Articles | Volume 14, issue 8
https://doi.org/10.5194/gmd-14-4939-2021
© Author(s) 2021. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
https://doi.org/10.5194/gmd-14-4939-2021
© Author(s) 2021. This work is distributed under
the Creative Commons Attribution 4.0 License.
the Creative Commons Attribution 4.0 License.
Development and technical paper
| 
12 Aug 2021
Development and technical paper |
| 12 Aug 2021
| 12 Aug 2021
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
Woods Hole Oceanographic Institution, Woods Hole, MA 02543,
USA
University of Virginia, Charlottesville, VA 22904, USA
Ya-Wei Luo
Xiamen University, Xiamen, Fujian 361102, China
Hugh W. Ducklow
Lamont-Doherty Earth Observatory, Columbia University, Palisades, NY
10964, USA
Oscar M. Schofield
Rutgers University, New Brunswick, NJ 80901, USA
Deborah K. Steinberg
Virginia Institute of Marine Science, Gloucester Point, VA 23062,
USA
Scott C. Doney
University of Virginia, Charlottesville, VA 22904, USA
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Cited articles
Armstrong, R. A.: Optimality-based modeling of nitrogen allocation and photo acclimation in photosynthesis, Deep-Sea Res. II, 53, 513–531, 2006.
Bertilsson, S., Berglund, O., Karl, D. M., and Chisholm, S. W.: Elemental composition of marine Prochlorococcus and Synechococcus: Implications for the ecological stoichiometry of the sea, Limnol. Oceanogr., 48, 1721–1731, https://doi.org/10.4319/lo.2003.48.5.1721, 2003.
Biddanda, B. and Benner, R.: Carbon, nitrogen and carbohydrate fluxes during the production of particulate and dissolved organic matter by marine phytoplankton, Limnol. Oceanogr., 42, 506–518, 1997.
Bird, D. F. and Karl, D. M.: Uncoupling of bacteria and phytoplankton during the austral spring bloom in Gerlache Strait, Antarctic Peninsula, Aquat. Microb. Ecol., 19, 13–27, https://doi.org/10.3354/ame019013, 1999.
Bjørnsen, P. K.: Phytoplankton exudation of organic matter: Why do healthy cells do it?, Limnol. Oceanogr., 33, 151–154, 1988.
Bowman, J. S. and Ducklow, H. W.: Microbial Communities Can Be Described by Metabolic Structure: A General Framework and Application to a Seasonally Variable, Depth-Stratified Microbial Community from the Coastal West Antarctic Peninsula, Plos One, 10, e0135868, https://doi.org/10.1371/journal.pone.0135868, 2015.
Bowman, J. S., Kavanaugh, M. T., Doney, S. C., and Ducklow, H. W.: Recurrent seascape units identify key ecological processes along the western Antarctic Peninsula, Glob. Change Biol., 24, 3065–3078, https://doi.org/10.1111/gcb.14161, 2018.
Campbell, J. W.: The lognormal distribution as a model for bio-optical variability in the sea, J. Geophys. Res.-Oceans, 100, 13237–13254, https://doi.org/10.1029/95JC00458, 1995.
Caron, D. A., Dennett, M. R., Lonsdale, D. J., Moran, D. M., and Shalapyonok, L.: Microzooplankton herbivory in the Ross sea, Antarctica, Deep-Sea Res. Pt. II, 47, 3249–3272, 2000.
Carlson, C. A., Bates, N. R., Ducklow, H. W., and Hansell, D. A.: Estimation of bacterial respiration and growth efficiency in the Ross Sea, Antarctica, Aquat. Microb. Ecol., 19, 229–244, 1999.
Carvalho, F., Kohut, J., Oliver, M. J., Sherrell, R. M.,
and Schofield, O.: Mixing and phytoplankton dynamics in a submarine
canyon in the West Antarctic Peninsula, J. Geophys. Res.,
121, 5069–5083, https://doi.org/10.1002/2016JC011650, 2016.
