Monique Messié

Targeted metagenomics and ecology of globally important uncultured eukaryotic phytoplankton

Among eukaryotes, four major phytoplankton lineages are responsible for marine photosynthesis; prymnesiophytes, alveolates, stramenopiles, and prasinophytes. Contributions by individual taxa, however, are not well known, and genomes have been analyzed from only the latter two lineages. Tiny “picoplanktonic” members of the prymnesiophyte lineage have long been inferred to be ecologically important but remain poorly characterized. Here, we examine pico-prymnesiophyte evolutionary history and ecology using cultivation-independent methods. 18S rRNA gene analysis showed pico-prymnesiophytes belonged to broadly distributed uncultivated taxa. Therefore, we used targeted metagenomics to analyze uncultured pico-prymnesiophytes sorted by flow cytometry from subtropical North Atlantic waters. The data reveal a composite nuclear-encoded gene repertoire with strong green-lineage affiliations, which contrasts with the evolutionary history indicated by the plastid genome. Measured pico-prymnesiophyte growth rates were rapid in this region, resulting in primary production contributions similar to the cyanobacterium Prochlorococcus. On average, pico-prymnesiophytes formed 25% of global picophytoplankton biomass, with differing contributions in five biogeographical provinces spanning tropical to subpolar systems. Elements likely contributing to success include high gene density and genes potentially involved in defense and nutrient uptake. Our findings have implications reaching beyond pico-prymnesiophytes, to the prasinophytes and stramenopiles. For example, prevalence of putative Ni-containing superoxide dismutases (SODs), instead of Fe-containing SODs, seems to be a common adaptation among eukaryotic phytoplankton for reducing Fe quotas in low-Fe modern oceans. Moreover, highly mosaic gene repertoires, although compositionally distinct for each major eukaryotic lineage, now seem to be an underlying facet of successful marine phytoplankton.

Global Modes of Sea Surface Temperature Variability in Relation to Regional Climate Indices

AbstractA century-long EOF analysis of global sea surface temperature (SST) was carried out and the first six modes, independent by construction, were found to be associated with well-known regional climate phenomena: the El Nino–Southern Oscillation (ENSO), the Atlantic multidecadal oscillation (AMO), the Pacific decadal oscillation (PDO), the North Pacific Gyre Oscillation (NPGO), El Nino Modoki, and the Atlantic El Nino. Four of the six global modes are dominated by Pacific changes, the other two (M2 and M6) being associated with the AMO and Atlantic El Nino, respectively. The principal component time series of the ENSO (M1) and North Pacific (M3) modes are coherent at time scales >10 yr, and their interaction results in the traditional PDO pattern and the dominant mode of Pacific multidecadal variability. The M3 and PDO time series are well correlated, but the EOFs have different spatial patterns. The fourth mode (M4) has been strengthening since the 1950s and is related to the NPGO but also to El Nin...

Coordinated sampling of dynamic oceanographic features with underwater vehicles and drifters

We extend existing oceanographic sampling methodologies to sample an advecting feature of interest using autonomous robotic platforms. GPS-tracked Lagrangian drifters are used to tag and track a water patch of interest with position updates provided periodically to an autonomous underwater vehicle (AUV) for surveys around the drifter as it moves with ocean currents. Autonomous sampling methods currently rely on geographic waypoint track-line surveys that are suitable for static or slowly changing features. When studying dynamic, rapidly evolving oceanographic features, such methods at best introduce error through insufficient spatial and temporal resolution, and at worst, completely miss the spatial and temporal domain of interest. We demonstrate two approaches for tracking and sampling of advecting oceanographic features. The first relies on extending static-plan AUV surveys (the current state-of-the-art) to sample advecting features. The second approach involves planning of surveys in the drifter or patch frame of reference. We derive a quantitative envelope on patch speeds that can be tracked autonomously by AUVs and drifters and show results from a multi-day off-shore field trial. The results from the trial demonstrate the applicability of our approach to long-term tracking and sampling of advecting features. Additionally, we analyze the data from the trial to identify the sources of error that affect the quality of the surveys carried out. Our work presents the first set of experiments to autonomously observe advecting oceanographic features in the open ocean.

Simultaneous Tracking and Sampling of Dynamic Oceanographic Features with Autonomous Underwater Vehicles and Lagrangian Drifters

Studying ocean processes often requires observations made in a Lagrangian frame of reference, that is, a frame of reference moving with a feature of interest [1]. Often, the only way to understand a process is to acquire measurements at sufficient spatial and temporal resolution within a specific feature while it is evolving. Examples of coastal ocean features whose study requires Lagrangian observations include concentrated patches of microscopic algae (Fig. 1) that are toxic and may have impacts on fisheries, marine life and humans, or a patch of low-oxygen water that may cause marine life mortality depending on its movement and mixing.

