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The MALINA oceanographic campaign was conducted during summer 2009 to investigate the carbon stocks and the processes controlling the carbon fluxes in the Mackenzie River estuary and the Beaufort Sea. During the campaign, an extensive suite of physical, chemical and biological variables was measured across seven shelf–basin transects (south-north) to capture the meridional gradient between the estuary and the open ocean. Key variables such as temperature, absolute salinity, radiance, irradiance, nutrient concentrations, chlorophyll-a concentration, bacteria, phytoplankton and zooplankton abundance and taxonomy, and carbon stocks and fluxes were routinely measured onboard the Canadian research icebreaker CCGS Amundsen and from a barge in shallow coastal areas or for sampling within broken ice fields. Here, we present the results of a joint effort to tidy and standardize the collected data sets that will facilitate their reuse in further studies of the changing Arctic Ocean. The dataset is available at https://doi.org/10.17882/75345 (Massicotte2020b).

Contains fulltext : 205174.pdf (publisher's version ) (Closed access), Microbes drive most ecosystems and are modulated by viruses that impact their lifespan, gene flow, and metabolic outputs. However, ecosystem-level impacts of viral community diversity remain difficult to assess due to classification issues and few reference genomes. Here, we establish an approximately 12-fold expanded global ocean DNA virome dataset of 195,728 viral populations, now including the Arctic Ocean, and validate that these populations form discrete genotypic clusters. Meta-community analyses revealed five ecological zones throughout the global ocean, including two distinct Arctic regions. Across the zones, local and global patterns and drivers in viral community diversity were established for both macrodiversity (inter-population diversity) and microdiversity (intra-population genetic variation). These patterns sometimes, but not always, paralleled those from macro-organisms and revealed temperate and tropical surface waters and the Arctic as biodiversity hotspots and mechanistic hypotheses to explain them. Such further understanding of ocean viruses is critical for broader inclusion in ecosystem models.

High primary productivity in the equatorial Atlantic and Pacific oceans is one of the key features of tropical ocean biogeochemistry and fuels a substantial flux of particulate matter towards the abyssal ocean. How biological processes and equatorial current dynamics shape the particle size distribution and flux, however, is poorly understood. Here we use high-resolution size-resolved particle imaging and Acoustic Doppler Current Profiler data to assess these influences in equatorial oceans. We find an increase in particle abundance and flux at depths of 300 to 600 m at the Atlantic and Pacific equator, a depth range to which zooplankton and nekton migrate vertically in a daily cycle. We attribute this particle maximum to faecal pellet production by these organisms. At depths of 1,000 to 4,000 m, we find that the particulate organic carbon flux is up to three times greater in the equatorial belt (1° S–1° N) than in off-equatorial regions. At 3,000 m, the flux is dominated by small particles less than 0.53 mm in diameter. The dominance of small particles seems to be caused by enhanced active and passive particle export in this region, as well as by the focusing of particles by deep eastward jets found at 2° N and 2° S. We thus suggest that zooplankton movements and ocean currents modulate the transfer of particulate carbon from the surface to the deep ocean.

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 0.05ms�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.

Item does not contain fulltext, Ocean microbes drive biogeochemical cycling on a global scale. However, this cycling is constrained by viruses that affect community composition, metabolic activity, and evolutionary trajectories. Owing to challenges with the sampling and cultivation of viruses, genome-level viral diversity remains poorly described and grossly understudied, with less than 1% of observed surface-ocean viruses known. Here we assemble complete genomes and large genomic fragments from both surface- and deep-ocean viruses sampled during the Tara Oceans and Malaspina research expeditions, and analyse the resulting 'global ocean virome' dataset to present a global map of abundant, double-stranded DNA viruses complete with genomic and ecological contexts. A total of 15,222 epipelagic and mesopelagic viral populations were identified, comprising 867 viral clusters (defined as approximately genus-level groups). This roughly triples the number of known ocean viral populations and doubles the number of candidate bacterial and archaeal virus genera, providing a near-complete sampling of epipelagic communities at both the population and viral-cluster level. We found that 38 of the 867 viral clusters were locally or globally abundant, together accounting for nearly half of the viral populations in any global ocean virome sample. While two-thirds of these clusters represent newly described viruses lacking any cultivated representative, most could be computationally linked to dominant, ecologically relevant microbial hosts. Moreover, we identified 243 viral-encoded auxiliary metabolic genes, of which only 95 were previously known. Deeper analyses of four of these auxiliary metabolic genes (dsrC, soxYZ, P-II (also known as glnB) and amoC) revealed that abundant viruses may directly manipulate sulfur and nitrogen cycling throughout the epipelagic ocean. This viral catalog and functional analyses provide a necessary foundation for the meaningful integration of viruses into ecosystem models where they a