Clarke, A., Griffiths, H. J., Barnes, D. K. A., Meredith, M. P., and Grant, S. M.: Spatial variation in seabed temperatures in the Southern Ocean: Implications for benthic ecology and biogeography, J. Geophys. Res.-Biogeo., 114, G03003, https://doi.org/10.1029/2008JG000886, 2009.
Cook, A. J., Fox, A. J., Vaughan, D. G., and Ferrigno, J. G.: Retreating Glacier Fronts on the Antarctic Peninsula over the Past Half-Century, Science, 308, 541–544, https://doi.org/10.1126/science.1104235, 2005.
del Giorgio, P. A. and Cole, J. J.: Bacterial Growth Efficiency in Natural Aquatic Systems, Annu. Rev. Ecol. Syst., 29, 503–541, https://doi.org/10.1146/annurev.ecolsys.29.1.503, 1998.
Doney, S. C., Glover, D. M., McCue, S. J., and Fuentes, M.: Mesoscale variability of Sea-viewing Wide Field-of-view Sensor (SeaWiFS) satellite ocean color: Global patterns and spatial scales, J. Geophys. Res.-Oceans, 108, 3024, https://doi.org/10.1029/2001JC000843, 2003.
Doney, S. C., Lima, I., Moore, J. K., Lindsay, K., Behrenfeld, M. J., Westberry, T. K., Mahowald, N., Glover, D. M., and Takahashi, T.: Skill metrics for confronting global upper ocean ecosystem-biogeochemistry models against field and remote sensing data, J. Marine Syst., 76, 95–112, https://doi.org/10.1016/j.jmarsys.2008.05.015, 2009.
Droop, M. R.: The nutrient status of algal cells in continuous culture, J. Mar. Biol. Assoc. UK, 54, 825–855, https://doi.org/10.1017/S002531540005760X, 1974.
Droop, M. R.: 25 years of algal growth kinetics, A
personal view, Bot. Mar., 26, 99–112, https://doi.org/10.1515/botm.1983.26.3.99, 1983.
Ducklow, H. W.: Bacterial production and biomass in the ocean, in: Microbial Ecology of the Oceans, second edition, John Wiley & Sons, Inc., New York, NY, 85–120, 2000.
Ducklow, H. W. and Doney, S. C.: What is the metabolic state of the oligotrophic ocean? A debate, Annu. Rev. Mar. Sci., 5, 525–533, https://doi.org/10.1146/annurev-marine-121211-172331, 2013.
Ducklow, H. W, Baker, K., Martinson, D. G., Quetin, L. B., Ross, R. M., Smith, R. C., Stammerjohn, S. E., Vernet, M., and Fraser, W.: Marine pelagic ecosystems: The West Antarctic Peninsula, Philos. T. R. Soc. B, 362, 67–94, https://doi.org/10.1098/rstb.2006.1955, 2007.
Ducklow, H. W., Doney, S. C., and Steinberg, D. K.: Contributions of Long-Term Research and Time-Series Observations to Marine Ecology and Biogeochemistry, Annu. Rev. Mar. Sci., 1, 279–302, 2008.
Ducklow, H. W., Myers, K. M. S., Erickson, M., Ghiglione, J.-F., and Murray, A. E.: Response of a summertime Antarctic marine-bacterial community to glucose and ammonium enrichment, Aquat. Microb. Ecol., 64, 205–220, https://doi.org/10.3354/ame01519, 2011.
Ducklow, H. W., Schofield, O., Vernet, M., Stammerjohn, S., and Erickson, M.: Multiscale control of bacterial production by phytoplankton dynamics and sea ice along the western Antarctic Peninsula: A regional and decadal investigation, J. Marine Syst., 98–99, 26–39, https://doi.org/10.1016/j.jmarsys.2012.03.003, 2012.
