Biogeosciences. 121:3131-3143.
    Abstract Summary:

    The environmental drivers of zooplankton variability are poorly explored for the central subtropical Pacific, where a direct bottom-up food-web connection is suggested by increasing trends in primary production and mesozooplankton biomass at station ALOHA (A Long-term Oligotrophic Habitat Assessment) over the past 20 years (1994-2013). Here we use generalized additive models (GAMs) to investigate how these trends relate to the major modes of...

  • Nagano A., Kizu S., Hanawa K., Roemmich D..  2016.  Heat transport variation due to change of North Pacific subtropical gyre interior flow during 1993-2012. Ocean Dynamics. 66:1637-1649.
    Abstract Summary:

    Applying segment-wise altimetry-based gravest empirical mode method to expendable bathythermograph temperature, Argo salinity, and altimetric sea surface height data in March, June, and November from San Francisco to near Japan (30(ay) N, 145(ay) E) via Honolulu, we estimated the component of the heat transport variation caused by change in the southward interior geostrophic flow of the North Pacific subtropical gyre in the top 700 m layer...

  • Donohue K.A, Tracey K.L, Watts D.R, Chidichimo M.P, Chereskin TK.  2016.  Mean Antarctic Circumpolar Current transport measured in Drake Passage. Geophysical Research Letters. 43:11,760-11,767.
    Abstract Summary:

    The Antarctic Circumpolar Current is an important component of the global climate system connecting the major ocean basins as it flows eastward around Antarctica, yet due to the paucity of data, it remains unclear how much water is transported by the current. Between 2007 and 2011 flow through Drake Passage was continuously monitored with a line of moored instrumentation with unprecedented horizontal and temporal resolution. Annual mean near-...

  • Abrams P.A, Ainley D.G, Blight L.K, Dayton PK, Eastman J.T, Jacquet J.L.  2016.  Necessary elements of precautionary management: implications for the Antarctic toothfish. Fish and Fisheries. 17:1152-1174.
    Abstract Summary:

    We review the precautionary approach to fisheries management, propose a framework that will allow a systematic assessment of insufficient precaution and provide an illustration using an Antarctic fishery. For a single-species fishery, our framework includes five attributes: (1) limit reference points that recognize gaps in our understanding of the dynamics of the species; (2) accurate measures of population size; (3) ability to detect...

  • Mehring A.S, Hatt B.E, Kraikittikun D., Orelo B.D, Rippy MA, Grant S.B, Gonzalez J.P, Jiang S.C, Ambrose R.F, Levin L.A.  2016.  Soil invertebrates in Australian rain gardens and their potential roles in storage and processing of nitrogen. Ecological Engineering. 97:138-143.
    Abstract Summary:

    Research on rain gardens generally focuses on hydrology, geochemistry, and vegetation. The role of soil invertebrates has largely been overlooked, despite their well-known impacts on soil nutrient storage, removal, and processing. Surveys of three rain gardens in Melbourne, Australia, revealed a soil invertebrate community structure that differed significantly among sites but was stable across sampling dates (July 2013 and April 2014)....

  • Knee K.L, Crook E.D, Hench J.L, Leichter J.J, Paytan A..  2016.  Assessment of submarine groundwater discharge (SGD) as a source of dissolved radium and nutrients to Moorea (French Polynesia) coastal waters. Estuaries and Coasts. 39:1651-1668.
    Abstract Summary:

    Previous work has documented large fluxes of freshwater and nutrients from submarine groundwater discharge (SGD) into the coastal waters of a few volcanic oceanic islands. However, on the majority of such islands, including Moorea (French Polynesia), SGD has not been studied. In this study, we used radium (Ra) isotopes and salinity to investigate SGD and associated nutrient inputs at five coastal sites and Paopao Bay on the north shore of...

  • Burkett A.M, Rathburn A.E, Perez M.E, Levin L.A, Martin J.B.  2016.  Colonization of over a thousand Cibicidoides wuellerstorfi (foraminifera: Schwager, 1866) on artificial substrates in seep and adjacent off-seep locations in dysoxic, deep-sea environments. Deep-Sea Research Part I-Oceanographic Research Papers. 117:39-50.
    Abstract Summary:

    After-1 yr on the seafloor at water depths of similar to 700 m on Hydrate Ridge in the Pacific, eight colonization experiments composed primarily of a plastic mesh cube (from here on refered to as SEA(3), for Seafloor Epibenthic Attachment Cubes) were colonized by 1076 Cibicidoides wuellerstorfi on similar to 1841 cm(2) of experimental substrate. This species is typically considered an indicator of well-oxygenated conditions, and recruitment...

sharknado