Research Projects

Impacts of Eddy Coherency on Chlorophyll-a Concentration

In this satellite remote sensing project, we used a Lagrangian perspective to re-examine the idealized assumption that mesoscale eddies are laterally coherent, or strictly trapping. Counter to expectations, we found only half of eddies in the North Pacific are strictly Lagrangian coherent at any given time, and their trapping strengths evolve over their lifetimes. This effects the concentration of phytoplankton observed in eddies, where trapping locally elevates patches of chlorophyll concentration more so than their leaky counterparts. Nevertheless, leaky eddies also alter chlorophyll concentrations and their contribution to primary productivity may be underestimated because these biological responses are not preserved for long timescales.

Publications:

• Jones-Kellett AE & Follows MJ (2024). A Lagrangian Coherent Eddy Atlas for Biogeochemical Applications in the North Pacific Subtropical Gyre. Earth System Science Data, 16, 1475-1501. doi.org/10.5194/essd-16-1475-2024
• Jones-Kellett AE & Follows MJ. The satellite chlorophyll signature of Lagrangian eddy trapping varies regionally and seasonally within a subtropical gyre. Ocean Science, Highlight Article (in press). doi.org/10.5194/egusphere-2024-3211

Datasets & Software:

• North Pacific Subtropical Gyre RCLV Atlas (Version 2). Dataset product from Ocean Science manuscript. Available on Zenodo or Simon's CMAP.
• North Pacific Subtropical Gyre RCLV Atlas (Version 1). Dataset product from Earth System Science Data manuscript. Available on Zenodo or Simon's CMAP.
• RCLVAtlas. Software available on Zenodo or GitHub.
• RCLV_chl. Code for Ocean Science analysis and manuscript figure generation. GitHub.

The origins of Lagrangian particles initialized in mesoscale eddies and advected backward-in-time for a month. The darker colors are in the coherent core, while lighter are leaky eddy zones. The blue eddies are cyclonic (counter-clockwise rotation in the Northern hemisphere), and red are anticyclonic (clockwise).

Variability in Phytoplankton Community Composition at the Mesoscale

The R/V Thompson on the SCOPE Gradients 4 Cruise, far out in the Pacific Ocean.

I went on the month-long SCOPE Gradients 4 Cruise in 2021, where I led a sampling campaign to filter surface seawater at 46-km intervals. This is an unprecedented spatial resolution, with samples needing to be collected every two to three hours except while the ship was anchored. This makes out for very little sleep on the ship, but an incredibly cool dataset! The sampling locations spanned the southern California Current System and the oligotrophic North Pacific Subtropical Gyre.

Each dot indicates a sample location, and are outlined with colors indicating whether they were in, near, or outside a mesoscale eddy. The eddy boundaries are indicated by the black contours, identified from satellite Sea Level Anomaly (daily tiles shown in the background). The seven eddies we crossed were each adopted and named by friends while on the cruise.

I worked as a guest scientist in Dr. Jed Fuhrman's lab at the University of Southern California in 2022 to process the samples collected on the cruise. During the DNA extraction process, we spiked the samples with genomic standards which enabled evaluation of the absolute volumetric gene copy abundances of 16S and 18S rRNA amplicon sequence variants (amplified with 515Y-926R universal primers). Without the standards, amplicon sequencing yields relative abundances, so it is difficult to assess how the abundances of taxa change from sample to sample. We found that the internal standard method yielded remarkable agreement of picocyanobacteria cell abundances, as validated with concurrent flow cytometry measurements. This methodological validation was published in ISME Communications. To understand the role of mesoscale currents in shaping the sampled phytoplankton communities, I backtracked the Lagrangian histories of the sampled water masses using satellite-estimated ocean current velocities. In doing so, we found that some waters are highly mixed with widespread origins, while others were part of isolated waters that experienced little lateral mixing for several months. In the low mixing waters, eukaryotic phytoplankton were low in abundance, presumably due to low nutrient availability. A manuscript is in preparation describing this newly identified ultra-oligotrophic niche in the open ocean.

Publications:

• Jones-Kellett AE, McNichol JC, Raut Y, Cain KR, Ribalet F, Armbrust EV, Follows MJ, Fuhrman JA (2024). Amplicon sequencing with internal standards yields accurate picocyanobacteria cell abundances as validated with flow cytometry. ISME Communications, 4(1): ycae115. doi.org/10.1093/ismeco/ycae115
• Jones-Kellett AE, McNichol JC, Raut Y, Fuhrman JA, Follows MJ (submitted). Eukaryotic phytoplankton are sustained by eddies and lateral mixing in a subtropical gyre.
• Graff van Creveld S, Coesel SN, Lavoie E, Iverson V, Morales R, Schatz M, Jones-Kellett AE, McNichol JC, Key R, Fuhrman JA, Durham BP, Armbrust EV (submitted). Induced pathogenicity toward open-ocean diatoms by a newly isolated filterable bacterium Ekhidna algicida sp. nov. doi.org/10.1101/2025.09.24.678341

Datasets & Software:

• Universal Amplicon Sequences (mixed 16S/18S) from SCOPE Gradients 4 Cruise. NCBI BioProject Dataset.
• internal_standard_correction. Code for ISME Communications manuscript. GitHub.

Biogeochemical Argo Floats in the Lofoten Basin Eddy

Argo floats equipped with biogeochemical sensors (BGC-Argo) continuously take measurements of optical properties throughout the water column. While eddies are commonly studied from the surface by satellites, BGC-Argo provides unique insight into processes happening at depth. This project focuses on floats in and around the Lofoten Basin Eddy, a semi-permanent anticyclone located off of the coast of Norway. It is extremely rare to have multiple Argo profiles within a single mesoscale eddy. But, due to the stationary nature of the Lofoten Basin Eddy and a high density of floats in the region, there are enough observations to compare the seasonality of the biological carbon pump in the anticyclone compared to its surroundings. I started this project with a team of scientists during the BGC-Argo workshop in 2023, and several of us continued to work on it afterwards. We have a manuscript describing our findings under review, so stay tuned!

Publications:

• Koestner D, Clayton S, Lerner P, Jones-Kellett AE, Walker SL. Biogeochemical-Argo floats reveal seasonality of the biological carbon pump influenced by the Lofoten Basin Eddy (2025). Geophysical Research Letters, 52(12): e2024GL111937. doi.org/10.1029/2024GL111937

The ARGO float cycle. Image source: bgc-argo.ocean.dal.ca

MITgcm-Darwin Idealized Simulation

During my postdoc at MIT, I am running an idealized numerical model simulation of the North Pacific Ocean at 1/10 degree spatial resolution. This is computationally expensive, but will allow us to study the evolution of phytoplankton communities in mesoscale features such as eddies. While autonomous vehicles are making huge strides in observing the vertical water column, model simulations are advantageous in giving a more holistic picture of phenomena at fine-scales. I am using the MIT general circulation model (MITgcm) to simulate the ocean physics, and the Darwin Model to simulate a planktonic ecosystem with multiple functional types, including bacteria, phytoplankton, and zooplankton.

A three-dimensional Lagrangian simulation following water parcels in a simulated eddy. The trajectories are colored by the U-velocity (east-west).

𓆝 𓆟 𓆞𓆝 𓆟 𓆞𓆝 𓆟 𓆞𓆝 𓆟 𓆞𓆝 𓆟 𓆞𓆝 𓆟 𓆞𓆝
Page last updated: May 07, 2025