Ducklow, H. W., Stukel, M. R., Eveleth, R., Doney, S. C., Jickells, T., Schofield, O., Baker, A. R., Brindle, J., Chance, R., and Cassar, N.: Spring–summer net community production, new production, particle export and related water column biogeochemical processes in the marginal sea ice zone of the Western Antarctic Peninsula 2012–2014, Philos. T. R. Soc. A, 376, 2017017, https://doi.org/10.1098/rsta.2017.0177, 2018.
Dugdale, R. C. and Goering, J. J.: Uptake of New and Regenerated Forms of Nitrogen in Primary Productivity1, Limnol. Oceanogr., 12, 196–206, https://doi.org/10.4319/lo.1967.12.2.0196, 1967.
Fennel, K., Losch, M., Schröter, J., and Wenzel, M.: Testing a marine ecosystem model: Sensitivity analysis and parameter optimization, J. Marine Syst., 28, 45–63, https://doi.org/10.1016/S0924-7963(00)00083-X, 2001.
Fogg, G. E.: The extracellular products of algae, Oceanogr. Mar. Biol. Annu. Rev., 4, 195–212, 1966.
Friedrichs, M. A. M.: Assimilation of JGOFS EqPac and SeaWiFS data into a marine ecosystem model of the Central Equatorial Pacific Ocean, Deep-Sea Res. Pt. II, 49, 289–319, 2001.
Friedrichs, M. A. M., Hood, R. R., and Wiggert, J. D.: Ecosystem model complexity versus physical forcing: Quantification of their relative impact with assimilated Arabian Sea data, Deep-Sea Res. Pt. II, 53, 576–600, 2006.
Friedrichs, M. A. M., Dusenberry, J. A., Anderson, L. A.,
Armstrong, R. A., Chai, F., Christian, J. R., Doney, S. C., Dunne,
J., Fujii, M., Hood, R., McGillicuddy, D. J., Moore, J. K.,
Schartau, M., Spitz, Y. H., and Wiggert, J. D.: Assessment of skill
and portability in regional marine biogeochemical models: Role of
multiple planktonic groups, J. Geophys. Res.-Oceans, 112, C08001, https://doi.org/10.1029/2006JC003852, 2007.
Fukuda, R., Ogawa, H., Nagata, T., and Koike, I.: Direct Determination of Carbon and Nitrogen Contents of Natural Bacterial Assemblages in Marine Environments, Appl. Environ. Microb., 64, 3352–3358, 1998.
Garzio, L. and Steinberg, D.: Microzooplankton community composition along the Western Antarctic Peninsula, Deep-Sea Res. Pt. I, 77, 36–49, https://doi.org/10.1016/j.dsr.2013.03.001, 2013.
Garzio, L. M., Steinberg, D. K., Erickson, M., and Ducklow, H. W.: Microzooplankton grazing along the Western Antarctic Peninsula, Aquat. Microb. Ecol., 70, 215–232, https://doi.org/10.3354/ame01655, 2013.
Geider, R. J.: Light and Temperature Dependence of the Carbon to Chlorophyll a Ratio in Microalgae and Cyanobacteria: Implications for Physiology and Growth of Phytoplankton, JSTOR, New Phytol., 106, 1–34, 1987.
Geider, R. J., MacIntyre, H. L., and Kana, T. M.: Dynamic model of phytoplankton growth and acclimation: Responses of the balanced growth rate and the chlorophyll a: carbon ratio to light, nutrient-limitation and temperature, JSTOR, Mar. Ecol. Prog. Ser., 148, 187–200, 1997.
Geider, R. J., MacIntyre, H. L., and Kana, T. M.: A dynamic regulatory model of phytoplanktonic acclimation to light, nutrients, and temperature, Limnol. Oceanogr., 43, 679–694, 1998.
Gilbert, J. C. and Lemaréchal, C.: Some numerical experiments with variable-storage quasi-Newton algorithms, Math. Program., 45, 407–435, 1989.
Glover, D. M., Jenkins, W. J., and Doney, S. C.: 10. Model analysis and optimization, in: Modeling Methods for Marine Science, Cambridge University Press, 2011.
