On the factors influencing the development of sporadic upwelling in the Leeuwin Current system

While there is no persistent upwelling along the West-Australian (WA) coastline, sporadic upwelling events have been documented primarily in summer. By analyzing comparatively the variability of both Ekman and geostrophic cross-shore transports over a seasonal cycle, we show that the situation is more contrasted. Based on a composite index computed from satellite data over a 15 year period, calibrated with well documented events, we investigate the factors influencing the development of sporadic upwelling in the region. Overall, the occurrence of transient upwelling events lasting 3–10 days varies largely in space and time. Shelf regions at 31.5 and 34°S are favored with up to 12 upwelling days per month during the austral spring/summer. Although being generally favored from September to April, sporadic upwelling events can also occur at any time of the year at certain locations north of 30°S. On average over 1995–2010, the Ningaloo region (22.5°S) cumulates the highest number of upwelling (∼140 days per year) and is characterized by longer events. The intensity of intermittent upwelling is influenced by the upwelling-favorable winds, the characteristics of the Leeuwin Current (e.g., onshore geostrophic flow, mesoscale eddies and meanders, stratification and nitracline) and the local topography. This suggests that short-living nutrient enrichment of variable magnitude may occur at any time of the year at many locations along the WA coast.This research was supported under Australian Research Council's Discovery Project funding scheme (DP1093510) which also supports V.R. acknowledges support from MICINN and FEDER through project ESCOLA (CTM2012-39025-C02-01) while revising this paper. M.F. is supported by the CSIRO Wealth from Oceans Flagship. The authors acknowledge J. Sudre who provided the satellite archives. QuikSCAT and SeaWinds data are produced by Remote Sensing Systems and sponsored by the NASA Ocean Vector Winds Science Team.Peer reviewe

Towards a Best Practice for Developing Best Practices in Ocean Observation (BP4BP): Supporting Methodological Evolution through Actionable Documentation

IOC Manuals and Guides, 84 Abstract Ever-increasing complexity and multi-dimensionality of ocean investigations present a challenge for the ocean community as we collaboratively (co-)develop methods to research, monitor, and use our oceans. To support transparent sharing of methods, and ultimately agree on best practices in ocean research, operations, and application, the IOC Ocean Best Practices System (OBPS) was initially developed as an Ocean Data Standards project deliverable of the International Oceanographic Data Exchange (IODE) who in 2017 joined with the AtlantOS/ODIP/RCN Best Practices Working Group (BPWG) to develop it into a System. In 2019 the IOC Ocean Best Practices System was approved as a UNESCO/Intergovernmental Oceanographic Commission (IOC) Project, jointly funded by the IODE and GOOS Programmes. In this document, we provide guidance on how to best use the OBPS templates, allowing greater discovery, machine readability, sharing, and understandability of methods and best practices. We clarify how to optimally populate the different sections of an OBPS template, and describe how those sections support the evolution of each OBPS submission, towards a global best practice. Further, we discuss some general challenges in developing methods into community-accepted best practices. While this document focuses on the OBPS, it also offers a perspective on the general challenge of structuring and harmonising method documentation. We invite the community to provide feedback on this document (link to Community review), to contribute towards a generalised best practice for advanced methodological management across the ocean community

Simple mixing criteria for the growth of negatively buoyant phytoplankton

Phytoplankton population dynamics are controlled by the relative rather than absolute timescales of mixing, growth, and loss processes such as sedimentation, grazing, and so on. Here, the vertical distribution and biomass of phytoplankton populations are quantified by two timescale ratios: the Peclet number Pe the ratio of mixing and sedimentation timescales-and the growth number G the ratio of sedimentation and net growth timescales. Three mixing regimes are defined for phytoplankton and other particles. For Pe greater than or equal to 100, the population is translated linearly down the water column over time and will leave the surface mixing layer completely after sedimentation time 7, For 0.

