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Oxygen availability drives changes in microbial diversity and biogeochemical cycling between the aerobic surface layer and the anaerobic core in nitrite-rich anoxic marine zones (AMZs), which constitute huge oxygen-depleted regions in the tropical oceans. The current paradigm is that primary production and nitrification within the oxic surface layer fuel anaerobic processes in the anoxic core of AMZs, where 30–50% of global marine nitrogen loss takes place. Here we demonstrate that oxygenic photosynthesis in the secondary chlorophyll maximum (SCM) releases significant amounts of O2 to the otherwise anoxic environment. The SCM, commonly found within AMZs, was dominated by the picocyanobacteria Prochlorococcus spp. Free O2 levels in this layer were, however, undetectable by conventional techniques, reflecting a tight coupling between O2 production and consumption by aerobic processes under apparent anoxic conditions. Transcrip-tomic analysis of the microbial community in the seemingly anoxic SCM revealed the enhanced expression of genes for aerobic processes, such as nitrite oxidation. The rates of gross O2 production and carbon fixation in the SCM were found to be similar to those reported for nitrite oxidation, as well as for anaerobic dissimilatory nitrate reduction and sulfate reduction, suggesting a significant effect of local oxygenic photosynthesis on Pacific AMZ biogeochemical cycling.

Oxygen minimum zones are expanding globally, and at present account for around 20–40% of oceanic nitrogen loss. Heterotrophic denitrification and anammox—anaerobic ammonium oxidation with nitrite—are responsible for most nitrogen loss in these low-oxygen waters. Anammox is particularly significant in the eastern tropical South Pacific, one of the largest oxygen minimum zones globally. However, the factors that regulate anammox-driven nitrogen loss have remained unclear. Here, we present a comprehensive nitrogen budget for the eastern tropical South Pacific oxygen minimum zone, using measurements of nutrient concentrations, experimentally determined rates of nitrogen transformation and a numerical model of export production. Anammox was the dominant mode of nitrogen loss at the time of sampling. Rates of anammox, and related nitrogen transformations, were greatest in the productive shelf waters, and tailed off with distance from the coast. Within the shelf region, anammox activity peaked in both upper and bottom waters. Overall, rates of nitrogen transformation, including anammox, were strongly correlated with the export of organic matter. We suggest that the sinking of organic matter, and thus the release of ammonium into the water column, together with benthic ammonium release, fuel nitrogen loss from oxygen minimum zones. Oxygen minimum zones account for a significant fraction of oceanic nitrogen loss. Observational and experimental data suggest that marine nitrogen loss is strongly tied to organic matter export in the South Pacific oxygen minimum zone.

On-going climate change is now recognized to yield physiological stresses on marine species, with potentially detrimental effects on ecosystems. Here, we evaluate the prospect of using climate velocities (CV) of the metabolic index (Φ) for assessing changes in habitat in the SEP. Our approach is based on a species with mean ecophysiotype (i.e. model species) and the use of a global Earth System Model simulation (ESM) under RCP 8.5 scenario. The SEP is chosen as a case study as it hosts an Oxygen Minimum Zone and seamounts systems sustaining local communities through artisanal fisheries. Our results indicate that CVΦ pattern is mainly constrained by the oxygen distribution and that its sign is affected by contrasting oxygen trends (including a re-oxygenation in the upper OMZ) and warming. We further show that CVΦ is weakly dependent on physiological traits composing Φ, which conveys to this metrics some value for inferring the projected mean displacement and potential changes in viability of metabolic habitat in a region where physiological data are scarce. Based on sensitivity experiments to physiological traits and natural variability, we propose a general method for inferring broad areas of climate change exposure regardless of species-specific Φ. We show in particular that for the ESM used here, the upper OMZ region can be considered a “safe” area for the species with ecophysiotype close to that of 71 species used to derive the model species. Limitations of the approach and perspectives of this work are also discussed.

In addition to being one of the most productive upwelling systems, the oceanic region off Peru is embedded in one of the most extensive oxygen minimum zones (OMZs) of the world ocean. The dynamics of the OMZ off Peru remain uncertain, partly due to the scarcity of data and to the ubiquitous role of mesoscale activity on the circulation and biogeochemistry. Here we use a high-resolution coupled physical/biogeochemical model simulation to investigate the seasonal variability of the OMZ off Peru. The focus is on characterizing the seasonal cycle in dissolved O2 (DO) eddy flux at the OMZ boundaries, including the coastal domain, viewed here as the eastern boundary of the OMZ, considering that the mean DO eddy flux in these zones has a significant contribution to the total DO flux. The results indicate that the seasonal variations of the OMZ can be interpreted as resulting from the seasonal modulation of the mesoscale activity. Along the coast, despite the increased seasonal low DO water upwelling, the DO peaks homogeneously over the water column and within the Peru Undercurrent (PUC) in austral winter, which results from mixing associated with the increase in both the intraseasonal wind variability and baroclinic instability of the PUC. The coastal ocean acts therefore as a source of DO in austral winter for the OMZ core, through eddy-induced offshore transport that is also shown to peak in austral winter. In the open ocean, the OMZ can be divided vertically into two zones: an upper zone above 400 m, where the mean DO eddy flux is larger on average than the mean seasonal DO flux and varies seasonally, and a lower part, where the mean seasonal DO flux exhibits vertical–zonal propagating features that share similar characteristics than those of the energy flux associated with the annual extratropical Rossby waves. At the OMZ meridional boundaries where the mean DO eddy flux is large, the DO eddy flux has also a marked seasonal cycle that peaks in austral winter (spring) at the northern (southern) boundary. In the model, the amplitude of the seasonal cycle is 70 % larger at the southern boundary than at the northern boundary. Our results suggest the existence of distinct seasonal regimes for the ventilation of the OMZ by eddies at its boundaries. Implications for understanding the OMZ variability at longer timescales are discussed.