Towards mixed-initiative, multi-robot field experiments: Design, deployment, and lessons learned

With the advent of Autonomous Underwater Vehicles (AUVs) and other mobile platforms, marine robotics have had substantial impact on the oceanographic sciences. These systems have allowed scientists to collect data over temporal and spatial scales that would be logistically impossible or prohibitively expensive using traditional ship-based measurement techniques. Increased dependence of scientists on such robots has permeated scientific data gathering with future field campaigns involving these platforms as well as on entire infrastructure of people, processes and software, on shore and at sea. Recent field experiments carried out with a number of surface and underwater platforms give clues to how these technologies are coalescing and need to work together. We highlight one such confluence and describe a future trajectory of needs and desires for field experiments with autonomous marine robotic platforms. Our 2010 inter-disciplinary experiment in the Monterey Bay involved multiple platforms and collaborators with diverse science goals. One important goal was to enable situational awareness, planning and collaboration before, during and after this large-scale collaborative exercise. We present the overall view of the experiment and describe an important shore-side component, the Oceanographic Decision Support System (ODSS), its impact and future directions leveraging such technologies for field experiments.

ODSS: A decision support system for ocean exploration

We have designed, built, tested and fielded a decision support system which provides a platform for situational awareness, planning, observation, archiving and data analysis. While still in development, our inter-disciplinary team of computer scientists, engineers, biologists and oceanographers has made extensive use of our system in at-sea experiments since 2010. The novelty of our work lies in the targeted domain, its evolving functionalities that closely tracks how ocean scientists are seeing the evolution of their own work practice, and its actual use by engineers, scientists and marine operations personnel. We describe the architectural elements and lessons learned over the more than two years use of the system.

Biophysical responses near equatorial islands in the Western Pacific Ocean during El Niño/La Niña transitions

The biological response in the western equatorial Pacific Ocean during El Nino/La Nina transitions and the underlying physical mechanisms were investigated. A chlorophyll a bloom was observed near the Gilbert Islands during the 2010 El Nino/La Nina transition, whereas no bloom was observed during the 2007 El Nino/La Nina transition. Compared to the previously observed bloom during the 1998 El Nino/La Nina transition, the 2010 bloom was weaker, lagged by 1-2 months, and was displaced eastward by similar to 200 km. Analysis suggested that the occurrence, magnitude, timing, and spatial pattern of the blooms were controlled by two factors: easterly winds in the western equatorial Pacific during the transition to La Nina and the associated island mass effect that enhanced vertical processes (upwelling and vertical mixing), and the preconditioning of the thermocline depth and barrier layer thickness by the preceding El Nino that regulated the efficiency of the vertical processes. Despite the similar strength of easterly winds in the western equatorial Pacific during the 1998 and 2010 transitions to La Nina, the 20092010 El Nino prompted a deeper thermocline and thicker barrier layer than the 1997-1998 El Nino that hampered the efficiency of the vertical processes in supplying nutrients from the thermocline to the euphotic zone, resulting in a weaker bloom.

Wind‐driven changes of surface current, temperature, and chlorophyll observed by satellites north of New Guinea

Satellite observations of wind, sea level and derived currents, sea surface temperature (SST), and chlorophyll are used to expand our understanding of the physical and biological variability of the ocean surface north of New Guinea. Based on scarce cruise and mooring data, previous studies differentiated a trade wind situation (austral winter) when the New Guinea Coastal Current (NGCC) flows northwestward and a northwest monsoon situation (austral summer) when a coastal upwelling develops and the NGCC reverses. This circulation pattern is confirmed by satellite observations, except in Vitiaz Strait where the surface northwestward flow persists. We find that intraseasonal and seasonal time scale variations explain most of the variance north of New Guinea. SST and chlorophyll variabilities are mainly driven by two processes: penetration of Solomon Sea waters and coastal upwelling. In the trade wind situation, the NGCC transports cold Solomon Sea waters through Vitiaz Strait in a narrow vein hugging the coast. Coastal upwelling is generated in westerly wind situations (westerly wind event, northwest monsoon). Highly productive coastal waters are advected toward the equator and, during some westerly wind events, toward the eastern part of the warm pool. During El Nino, coastal upwelling events and northward penetration of Solomon Sea waters combine to influence SST and chlorophyll anomalies.

Isotherm Tracking by an Autonomous Underwater Vehicle in Drift Mode

Studies of marine physical, chemical, and microbiological processes benefit from observing in a Lagrangian frame of reference. Some of these processes are related to specific density or temperature ranges. We have developed a method for a Tethys-class long-range autonomous underwater vehicle (LRAUV) (which has a propeller and a buoyancy engine) to track a targeted isothermal layer (within a narrow temperature range) in a stratified water column when operating in buoyancy-controlled drift mode. In this mode, the vehicle shuts off its propeller and autonomously detects the isotherm and stays with it by actively controlling the vehicles buoyancy. The LRAUV starts on an initial descent to search for the target temperature. Once the temperature falls in the target center bracket, the vehicle records the corresponding depth and adjusts buoyancy to hold that depth. As long as the temperature stays within a tolerance range, the vehicle continues to hold that depth. If the temperature falls out of the tolerance range, the vehicle will increase or decrease buoyancy to reacquire the target temperature and track it. In a June 2015 experiment in Monterey Bay, CA, USA, an LRAUV ran the presented algorithm to successfully track a target isotherm for 13 h. Over the isotherm tracking duration, the LRAUV mostly remained in the 0.5

Nutrient supply, surface currents, and plankton dynamics predict zooplankton hotspots in coastal upwelling systems

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