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  • 1
    Publication Date: 2022-05-25
    Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Carroll, E. L., Ott, P. H., McMillan, L. F., Galletti Vernazzani, B., Neveceralova, P., Vermeulen, E., Gaggiotti, O. E., Andriolo, A., Baker, C. S., Bamford, C., Best, P., Cabrera, E., Calderan, S., Chirife, A., Fewster, R. M., Flores, P. A. C., Frasier, T., Freitas, T. R. O., Groch, K., Hulva, P., Kennedy, A., Leaper, R., Leslie, M. S., Moore, M., Oliveira, L., Seger, J., Stepien, E. N., Valenzuela, L. O., Zerbini, A., & Jackson, J. A. Genetic diversity and connectivity of southern right whales (Eubalaena australis) found in the Brazil and Chile-Peru wintering grounds and the South Georgia (Islas Georgias del Sur) feeding ground. Journal of Heredity, 111(3), (2020): 263-276, doi:10.1093/jhered/esaa010.
    Description: As species recover from exploitation, continued assessments of connectivity and population structure are warranted to provide information for conservation and management. This is particularly true in species with high dispersal capacity, such as migratory whales, where patterns of connectivity could change rapidly. Here we build on a previous long-term, large-scale collaboration on southern right whales (Eubalaena australis) to combine new (nnew) and published (npub) mitochondrial (mtDNA) and microsatellite genetic data from all major wintering grounds and, uniquely, the South Georgia (Islas Georgias del Sur: SG) feeding grounds. Specifically, we include data from Argentina (npub mtDNA/microsatellite = 208/46), Brazil (nnew mtDNA/microsatellite = 50/50), South Africa (nnew mtDNA/microsatellite = 66/77, npub mtDNA/microsatellite = 350/47), Chile–Peru (nnew mtDNA/microsatellite = 1/1), the Indo-Pacific (npub mtDNA/microsatellite = 769/126), and SG (npub mtDNA/microsatellite = 8/0, nnew mtDNA/microsatellite = 3/11) to investigate the position of previously unstudied habitats in the migratory network: Brazil, SG, and Chile–Peru. These new genetic data show connectivity between Brazil and Argentina, exemplified by weak genetic differentiation and the movement of 1 genetically identified individual between the South American grounds. The single sample from Chile–Peru had an mtDNA haplotype previously only observed in the Indo-Pacific and had a nuclear genotype that appeared admixed between the Indo-Pacific and South Atlantic, based on genetic clustering and assignment algorithms. The SG samples were clearly South Atlantic and were more similar to the South American than the South African wintering grounds. This study highlights how international collaborations are critical to provide context for emerging or recovering regions, like the SG feeding ground, as well as those that remain critically endangered, such as Chile–Peru.
    Description: This work was supported by the EU BEST 2.0 medium grant 1594 and UK DARWIN PLUS grant 057 and additional funding from the World Wildlife Fund GB107301. The collection of the Chile–Peru sample was supported by the Global Greengrants Fund and the Pacific Whale Foundation. The collection of the Brazilian samples was supported through grants by the Brazilian National Research Council to Paulo H. Ott (CNPq proc. n° 144064/98-7) and Paulo A.C. Flores (CNPq proc. n° 146609/1999-9) and with support from the World Wildlife Fund (WWF-Brazil). The collection of the South African samples was supported by the Global Greengrants Fund, the Pacific Whale Foundation and Charles University Grant Agency (1140217). E.L.C. was partially supported by a Rutherford Discovery Fellowship from the Royal Society of New Zealand. This study forms part of the Ecosystems component of the British Antarctic Survey Polar Sciences for Planet Earth Programme, funded by the Natural Environment Research Council.