Oxygen minimum zones exert important controls over ocean biogeochemistry. Lagrangian modelling demonstrates that the mean positions of mesoscale eddies delimit the boundaries of the Peruvian oxygen minimum zone. Dissolved oxygen in sea water affects marine habitats and biogeochemical cycles 1 , 2 , 3 . Oceanic zones with oxygen deficits represent 7% of the volume and 8% of the area of the oceans 4 , and are thought to be expanding 4 , 5 . One of the most pronounced lies in the region off Peru, where mesoscale activity in the form of fronts and eddies is strong. Here, we study the dynamics of the Peruvian oxygen minimum zone in a Lagrangian framework, using a coupled physical–biogeochemical numerical model and finite-size Lyapunov exponent fields, to evaluate the role of mesoscale activity. We find that, at depths between 380 and 600 m, mesoscale structures have two distinct roles. First, their mean positions and paths delimit and maintain the oxygen minimum zone boundaries. Second, their high-frequency fluctuations inject oxygen across the oxygen minimum zone boundaries and eddy fluxes are one order of magnitude higher than mean oxygen fluxes. We conclude that these eddy fluxes contribute to the ventilation of the Peruvian oxygen minimum zone.

As a consequence of on-going global warming, the ocean is losing oxygen, which has implications not only in terms of marine resources management and food supply but also in terms of the potentially important feedback on the global carbon cycle and climate. Of particular scrutiny are the extended zones of already low levels of oxygen called the oxygen minimum zones (OMZs) embedded in the subsurface waters of the productive Eastern Boundary Upwelling Systems (EBUS). These OMZs are currently diversely simulated by state-of-the-art Earth System Models (ESM) hampering a reliable projection of ocean deoxygenation on marine ecosystem services in these regions. Here we focus on the most emblematic EBUS OMZs of the planet, that of the South Eastern Pacific (SEP), which is under the direct influence of the El Niño Southern Oscillation (ENSO), the main climate mode on interannual timescales at global scale. We show that, despite the low consensus among ESM long-term projections of oxygen levels, the sensitivity of the depth of the upper margin (oxycline) of the SEP OMZ to El Niño events in an ensemble of ESMs can be used as a predictor of its long-term trend, which establishes an emergent constraint for the SEP OMZ. Because the oxycline along the coast of Peru and Chile deepens during El Niño events, the upper bound of the SEP OMZ is thus likely to deepen in the future climate, therefore oxygenating the SEP OMZ. This has implications not only for understanding the nitrogen and carbon cycles at global scale but also for designing adaptation strategies for regional upper-ocean ecosystem services.

Oxygen minimum zones (OMZs) are extended oceanic regions for which dissolved oxygen concentration is extremely low. They are suspected to be expanding in response to global warming. However, currently, the mechanisms by which OMZ varies in response to climate variability are still uncertain. Here, the variability of the subtropical OMZ off central Chile of a regional coupled physical–biogeochemical regional model simulation was analyzed for the period 2000–2008, noting that its fluctuations were significant despite the relatively weak amplitude of the El Niño/Southern Oscillation (ENSO). In particular, the interannual variability in the OMZ volume (OMZ VOL , defined as the volume with dissolved oxygen concentration (DO) ≤ 45μM) was approximately 38% larger than that of the seasonal cycle, with maximum and minimum anomalies of OMZ VOL taking place during two cold La Niña (LN) years (2001 and 2007). The model analyses further reveal that these anomalies resulted from a combined effect of changes in (1) the oxygen-poor waters poleward transport by the Peru–Chile undercurrent (PCUC), (2) the intensity of quasi-zonal jets influencing the transport of water to and from the OMZ, and (3) the zonal DO transport related to mesoscale eddy activity. Specifically, the interannual variability of the PCUC modulated primarily the DO contents of the OMZ core [(DO) ≤ 20μM] and secondarily the OMZ VOL , while cross-shore DO transport by the zonal jets and the eddy fluxes played a major role in ventilating and shaping the offshore extent of the OMZ. When the OMZ VOL was maximum (minimum), the PCUC transport was slightly increased (reduced), which was associated with a reduction (increase) in the ventilation of the OMZ through negative (positive) anomalies of zonal advection and DO eddy fluxes. Our results demonstrate that significant natural interannual variability in the subtropical OMZ off Chile originates from the interplay between oceanic equatorial teleconnection (PCUC transport) and local non-linear dynamics (the zonal jets and mesoscale eddies).