Particle tracking in a salinity gradient: A method for measuring sinking rate of individual phytoplankton in the laboratory

This paper presents a new method to measure the sinking rates of individual phytoplankton “particles” (cells, chains, colonies, and aggregates) in the laboratory. Conventional particle tracking and high resolution video imaging were used to measure particle sinking rates and particle size. The stabilizing force of a very mild linear salinity gradient (1 ppt over 15 cm) prevented the formation of convection currents in the laboratory settling chamber. Whereas bulk settling methods such as SETCOL provide a single value of sinking rate for a population, this method allows the measurement of sinking rate and particle size for a large number of individual particles or phytoplankton within a population. The method has applications where sinking rates vary within a population, or where sinking rate-size relationships are important. Preliminary data from experiments with both laboratory and field samples of marine phytoplankton are presented here to illustrate the use of the technique, its applications, and limitations. Whereas this paper deals only with sinking phytoplankton, the method is equally valid for positively buoyant species, as well as nonbiological particles

The wineglass effect shapes particle export to the deep ocean in mesoscale eddies

Mesoscale eddies in the ocean strongly impact the distribution of planktonic particles, mediating carbon fluxes over ~1/3 of the world ocean. However, mechanisms controlling particle transport through eddies are complex and challenging to measure in situ. Here we show the subsurface distribution of eddy particles funneled into a wineglass shape down to 1000 m, leading to a sevenfold increase of vertical carbon flux in the eddy center versus the eddy flanks, the “wineglass effect”. We show that the slope of the wineglass (R) is the ratio of particle sinking velocity to the radially inward velocity, such that R represents a tool to predict radial particle movement (here 0.05 m s−1). A simple model of eddy spindown predicts such an ageostrophic flow concentrating particles in the eddy center. We explore how size-specific particle flux toward the eddy center impacts eddies' biogeochemistry and export fluxes

Simultaneous Quantification of Active Carbon- and Nitrogen-Fixing Communities and Estimation of Fixation Rates Using Fluorescence In Situ Hybridization and Flow Cytometry

Understanding the interconnectivity of oceanic carbon and nitrogen cycles, specifically carbon and nitrogen fixation, is essential in elucidating the fate and distribution of carbon in the ocean. Traditional techniques measure either organism abundance or biochemical rates. As such, measurements are performed on separate samples and on different time scales. Here, we developed a method to simultaneously quantify organisms while estimating rates of fixation across time and space for both carbon and nitrogen. Tyramide signal amplification fluorescence in situ hybridization (TSA-FISH) of mRNA for functionally specific oligonucleotide probes for rbcL (ribulose-1,5-bisphosphate carboxylase/oxygenase; carbon fixation) and nifH (nitrogenase; nitrogen fixation) was combined with flow cytometry to measure abundance and estimate activity. Cultured samples representing a diversity of phytoplankton (cyanobacteria, coccolithophores, chlorophytes, diatoms, and dinoflagellates), as well as environmental samples from the open ocean (Gulf of Mexico, USA, and southeastern Indian Ocean, Australia) and an estuary (Galveston Bay, Texas, USA), were successfully hybridized. Strong correlations between positively tagged community abundance and 14C/15N measurements are presented. We propose that these methods can be used to estimate carbon and nitrogen fixation in environmental communities. The utilization of mRNA TSA-FISH to detect multiple active microbial functions within the same sample will offer increased understanding of important biogeochemical cycles in the ocean

Cross-shelf transport, oxygen depletion, and nitrate release within a forming mesoscale eddy in the eastern Indian Ocean

International audienceMesoscale eddies may drive a significant component of cross-shelf transport important in the ecology of shelf ecosystems and adjacent boundary currents. The Leeuwin Current in the eastern Indian Ocean becomes unstable in the austral autumn triggering the formation of eddies. We hypothesized that eddy formation represented the major driver of cross-shelf transport during the autumn. Acoustic Doppler Current Profiler profiles confirmed periodic offshore movement of 2 Sv of shelf waters into the forming eddy from the shelf, carrying a load of organic particles (>0.06 mm). The gap between inflow and outflow then closed, such that the eddy became isolated from further direct input of shelf waters. Drifter tracks supported an anticyclonic surface flow peaking at the eddy perimeter and decreasing in velocity at the eddy center. Oxygen and nutrient profiles suggested rapid remineralization of nitrate mid-depth in the isolated water mass as it rotated, with a total drawdown of oxygen of 3.6 mol m 22 to 350 m. Depletion of oxygen, and release of nitrate, occurred on the timescale of 1 week. We suggest that N supply and N turnover are rapid in this system, such that nitrate is acting primarily as a regenerated nutrient rather than as a source of new nitrogen. We hypothesize that sources of eddy particulate C and N could include particles sourced from coastal primary producers within 500 km such as macrophytes and sea-grasses known to produce copious detritus, which is prone to resuspension and offshore transport