Glover, D. M., Doney, S. C., Oestreich, W. K., and Tullo, A. W.: Geostatistical Analysis of Mesoscale Spatial Variability and Error in SeaWiFS and MODIS/Aqua Global Ocean Color Data, J. Geophys. Res.-Oceans, 123, 22–39, https://doi.org/10.1002/2017JC013023, 2018.
Harmon, R. and Challenor, P.: A Markov chain Monte Carlo method for estimation and assimilation into models, Ecol. Model., 101, 41–59, https://doi.org/10.1016/S0304-3800(97)01947-9, 1997.
Henley, S. F., Schofield, O. M., Hendry, K. R., Schloss, I. R., Steinberg, D. K., Moffat, C., Peck, L. S., Costa, D. P., Bakker, D. C. E., Hughes, C., Rozema, P. D., Ducklow, H. W., Abele, D., Stefels, J., Van Leeuwe, M. A., Brussaard, C. P. D., Buma, A. G. J., Kohut, J., Sahade, R., Friedlaender, A. S., Stammerjohn, S. E., Venables, H. J., and Meredith, M. P.: Variability and change in the west Antarctic Peninsula marine system: Research priorities and opportunities, Prog. Oceanogr., 173, 208–237, https://doi.org/10.1016/j.pocean.2019.03.003, 2019.
Inria at Sophia Antipolis: https://team.inria.fr/ecuador/en/tapenade/ last access: 2 August 2021.
Kim, H. and Ducklow, H. W.: A decadal (2002–2014) analysis for dynamics of heterotrophic bacteria in an Antarctic coastal ecosystem: Variability and physical and biogeochemical Forcings, Front. Mar. Sci., 3, 214, https://doi.org/10.3389/fmars.2016.00214, 2016.
Kim, H., Doney, S. C., Iannuzzi, R. A., Meredith, M. P., Martinson, D. G., and Ducklow, H. W.: Climate forcing for dynamics of dissolved inorganic nutrients at Palmer Station, Antarctica: An interdecadal (1993–2013) analysis, J. Geophys. Res.-Biogeo., 121, 2369–2389, 2016.
Kim, H. H., Luo, Y.-W., Ducklow, H. W., Schofield, O. M., Steinberg, D. K., and Doney, S. C.: WAP-1D-VAR v1.0: A One-Dimensional Variational Data Assimilation Model for the West Antarctic Peninsula (Version v1.0), Zenodo [code], https://doi.org/10.5281/zenodo.5041139, 2021.
King, J. C.: Recent climate variability in the vicinity of the antarctic peninsula, Int. J. Climatol., 14, 357–369, https://doi.org/10.1002/joc.3370140402, 1994.
Kirchman, D. L. (Ed.): Uptake and regeneration of inorganic nutrients by marine heterotrophic bacteria, in: Microbial ecology of the oceans, Wiley-Liss, New York, NY, 261–288, 2000.
Kirchman, D. L., Morán, X. A. G., and Ducklow, H.: Microbial growth in the polar oceans – Role of temperature and potential impact of climate change, Nat. Rev. Microbiol., 7, 451–459, 2009.
Kirk, J. T. O.: Light and photosynthesis in aquatic systems, Cambridge University Press, New York, NY, 1994.
Klinck, J. M.: Heat and salt changes on the continental shelf west of the Antarctic Peninsula between January 1993 and January 1994, J. Geophys. Res.-Oceans, 103, 7617–7636, https://doi.org/10.1029/98JC00369, 1998.
Lawson, L. M., Spitz, Y. H., Hofmann, E. E., and Long, R. B.: A data assimilation technique applied to a predator-prey model, B. Math. Biol., 57, 593–617, 1995.
Legendre, L. and Rassoulzadegan, F.: Food-web mediated export of biogenic carbon in oceans: hydrodynamic control, Mar. Ecol. Prog. Ser., 145, 179–193, https://doi.org/10.3354/meps145179, 1996.
Long, M. C., Lindsay, K., and Holland, M. M.: Modeling photosynthesis in sea ice‐covered waters, J. Adv. Model. Earth Sy., 7, 1189–1206, 2015.