    Keywords: population structure ; connectivity ; migration ; gene flow
    Repository Name: Woods Hole Open Access Server
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  • 2
    Publication Date: 1950-01-01
    Print ISSN: 0149-1423
    Electronic ISSN: 1943-2674
    Topics: Geosciences
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  • 3
    Publication Date: 1951-01-01
    Print ISSN: 0149-1423
    Electronic ISSN: 1943-2674
    Topics: Geosciences
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  • 4
    Publication Date: 2022-10-26
    Description: © The Author(s), 2021. This article is distributed under the terms of the Creaive Commons Attribution License. The definitive version was published in Eveleth, R., Glover, D. M., Long, M. C., Lima, I. D., Chase, A. P., & Doney, S. C. . Assessing the skill of a high-resolution marine biophysical model using geostatistical analysis of mesoscale ocean chlorophyll variability from field observations and remote sensing. Frontiers in Marine Science, 8, (2021): 612764, https://doi.org/10.3389/fmars.2021.612764.
    Description: High-resolution ocean biophysical models are now routinely being conducted at basin and global-scale, opening opportunities to deepen our understanding of the mechanistic coupling of physical and biological processes at the mesoscale. Prior to using these models to test scientific questions, we need to assess their skill. While progress has been made in validating the mean field, little work has been done to evaluate skill of the simulated mesoscale variability. Here we use geostatistical 2-D variograms to quantify the magnitude and spatial scale of chlorophyll a patchiness in a 1/10th-degree eddy-resolving coupled Community Earth System Model simulation. We compare results from satellite remote sensing and ship underway observations in the North Atlantic Ocean, where there is a large seasonal phytoplankton bloom. The coefficients of variation, i.e., the arithmetic standard deviation divided by the mean, from the two observational data sets are approximately invariant across a large range of mean chlorophyll a values from oligotrophic and winter to subpolar bloom conditions. This relationship between the chlorophyll a mesoscale variability and the mean field appears to reflect an emergent property of marine biophysics, and the high-resolution simulation does poorly in capturing this skill metric, with the model underestimating observed variability under low chlorophyll a conditions such as in the subtropics.
    Description: This work was supported in part by the National Aeronautics and Space Administration (NASA) as part of the North Atlantic Aerosol and Marine Ecosystems Study (NAAMES; NASA grant 80NSSC18K0018). The CESM project is supported by the National Science Foundation and the Office of Science (BER) of the United States Department of Energy. Computing resources were provided by the Climate Simulation Laboratory at NCAR’s Computational and Information Systems Laboratory (CISL), sponsored by the National Science Foundation and other agencies. This research was enabled by CISL compute and storage resources.
    Keywords: Geostatistical analysis ; North Atlantic Ocean ; Community Earth System Model ; Model validataion ; Chlorophyll
    Repository Name: Woods Hole Open Access Server
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  • 5
    Publication Date: 2022-10-26
    Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Schultz, C., Doney, S. C., Hauck, J., Kavanaugh, M. T., & Schofield, O. Modeling phytoplankton blooms and inorganic carbon responses to sea-ice variability in the West Antarctic Peninsula. Journal of Geophysical Research: Biogeosciences, 126(4), (2021): e2020JG006227, https://doi.org/10.1029/2020JG006227.
    Description: The ocean coastal-shelf-slope ecosystem west of the Antarctic Peninsula (WAP) is a biologically productive region that could potentially act as a large sink of atmospheric carbon dioxide. The duration of the sea-ice season in the WAP shows large interannual variability. However, quantifying the mechanisms by which sea ice impacts biological productivity and surface dissolved inorganic carbon (DIC) remains a challenge due to the lack of data early in the phytoplankton growth season. In this study, we implemented a circulation, sea-ice, and biogeochemistry model (MITgcm-REcoM2) to study the effect of sea ice on phytoplankton blooms and surface DIC. Results were compared with satellite sea-ice and ocean color, and research ship surveys from the Palmer Long-Term Ecological Research (LTER) program. The simulations suggest that the annual sea-ice cycle has an important role in the seasonal DIC drawdown. In years of early sea-ice retreat, there is a longer growth season leading to larger seasonally integrated net primary production (NPP). Part of the biological uptake of DIC by phytoplankton, however, is counteracted by increased oceanic uptake of atmospheric CO2. Despite lower seasonal NPP, years of late sea-ice retreat show larger DIC drawdown, attributed to lower air-sea CO2 fluxes and increased dilution by sea-ice melt. The role of dissolved iron and iron limitation on WAP phytoplankton also remains a challenge due to the lack of data. The model results suggest sediments and glacial meltwater are the main sources in the coastal and shelf regions, with sediments being more influential in the northern coast.