The relative importance of phytoplankton aggregates and zooplankton fecal pellets to carbon export: insights from free-drifting sediment trap deployments in naturally iron-fertilised waters near the Kerguelen Plateau

The first KErguelen Ocean and Plateau compared Study (KEOPS1), conducted in the naturally iron-fertilised Kerguelen bloom, demonstrated that fecal material was the main pathway for exporting carbon to the deep ocean during summer (January–February 2005), suggesting a limited role of direct export via phytodetrital aggregates. The KEOPS2 project reinvestigated this issue during the spring bloom initiation (October–November 2011), when zooplankton communities may exert limited grazing pressure, and further explored the link between carbon flux, export efficiency and dominant sinking particles depending upon surface plankton community structure. Sinking particles were collected in polyacrylamide gel-filled and standard free-drifting sediment traps (PPS3/3), deployed at six stations between 100 and 400 m, to examine flux composition, particle origin and their size distributions. Results revealed an important contribution of phytodetrital aggregates (49+/-10 and 45+/-22% of the total number and volume of particles respectively, all stations and depths averaged). This high contribution dropped when converted to carbon content (30+/-16% of total carbon, all stations and depths averaged), with cylindrical fecal pellets then representing the dominant fraction (56+/-19 %). At 100 and 200m depth, iron- and biomass-enriched sites exhibited the highest carbon fluxes (maxima of 180 and 84+/- 27 mgCm-2 d-1, based on gel and PPS3/3 trap collection respectively), especially where large fecal pellets dominated over phytodetrital aggregates. Below these depths, carbon fluxes decreased (48+/-21%decrease on average between 200 and 400 m), and mixed aggregates composed of phytodetritus and fecal matter dominated, suggesting an important role played by physical aggregation in deep carbon export. Export efficiencies determined from gels, PPS3/3 traps and 234Th disequilibria (200m carbon flux/net primary productivity) were negatively correlated to net primary productivity with observed decreases from ~0.2 at low-iron sites to ~0.02 at high-iron sites. Varying phytoplankton communities and grazing pressure appear to explain this negative relationship. Our work emphasises the need to consider detailed plankton communities to accurately identify the controls on carbon export efficiency, which appear to include small spatio-temporal variations in ecosystem structure

Production and ecosystem structure in cold‐core vs. warm‐core eddies: Implications for the zooplankton isoscape and rock lobster larvae

Anticyclonic (warm-core) mesoscale eddies (WCEs) in the Eastern Indian Ocean carry higher surface chlorophyll signatures than cyclonic (cold-core) eddies (CCEs). Paradoxically, WCEs host rock lobster larvae (phyllosomas) with lower lipid stores and protein reserves than phyllosomas in CCEs, suggesting a poorer nutritional status. We assess primary productivity and zooplankton isotopic data from eight eddies across four research voyages (2003–2011) to determine how this contradiction might occur. We find that WCEs and CCEs are equally productive per unit chlorophyll a, but depth-integrated primary production (PP) is greater in eddies with shallower mixed layers (MLs), especially in CCEs. MLs tend to be shallower in CCEs than in WCEs because the pycnocline is closer to the surface. This, in combination with stronger stratification in CCE euphotic zones than those of WCEs, supports greater flagellate and dinoflagellate populations in CCEs. These phytoplankton provide high-quality nutrition for zooplankton, which feed on average ~ 0.6 trophic level lower in CCEs with the shallowest MLs, accumulating high lipid stores. Conversely, WCEs have, on average, ~ 70 m deeper MLs than CCEs, and host a phytoplankton community with more diatoms. Diatoms provide lower quality food for zooplankton, and zooplankton lipid stores in WCEs decline with trophic level, and possibly, with time after initial (or seasonal) nutrient injection. As a result, phyllosomas in CCEs have higher energy and lipid content than those in warm-core eddies. The resolution of the paradox, therefore, is that the higher surface chlorophyll signatures of WCEs are not representative of the nutritional value of the prey field of the phyllosoma. We also conclude that interannual variations of mixed layer depth occur at a regional scale, controlling PP