Luo, Y.-W., Friedrichs, M. A. M., Doney, S. C., Church, M. J., and Ducklow, H. W.: Oceanic heterotrophic bacterial nutrition by semilabile DOM as revealed by data assimilative modeling, Aquat. Microb. Ecol., 60, 273–287, 2010.
Luria, C. M., Ducklow, H. W., and Amaral-Zettler, L. A.: Marine bacterial, archaeal and eukaryotic diversity and community structure on the continental shelf of the western Antarctic Peninsula, Aquat. Microb. Ecol., 73, 107–121, https://doi.org/10.3354/ame01703, 2014.
Luria, C. M., Amaral-Zettler, L. A., Ducklow, H. W., Repeta, D. J., Rhyne, A. L., and Rich, J. J.: Seasonal Shifts in Bacterial Community Responses to Phytoplankton-Derived Dissolved Organic Matter in the Western Antarctic Peninsula, Front. Microbiol., 8, 2117, https://doi.org/10.3389/fmicb.2017.02117, 2017.
Matear, R. J.: Parameter optimization and analysis of ecosystem models using simulated annealing: A case study at Station P, Oceanographic Literature Review, 43, 579, https://doi.org/10.1357/0022240953213098, 1996.
McCarthy, J.: Nitrogen, in: The physiological ecology of phytoplankton, edited by: Morris, I., Blackwell, Oxford, 191–234, 1980.
Meredith, M. P. and King, J. C.: Rapid climate change in the ocean west of the Antarctic Peninsula during the second half of the 20th century, Geophys. Res. Lett., 32, L19604, https://doi.org/10.1029/2005GL024042, 2005.
Moline, M., Karnovsky, N., Brown, Z., Divoky, G., Frazer, T., Jacoby, C., Torres, J., and Fraser, W.: High Latitude Changes in Ice Dynamics and Their Impact on Polar Marine Ecosystems, Ann. NY Acad. Sci., 1134, 267–319, https://doi.org/10.1196/annals.1439.010, 2008.
Montégut, C. de B., Madec, G., Fischer, A. S., Lazar, A., and Iudicone, D.: Mixed layer depth over the global ocean: An examination of profile data and a profile-based climatology, J. Geophys. Res.-Oceans, 109, C12003, https://doi.org/10.1029/2004JC002378, 2004.
Montes-Hugo, M., Doney, S. C., Ducklow, H. W., Fraser, W., Martinson, D., Stammerjohn, S. E., and Schofield, O.: Recent Changes in Phytoplankton Communities Associated with Rapid Regional Climate Change Along the Western Antarctic Peninsula, Science, 323, 1470–1473, https://doi.org/10.1126/science.1164533, 2009.
Murphy, E. J., Cavanagh, R. D., Hofmann, E. E., Hill, S. L., Constable, A. J., Costa, D. P., Pinkerton, M. H., Johnston, N. M., Trathan, P. N., Klinck, J. M., Wolf-Gladrow, D. A., Daly, K. L., Maury, O., and Doney, S. C.: Developing integrated models of Southern Ocean food webs: Including ecological complexity, accounting for uncertainty and the importance of scale, Prog. Oceanogr., 102, 74–92, https://doi.org/10.1016/j.pocean.2012.03.006, 2012.
NOAA-ESRL: https://www.esrl.noaa.gov/psd/data/gridded/data.ncep.reanalysis.surface.html, last access: 2 August 2021.
PAL-LTER, http://pal.lternet.edu/data, last access: 2 August 2021.
Pinker, R. T. and Laszlo, I.: Global distribution of photosynthetically active radiation as observed from satellites, J. Climate, 5, 56–65, 1992.
Pomeroy, L. R. and Wiebe, W. J.: Temperature and substrates as interactive limiting factors for marine heterotrophic bacteria, Aquat. Microb. Ecol., 23, 187–204, https://doi.org/10.3354/ame023187, 2001.