    Description: C. Schultz, S. C. Doney, M. T. Kavanaugh, and O. Schofield acknowledge support by the US National Science Foundation (Grant no. PLR-1440435), and C. Schultz and S. C. Doney acknowledge support from the University of Virginia. This research has also received funding from the Helmholtz Young Investigator Group Marine Carbon and Ecosystem Feedbacks in the Earth System (MarESys), Grant number VH-NG-1301.
    Keywords: Air-sea fluxes ; Biogeochemical modeling ; Inorganic carbon cycle ; Phytoplankton bloom ; Sea ice ; West Antarctic Peninsula
    Repository Name: Woods Hole Open Access Server
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  • 6
    Publication Date: 2022-10-26
    Description: Author Posting. © American Geophysical Union, 2019. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research-Atmospheres 124 (17-18), (2019): 9773-9795, doi: 10.1029/2018JD029933.
    Description: National Aeronautics and Space Administration's Orbiting Carbon Observatory‐2 (OCO‐2) satellite provides observations of total column‐averaged CO2 mole fractions (XCO2 ) at high spatial resolution that may enable novel constraints on surface‐atmosphere carbon fluxes. Atmospheric inverse modeling provides an approach to optimize surface fluxes at regional scales, but the accuracy of the fluxes from inversion frameworks depends on key inputs, including spatially and temporally dense CO2 observations and reliable representations of atmospheric transport. Since XCO2 observations are sensitive to both synoptic and mesoscale variations within the free troposphere, horizontal atmospheric transport imparts substantial variations in these data and must be either resolved explicitly by the atmospheric transport model or accounted for within the error covariance budget provided to inverse frameworks. Here, we used geostatistical techniques to quantify the imprint of atmospheric transport in along‐track OCO‐2 soundings. We compare high‐pass‐filtered (〈250 km, spatial scales that primarily isolate mesoscale or finer‐scale variations) along‐track spatial variability in XCO2 and XH2O from OCO‐2 tracks to temporal synoptic and mesoscale variability from ground‐based XCO2 and XH2O observed by nearby Total Carbon Column Observing Network sites. Mesoscale atmospheric transport is found to be the primary driver of along‐track, high‐frequency variability for OCO‐2 XH2O. For XCO2 , both mesoscale transport variability and spatially coherent bias associated with other elements of the OCO‐2 retrieval state vector are important drivers of the along‐track variance budget.
    Description: The authors thank the leadership and participants of the NASA OCO‐2 mission and acknowledge financial support from NASA Award NNX15AH13G. A.D. Torres also acknowledges support from the NASA Earth and Space Science Fellowship Award 80NSSC17K0382. We thank TCCON for providing observations. We thank A. Jacobson and the National Oceanographic and Atmospheric Administration Earth System Research Laboratory in Boulder, CO, for providing CarbonTracker CT2017 data, available online (http://carbontracker.noaa.gov). We thank S. Wofsy for providing HIPPO data, funded by the National Science Foundation and NOAA and available online (https://www.eol.ucar.edu/field_projects/hippo). The TCCON Principal Investigators acknowledge funding from their national funding organizations. TCCON data were obtained from the archive at the https://tccondata.org Web site. NARR data provided by the NOAA/OAR/ESRL PSD, Boulder, Colorado, USA, from their Web site (https://www.esrl.noaa.gov/psd/).