While production of aggregates and their subsequent sinking is known to be one pathway for the downward movement of organic matter from the euphotic zone, the rapid transition from non-aggregated to aggregated particles has not been reported previously. We made one vertical profile of particle size distributions (PSD; sizes ranging from 0.052 to several millimeters in equivalent spherical diameter) at pre-bloom stage and seven vertical profiles 3 weeks later over a 48 h period at early bloom stage using the Underwater Vision Profiler during the Kerguelen Ocean and Plateau Compared Study cruise 2 (KEOPS2, October-November 2011). In these naturally iron-fertilized waters southeast of Kerguelen Island (Southern Ocean), the total particle numerical abundance increased by more than fourfold within this time period. A massive total volume increase associated with particle size distribution changes was observed over the 48 h survey, showing the rapid formation of large particles and their accumulation at the base of the mixed layer. The results of a one-dimensional particle dynamics model support coagulation as the mechanism responsible for the rapid aggregate formation and the development of the V-T subsurface maxima. The comparison of VT profiles between early bloom stage and pre-bloom stage indicates an increase of particulate export below 200 m when bloom has developed. These results highlight the role of coagulation in forming large particles and triggering carbon export at the early stage of a naturally iron-fertilized bloom, while zooplankton grazing may dominate later in the season. The rapid changes observed illustrate the critical need to measure carbon export flux with high sampling temporal resolution. Our results are the first published in situ observations of the rapid accumulation of marine aggregates and their export and the general agreement of this rapid event with a model of phytoplankton growth and coagulation.

The dynamics of mesoscale eddies of the Leeuwin Current off Western Australia (WA) are critical for regional fisheries. We spent a month documenting the dynamics of a large mesoscale eddy accelerating off WA as it formed. The vortex trapped coastal organisms including fish larvae and plankton, and impacted nutrient fluxes and primary productivity. Eddies have been shown to transport a substantial fraction of the heat and momentum flux of the Leeuwin Current, and may be crucial transporters of productive coastal water into the open ocean. Here we hypothesize that they may transport particulte carbon, and possibly dissolved and/or volatile organic carbon, up to 1000 m below the surface, contributing substantially to vertical fluxes in the ocean.

Vertical distributions and diel migrations at nineteen stations located in the Ligurian and Tyrrhenian Seas (northwestem Mediterranean) are described in detail and compared for the main species of micronekton and macroplankton. Sampling was performed in April 1994 in the 0-700 m water column in most cases, down to 350, 450 or 550 m for the coastal or relatively shallow sites. Most of the twenty species showed similar distributions throughout the sampled area, either non-diel-migrating distributions such as the euphausiid Stylocheiron longicorne and the fish Cyclothone braueri, or clear diel-migrant behaviour (e.g. the siphonophore Chelophyes appendiculata and the euphausiid Euphausia krohni). Four species, the siphonophore Lensia conoidea, the pteropods Cavolinia inflexa and Clio pyramidata and the salp Salpa fusiformis, showed heterogeneity between distributions, with different preferential daytime depths. For example, moderate or extensive migration and even slight reverse migration were observed in Lensia conoidea, depending on the station sampled. The differences in vertical distributions did not appear to be related to hydrological conditions (temperature, salinity); but rather to chlorophyll content land ambient light) or bottom depth of the station, or to mating behaviour of the species., Cette étude présente et compare les distributions verticales et les migrations nycthémérales des principales espèces de macroplancton et de micronecton observées en mer Ligure et en mer Tyrrhénienne (Méditerranée nord-occidentale). Dix-neuf stations ont été échantillonnées, en avril 1994, jusqu'à 700 m de profondeur généralement ou jusqu'à 350, 450 ou 550 m pour les zones côtières ou peu profondes. La majorité des vingt espèces étudiées montre des distributions similaires sur l'ensemble de la zone, avec la même distribution de jour et de nuit (c'est par exemple le cas de l'euphausiacé Stylocheiron longicorne et du poisson Cyclothone braueri) ou le même comportement migratoire (comme pour le siphonophore Chelophyes appendiculata et l'euphausiacéEuphausia krohni). Quatre espèces, le siphonophore Lensia conoidea, les ptéropodes Cavolinia inflexa et Clio pyramidata et la salpe Salpa fusiformis, présentent des distributions variables, avec des niveaux bathymétriques preférentiels différents le jour. Ainsi, selon la station échantillonnée, on observe chez Lensia conoidea une migration modérée ou de grande amplitude, ou même une légère migration inverse. Ces différences de distributions verticales n'apparaissent pas liées aux conditions hydrologiques (température, salinité); elles seraient plutôt associées au contenu en chlorophylle (et à la lumière ambiante) ou à la profondeur du site, ou aussi au comportement reproducteur de l'espèce.