Prunet, P., Minster, J.-F., Echevin, V., and Dadou, I.: Assimilation of surface data in a one-dimensional physical-biogeochemical model of the surface ocean: 2. Adjusting a simple trophic model to chlorophyll, temperature, nitrate, and pCO2 data, Global Biogeochem. Cy., 10, 139–158, https://doi.org/10.1029/95GB03435, 1996a.
Prunet, P., Minster, J.-F., Ruiz-Pino, D., and Dadou, I.: Assimilation of surface data in a one-dimensional physical-biogeochemical model of the surface ocean: 1. Method and preliminary results, Global Biogeochem. Cy., 10, 111–138, https://doi.org/10.1029/95GB03436, 1996b.
Saba, G. K., Fraser, W. R., Saba, V. S., Iannuzzi, R. A., Coleman, K. E., Doney, S. C., Ducklow, H. W., Martinson, D. G., Miles, T. N., Patterson-Fraser, D. L., Stammerjohn, S. E., Steinberg, D. K., and Schofield, O. M.: Winter and spring controls on the summer food web of the coastal West Antarctic Peninsula, Nat. Commun., 5, 1–8, https://doi.org/10.1038/ncomms5318, 2014.
Sailley, S. F., Ducklow, H. W., Moeller, H. V., Fraser, W. R., Schofield, O. M., Steinberg, D. K., Garzio, L. M., and Doney, S. C.: Carbon fluxes and pelagic ecosystem dynamics near two western Antarctic Peninsula Adélie penguin colonies: An inverse model approach, Mar. Ecol. Prog. Ser., 492, 253–272, https://doi.org/10.3354/meps10534, 2013.
Schofield, O., Saba, G., Coleman, K., Carvalho, F., Couto, N., Ducklow, H., Finkel, Z., Irwin, A., Kahl, A., Miles, T., Montes-Hugo, M., Stammerjohn, S., and Waite, N.: Decadal variability in coastal phytoplankton community composition in a changing West Antarctic Peninsula, Deep-Sea Res. Pt. I, 124, 42–54, https://doi.org/10.1016/j.dsr.2017.04.014, 2017.
Sherrell, R. M., Annett, A. L., Fitzsimmons, J. N., Roccanova, V. J., and Meredith, M. P.: A “shallow bathtub ring” of local sedimentary iron input maintains the Palmer Deep biological hotspot on the West Antarctic Peninsula shelf, Philos. T. R. Soc. A, 376, 20170171, https://doi.org/10.1098/rsta.2017.0171, 2018.
Smith, D. A., Hofmann, E. E., Klinck, J. M., and Lascara, C. M.: Hydrography and circulation of the West Antarctic Peninsula Continental Shelf, Deep-Sea Res. Pt. I, 46, 925–949, https://doi.org/10.1016/S0967-0637(98)00103-4, 1999.
Smith, R. C., Martinson, D. G., Stammerjohn, S. E., Iannuzzi, R. A., and Ireson, K.: Bellingshausen and western Antarctic Peninsula region: Pigment biomass and sea-ice spatial/temporal distributions and interannual variabilty, Deep-Sea Res. Pt. II, 55, 1949–1963, https://doi.org/10.1016/j.dsr2.2008.04.027, 2008.
Spitz, Y. H., Moisan, J. R., and Abbott, M. R.: Configuring an ecosystem model using data from the Bermuda Atlantic Time Series (BATS), Deep-Sea Res. Pt. II, 48, 1733–1768, 2001.
Stammerjohn, S. E., Martinson, D. G., Smith, R. C., Yuan, X., and Rind, D.: Trends in Antarctic annual sea ice retreat and advance and their relation to El Niño–Southern Oscillation and Southern Annular Mode variability, J. Geophys. Res.-Oceans, 113, C03S90, https://doi.org/10.1029/2007JC004269, 2008.