    Keywords: Atmospheric transport ; Greenhouse gases ; CO2 ; Mesoscale ; OCO‐2 ; TCCON
    Repository Name: Woods Hole Open Access Server
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  • 7
    Publication Date: 2022-05-26
    Description: © The Author(s), 2019. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Rheuban, J. E., Doney, S. C., McCorkle, D. C., & Jakuba, R. W. Quantifying the effects of nutrient enrichment and freshwater mixing on coastal ocean acidification. Journal of Geophysical Research-Oceans, 124, (2019): 9085-9100, doi: 10.1029/2019JC015556.
    Description: The U.S. Northeast is vulnerable to ocean and coastal acidification because of low alkalinity freshwater discharge that naturally acidifies the region, and high anthropogenic nutrient loads that lead to eutrophication in many estuaries. This study describes a combined nutrient and carbonate chemistry monitoring program in five embayments of Buzzards Bay, Massachusetts to quantify the effects of nutrient loading and freshwater discharge on aragonite saturation state (Ω). Monitoring occurred monthly from June 2015 to September 2017 with higher frequency at two embayments (Quissett and West Falmouth Harbors) and across nitrogen loading and freshwater discharge gradients. The more eutrophic stations experienced seasonal aragonite undersaturation, and at one site, nearly every measurement collected was undersaturated. We present an analytical framework to decompose variability in aragonite Ω into components driven by temperature, salinity, freshwater endmember mixing, and biogeochemical processes. We observed strong correlations between apparent oxygen utilization and the portion of aragonite Ω variation that we attribute to biogeochemistry. The regression slopes were consistent with Redfield ratios of dissolved inorganic carbon and total alkalinity to dissolved oxygen. Total nitrogen and the contribution of biogeochemical processes to aragonite Ω were highly correlated, and this relationship was used to estimate the likely effects of nitrogen loading improvements on aragonite Ω. Under nitrogen loading reduction scenarios, aragonite Ω in the most eutrophic estuaries could be raised by nearly 0.6 units, potentially increasing several stations above the critical threshold of 1. This analysis provides a quantitative framework for incorporating ocean and coastal acidification impacts into regulatory and management discussions.
    Description: We thank Kelly Luis, Michaela Fendrock, Will Oesterich, Sheron Luk, Marti Jeglinksi, and Tony Williams for their help with field sample collection and logistical support and Chris Neill, Lindsay Scott, Rich McHorney, and Paul Henderson for laboratory sample analysis. We also thank the Waquoit Bay National Estuarine Research Reserve for loaning their handheld water quality meters and two anonymous reviewers for their feedback on this manuscript. Financial support for this work was provided by the John D. and Catherine T. MacArthur Foundation (grant no. 14‐106159‐000‐CFP), MIT Sea Grant (subaward 5710004045) and the West Wind Foundation. The data used in this analysis can be found in the NOAA NCEI repository for carbonate chemistry measurements, the Ocean Carbon Data System at the following link: https://www.nodc.noaa.gov/ocads/data/0206206.xml.
    Keywords: Coastal Acidification ; Eutrophication
    Repository Name: Woods Hole Open Access Server
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  • 8
    Publication Date: 2022-05-26
    Description: © The Author(s), 2020. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Schultz, C., Doney, S. C., Zhang, W. G., Regan, H., Holland, P., Meredith, M. P., & Stammerjohn, S. Modeling of the influence of sea ice cycle and Langmuir circulation on the upper ocean mixed layer depth and freshwater distribution at the West Antarctic Peninsula. Journal of Geophysical Research: Oceans, 125(8), (2020): e2020JC016109, doi:10.1029/2020JC016109.