The oxygen minimum zone (OMZ) of Peru is recognized as a source of CO2 to the atmosphere due to upwelling that brings water with high concentrations of dissolved inorganic carbon (DIC) to the surface. However, the influence of OMZ dynamics on the carbonate system remains poorly understood given a lack of direct observations. This study examines the influence of a coastal Eastern South Pacific OMZ on carbonate system dynamics based on a multidisciplinary cruise that took place in 2014. During the cruise, onboard DIC and pH measurements were used to estimate pCO2 and to calculate the calcium carbonate saturation state (Ω aragonite and calcite). South of Chimbote (9oS), water stratification decreased and both the oxycline and carbocline moved from 150 m depth to 20-50 m below the surface. The aragonite saturation depth was observed to be close to 50 m. However, values less than 1.2 were detected close to 20 m along with low pH (minimum of 7.5), high pCO2 (maximum 1250 μatm), and high DIC concentrations (maximum 2300 μmol kg-1). These chemical characteristics are shown to be associated with Equatorial Subsurface Water (ESSW). Large spatial variability in surface values was also found. Part of this variability can be attributed to the influence of mesoscale eddies, which can modify the distribution of biogeochemical variables, such as the aragonite saturation horizon, in response to shallower (cyclonic eddies) or deeper (anticyclonic eddies) thermoclines. The analysis of a 21-year (1993-2014) data set of mean sea surface level anomalies (SSHa) derived from altimetry data indicated that a large variance associated with interannual timescales was present near the coast. However, 2014 was characterized by weak Kelvin activity, and physical forcing was more associated with eddy activity. Mesoscale activity modulates the position of the upper boundary of ESSW, which is associated with high DIC and influences the carbocline and aragonite saturation depths. Weighing the relative importance of each individual signal results in a better understanding of the biogeochemical processes present in the area.

In particular, how lower oxygen conditions affect community respiration, the nitrogen (Zehr, 2009; Lam and Kuypers, 2011) and phosphorus cycles (Conley et al., 2002; Watson et al., 2017) across the estuarine-shelves-ocean continuum, including feed-backs on the climate system. 3) To evaluate and mitigate the threat posed by deoxygenation on valuable marine goods and services (Cooley, 2012) and on marine biodiversity (Vaquer-Sunyer and Duarte, 2008). Torres-Beltrán et al. report outcomes from the Scientific Committee on Oceanographic Research (SCOR) Working Group 144 “Microbial Community Responses to Ocean Deoxygenation” workshop (Vancouver, July 2014), aiming at standardizing process rate and multi-omic data collection in marine low-oxygen environment. The authors analyze a metric (Oxygen Stress Level) integrating oxygen demand in relation to oxygen availability for a coastal copepod and compare the prediction of oxygen stress to actual copepod distributions in low-oxygen areas. [...]Currie et al. document the Namibian coastal waters as an ecosystem having evolutionarily adapted to cope with perennial anoxia and toxic hydrogen sulfide.

The oxygen deficient mesopelagic layer (ODL) off Peru has concentrations below 5 μmol O 2 kg –1 and is delimited by a shallow upper oxycline with strong vertical gradient and a more gradual lower oxycline ( lOx ). Some regions show a narrow band of slightly increased oxygen concentrations within the ODL, an intermediate oxygen layer ( iO 2 ). CTD, oxygen and lowered Acoustic Doppler Current Profiler (LADCP, 300 kHz) profiles were taken on the shelf edge and outside down to mostly 2000 m. We evaluate here the acoustic volume backscatter strength of the LADCP signal representing organisms of about 5 mm size. Dominant features of the backscatter profiles were a minimum backscatter strength within the ODL, and just below the lOx a marked backscatter increase reaching a maximum at less than 3.0 μmol O 2 kg –1 . Below this maximum, the acoustic backscatter strength gradually decreased down to 1000 m below the lOx . The backscatter strength also increased at the iO 2 in parallel to the oxygen concentration perturbations marking the iO 2 . These stable backscatter features were independent of the time of day and the organisms represented by the backscatter had to be adapted to live in this microaerobic environment. During daylight, these stable structures were overlapped by migrating backscatter peaks. Outstanding features of the stable backscatter were that at very low oxygen concentrations, the volume backscatter was linearly related to the oxygen concentration, reaching half peak maximum at less than 2.0 μmol O 2 kg –1 below the lOx , and the depth-integrated backscatter of the peak below the lOx was higher than the integral above the Ox. Both features suggest that sufficient organic material produced at the surface reaches to below the ODL to sustain the major fraction of the volume backscatter-producing organisms in the water column. These organisms are adapted to the microaerobic environment so they can position themselves close to the lower oxycline to take advantage of the organic particles sinking out of the ODL.