Steinberg, D. K., Ruck, K. E., Gleiber, M. R., Garzio, L. M., Cope, J. S., Bernard, K. S., Stammerjohn, S. E., Schofield, O. M. E., Quetin, L. B., and Ross, R. M.: Long-term (1993–2013) changes in macrozooplankton off the Western Antarctic Peninsula, Deep-Sea Res. Pt. I, 101, 54–70, https://doi.org/10.1016/j.dsr.2015.02.009, 2015.
Stow, C. A., Jolliff, J., McGillicuddy, D. J., Doney, S. C., Allen, J. I., Friedrichs, M. A. M., Rose, K. A., and Wallhead, P.: Skill assessment for coupled biological/physical models of marine systems, J. Marine Syst., 76, 4–15, https://doi.org/10.1016/j.jmarsys.2008.03.011, 2009.
Stukel, M. R., Asher, E., Couto, N., Schofield, O., Strebel, S., Tortell, P., and Ducklow, H. W.: The imbalance of new and export production in the western Antarctic Peninsula, a potentially “leaky” ecosystem, Global Biogeochem. Cy., 29, 1400–1420, https://doi.org/10.1002/2015GB005211, 2015.
Taylor, K. E.: Summarizing multiple aspects of model performance in a single diagram, J. Geophys. Res.-Atmos., 106, 7183–7192, 2001.
Thibodeau, P. S., Steinberg, D. K., Stammerjohn, S. E., and Hauri, C.: Environmental controls on pteropod biogeography along the Western Antarctic Peninsula, Limnol. Oceanogr., 64, S240–S256, https://doi.org/10.1002/lno.11041, 2019.
Tziperman, E. and Thacker, W. C.: An Optimal-Control/Adjoint-Equations Approach to Studying the Oceanic General Circulation, J. Phys. Oceanogr., 19, 1471–1485, 1989.
Vaughan, D., Marshall, G., Connolley, W., Parkinson, C., Mulvaney, R., Hodgson, D., King, J., Pudsey, C., and Turner, J.: Recent Rapid Regional Climate Warming on the Antarctic Peninsula, Climatic Change, 60, 243–274, https://doi.org/10.1023/A:1026021217991, 2003.
Vaughan, D. G.: Recent Trends in Melting Conditions on the Antarctic Peninsula and Their Implications for Ice-sheet Mass Balance and Sea Level, Arct. Antarct. Alp. Res., 38, 147–152, https://doi.org/10.1657/1523-0430(2006)038[0147:RTIMCO]2.0.CO;2, 2006.
Ward, B. A., Friedrichs, M. A. M., Anderson, T. R., and Oschlies, A.: Parameter optimisation techniques and the problem of underdetermination in marine biogeochemical models, J. Marine Syst., 81, 34–43, 2010.
Weston, K., Jickells, T. D., Carson, D. S., Clarke, A., Meredith, M. P., Brandon, M. A., Wallace, M. I., Ussher, S. J., and Hendry, K. R.: Primary production export flux in Marguerite Bay (Antarctic Peninsula): Linking upper water-column production to sediment trap flux, Deep-Sea Res. Pt. I, 75, 52–66, https://doi.org/10.1016/j.dsr.2013.02.001, 2013.
Whitehouse, M. J., Meredith, M. P., Rothery, P., Atkinson, A., Ward, P., and Korb, R. E.: Rapid warming of the ocean around South Georgia, Southern Ocean, during the 20th century: Forcings, characteristics and implications for lower trophic levels, Deep-Sea Res. Pt. I, 55, 1218–1228, https://doi.org/10.1016/j.dsr.2008.06.002, 2008.
Short summary
The West Antarctic Peninsula (WAP) is a rapidly warming region, revealed by multi-decadal observations. Despite the region being data rich, there is a lack of focus on ecosystem model development. Here, we introduce a data assimilation ecosystem model for the WAP region. Experiments by assimilating data from an example growth season capture key WAP features. This study enables us to glue the snapshots from available data sets together to explain the observations in the WAP.
The West Antarctic Peninsula (WAP) is a rapidly warming region, revealed by multi-decadal...