    Description: The Southern Ocean is chronically undersampled due to its remoteness, harsh environment, and sea ice cover. Ocean circulation models yield significant insight into key processes and to some extent obviate the dearth of data; however, they often underestimate surface mixed layer depth (MLD), with consequences for surface water‐column temperature, salinity, and nutrient concentration. In this study, a coupled circulation and sea ice model was implemented for the region adjacent to the West Antarctic Peninsula, a climatically sensitive region which has exhibited decadal trends towards higher ocean temperature, shorter sea ice season, and increasing glacial freshwater input, overlain by strong interannual variability. Hindcast simulations were conducted with different air‐ice drag coefficients and Langmuir circulation parameterizations to determine the impact of these factors on MLD. Including Langmuir circulation deepened the surface mixed layer, with the deepening being more pronounced in the shelf and slope regions. Optimal selection of an air‐ice drag coefficient also increased modeled MLD by similar amounts and had a larger impact in improving the reliability of the simulated MLD interannual variability. This study highlights the importance of sea ice volume and redistribution to correctly reproduce the physics of the underlying ocean, and the potential of appropriately parameterizing Langmuir circulation to help correct for biases towards shallow MLD in the Southern Ocean. The model also reproduces observed freshwater patterns in the West Antarctic Peninsula during late summer and suggests that areas of intense summertime sea ice melt can still show net annual freezing due to high sea ice formation during the winter.
    Description: C. Schultz and S. Doney acknowledge support by the U.S. National Science Foundation (grant PLR‐1440435 to the Palmer Long Term Ecological Research program) and support from the University of Virginia. W. G. Zhang acknowledge support by the U.S. National Science Foundation (grant OPP‐1643901). The MITgcm model is an open source model (mitgcm.org). The version used in this study, with added parameterizations and specific configurations, is on C. Schultz’s github (https://github.com/crisoceano/WAP_MITgcm). A copy of the files with specific configurations for this study, the forcing files needed for the simulations, and a copy of the files used for the KPP package are in three separate records on zenodo.org, under DOIs 10.5281/zenodo.3627365, 10.5281/zenodo.3627564, and 10.5281/zenodo.3627742.
    Keywords: West Antarctic Peninsula ; sea ice ; Langmuir circulation ; mixed layer depth ; glacial runoff
    Repository Name: Woods Hole Open Access Server
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  • 9
    Publication Date: 2022-05-27
    Description: © The Author(s), 2021. This article is distributed under the terms of the Creative Commons Attribution License. The definitive version was published in Kim, H. H., Luo, Y.-W., Ducklow, H. W., Schofield, O. M., Steinberg, D. K., & Doney, S. C. WAP-1D-VAR v1.0: development and evaluation of a one-dimensional variational data assimilation model for the marine ecosystem along the West Antarctic Peninsula. Geoscientific Model Development, 14(8), (2021): 4939–4975, https://doi.org/10.5194/gmd-14-4939-2021.
    Description: The West Antarctic Peninsula (WAP) is a rapidly warming region, with substantial ecological and biogeochemical responses to the observed change and variability for the past decades, revealed by multi-decadal observations from the Palmer Antarctica Long-Term Ecological Research (LTER) program. The wealth of these long-term observations provides an important resource for ecosystem modeling, but there has been a lack of focus on the development of numerical models that simulate time-evolving plankton dynamics over the austral growth season along the coastal WAP. Here, we introduce a one-dimensional variational data assimilation planktonic ecosystem model (i.e., the WAP-1D-VAR v1.0 model) equipped with a model parameter optimization scheme. We first demonstrate the modified and newly added model schemes to the pre-existing food web and biogeochemical components of the other ecosystem models that WAP-1D-VAR model was adapted from, including diagnostic sea-ice forcing and trophic interactions specific to the WAP region. We then present the results from model experiments where we assimilate 11 different data types from an example Palmer LTER growth season (October 2002–March 2003) directly related to corresponding model state variables and flows between these variables. The iterative data assimilation procedure reduces the misfits between observations and model results by 58 %, compared to before optimization, via an optimized set of 12 parameters out of a total of 72 free parameters. The optimized model results capture key WAP ecological features, such as blooms during seasonal sea-ice retreat, the lack of macronutrient limitation, and modeled variables and flows comparable to other studies in the WAP region, as well as several important ecosystem metrics. One exception is that the model slightly underestimates particle export flux, for which we discuss potential underlying reasons. The data assimilation scheme of the WAP-1D-VAR model enables the available observational data to constrain previously poorly understood processes, including the partitioning of primary production by different phytoplankton groups, the optimal chlorophyll-to-carbon ratio of the WAP phytoplankton community, and the partitioning of dissolved organic carbon pools with different lability. The WAP-1D-VAR model can be successfully employed to link the snapshots collected by the available data sets together to explain and understand the observed dynamics along the coastal WAP.
    Description: Hyewon Heather Kim and Scott C. Doney were supported by the National Aeronautics and Space Administration Ocean Biology and Biogeochemistry Program (grant no. NNX14AL86G) and the US National Science Foundation Office of Polar Programs (grant no. PLR-1440435 to Hugh W. Ducklow at Columbia University; Palmer LTER). Hyewon Heather Kim was additionally supported by the Investment in Science Fund and the Reuben F. and Elizabeth B. Richards Endowed Fund from Woods Hole Oceanographic Institution. Oscar M. Schofield and Deborah K. Steinberg were supported by US NSF grant no. PLR-1440435. Ya-Wei Luo was supported by National Natural Science Foundation of China project no. 41890802.
    Repository Name: Woods Hole Open Access Server
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  • 10
    Publication Date: 2022-05-27
    Description: Author Posting. © American Geophysical Union, 2021. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research: Oceans 126(8), (2021): e2021JC017510, https://doi.org/10.1029/2021JC017510.
    Description: The air-sea exchange of oxygen (O2) is driven by changes in solubility, biological activity, and circulation. The total air-sea exchange of O2 has been shown to be closely related to the air-sea exchange of heat on seasonal timescales, with the ratio of the seasonal flux of O2 to heat varying with latitude, being higher in the extratropics and lower in the subtropics. This O2/heat ratio is both a fundamental biogeochemical property of air-sea exchange and a convenient metric for testing earth system models. Current estimates of the O2/heat flux ratio rely on sparse observations of dissolved O2, leaving it fairly unconstrained. From a model ensemble we show that the ratio of the seasonal amplitude of two atmospheric tracers, atmospheric potential oxygen (APO) and the argon-to-nitrogen ratio (Ar/O2), exhibits a close relationship to the O2/heat ratio of the extratropics (40–70°). The amplitude ratio, A APO/A ArN2, is relatively constant within the extratropics of each hemisphere due to the zonal mixing of the atmosphere. A APO/A ArN2 is not sensitive to atmospheric transport, as most of the observed spatial variability in the seasonal amplitude of δAPO is compensated by similar variations in δ(Ar/N2). From the relationship between O2/heat and A APO/A ArN2 in the model ensemble, we determine that the atmospheric observations suggest hemispherically distinct O2/heat flux ratios of 3.3 ± 0.3 and 4.7 ± 0.8 nmol J-1 between 40 and 70° in the Northern and Southern Hemispheres respectively, providing a useful constraint for O2 and heat air-sea fluxes in earth system models and observation-based data products.
    Description: The recent atmospheric measurements of the Scripps program have been supported via funding from the NSF and the National Oceanographic and Atmospheric Administration (NOAA) under grants 1304270 and OAR-CIPO-2015-2004269. M. Manizza and R. F. Keeling thank NSF for financial support via the OCE-1130976 grant. M. Manizza thanks additional financial support from NSF via the ARRA OCE-0850350 grant. S. C. Doney acknowledges support from NSF PLR-1440435. Keith Rodgers acknowledges support from IBS-R028-D1. Gael Forget and the ECCO group kindly provided the ECCOv4 heat fluxes.
    Description: 2022-01-22
    Repository Name: Woods Hole Open Access Server
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