| [1] | O. Kerimoglu, P. Anugerahanti, and S. L. Smith, “FABM-NflexPD 1.0: assessing an instantaneous acclimation approach for modeling phytoplankton growth,” Geoscientific Model Development, vol. 14, pp. 6025--6047, oct 2021. [ bib | DOI | http ] |
| [2] | S. Krishna, H. N. Ulloa, O. Kerimoglu, C. Minaudo, O. Anneville, and A. Wüest, “Model-based data analysis of the effect of winter mixing on primary production in a lake under reoligotrophication,” Ecological Modelling, vol. 440, p. 109401, 2021. [ bib | DOI | http ] |
| [3] | P. Anugerahanti, O. Kerimoglu, and S. L. Smith, “Enhancing Ocean Biogeochemical Models With Phytoplankton Variable Composition,” Frontiers in Marine Science, vol. 8, p. 675428, 2021. [ bib | DOI ] |
| [4] | X. Lange and H. Burchard, “The relative importance of wind straining and gravitational forcing in driving exchange flows in tidally energetic estuaries,” J. Phys. Oceanogr., vol. 49, no. 3, pp. 723--736, 2019. [ bib | DOI ] |
| [5] | E. Mortenson, H. Hayashida, N. Steiner, A. Monahan, M. Blais, M. A. Gale, V. Galindo, M. Gosselin, X. Hu, D. Lavoie, and C. J. Mundy, “A model-based analysis of physical and biological controls on ice algal and pelagic primary production in Resolute Passage,” Elem Sci Anth, vol. 5, July 2017. [ bib | DOI ] |
| [6] | H. Hayashida, N. Steiner, A. Monahan, V. Galindo, M. Lizotte, and M. Levasseur, “Implications of sea-ice biogeochemistry for oceanic production and emissions of dimethyl sulfide in the Arctic,” Biogeosciences, vol. 14, pp. 3129--3155, June 2017. [ bib | DOI ] |
| [7] | O. Kerimoglu, S. Jacquet, B. Vinçon-Leite, B. J. Lemaire, F. Rimet, F. Soulignac, D. Trévisan, and O. Anneville, “Modelling the plankton groups of the deep, peri-alpine Lake Bourget,” Ecological Modelling, vol. 359, pp. 415--433, 2017. [ bib | DOI ] |
| [8] | S. Moghimi, J. Thomson, T. Özkan-Haller, L. Umlauf, and S. Zippel, “On the modeling of wave-enhanced turbulence nearshore,” Ocean Modelling, 2016. [ bib | DOI ] |
| [9] | S. Mandal, H. Homma, A. Priyadarshi, H. Burchard, S. L. Smith, K. W. Wirtz, and H. Yamazaki, “A 1d physical--biological model of the impact of highly intermittent phytoplankton distributions,” J. Plankton Res., vol. 38, no. 4, pp. 964--976, 2016. [ bib | DOI ] |
| [10] | C. Abraham, N. Steiner, A. Monahan, and C. Michel, “Effects of subgrid-scale snow thickness variability on radiative transfer in sea ice,” Journal of Geophysical Research: Oceans, vol. 120, pp. 5597--5614, Aug. 2015. [ bib | DOI ] |
| [11] | J. Bruggeman and K. Bolding, “A general framework for aquatic biogeochemical models,” Environmental Modelling and Software, 2014. [ bib | DOI ] |
| [12] | H. Yamazaki, C. Locke, L. Umlauf, H. Burchard, T. Ishimaru, and D. Kamykowski, “A lagrangian model for phototaxis-induced thin layer formation,” Deep Sea Research Part II: Topical Studies in Oceanography, vol. 101, pp. 193--206, 2014. [ bib | DOI ] |
| [13] | H. Burchard and H. M. Schulz, Elisabethand Schuttelaars, “Impact of estuarine convergence on residual circulation in tidally energetic estuaries and inlets,” Geophys. Res. Lett., vol. 41, no. 3, pp. 913--919, 2014. [ bib | DOI ] |
| [14] | H. Burchard, H. Schuttelaars, and W. Geyer, “Residual sediment fluxes in weakly-to-periodically stratified estuaries and tidal inlets,” Journal of Physical Oceanography, vol. 43, pp. 1841--1861, 2013. [ bib | DOI ] |
| [15] | E. Berdalet, M. A. McManus, O. N. Ross, H. Burchard, F. Chavez, J. S. Jaffe, I. Jenkinson, R. Kudela, I. Lips, A. Lucas, D. Rivas, M. C. R. de la Torre, J. Ryan, J. Sullivan, and H. Yamazaki, “Understanding harmful algae in stratified systems: Review of progress and identification of gaps in knowledge,” Deep-Sea Research II, vol. Published online, 2013. [ bib | DOI ] |
| [16] | M. McManus, E. Berdalet, J. Ryan, H. Yamazaki, J. Jaffe, O. Ross, H. Burchard, I. Jenkinson, and F. Chavez), eds., Global Ecology and Oceanography of Harmful Algal Blooms, GEOHAB Core Research Project: HABs in Stratified Environments. isbn: 1538 182x ed., 2013. [ bib ] |
| [17] | J. van der Molen, J. N. Aldridge, C. Coughlan, E. R. Parker, D. Stephens, and P. Ruardij, “Modelling marine ecosystem response to climate change and trawling in the North Sea,” Biogeochemistry, 2012. [ bib | DOI ] |
| [18] | M. Bakhoday-Paskyabi, I. Fer, and A. D. Jenkins, “Surface gravity wave effects on the upper ocean boundary layer: Modification of a one--dimensional vertical mixing model,” Continental Shelf Research, vol. 38, pp. 63--78, 2012. [ bib | DOI ] |
| [19] | T. Kärnä, V. Legat, E. Deleersnijder, and H. Burchard, “Coupling of a discontinuous Galerkin finite element marine model with a finite difference turbulence closure model,” Ocean Modelling, vol. 47, pp. 55--64, 2012. [ bib | DOI ] |
| [20] | J. Nauw and M. van der Vegt, “Hydrodynamics of the rhine rofi near ijmuiden,” in NCK-days 2012 : Crossing borders in coastal research : jubilee conference proceedings. (W. Kranenburg, E. Horstman, and K. Wijnberg, eds.), pp. 167--172, 2012. [ bib | http ] |
| [21] | S. Sonntag and I. Hense, “Phytoplankton behavior affects ocean mixed layer dynamics through biological-physical feedback mechanisms,” Geophysical Research Letters, vol. 38, no. L15610, 2011. [ bib | DOI ] |
| [22] | R. Somavilla Cabrillo, C. Gonzalez-Pola, M. Ruiz-Villarreal, and A. Lavin Montero, “Mixed layer depth (MLD) variability in the southern Bay of Biscay. Deepening of winter MLDs concurrent with generalized upper water warming trends?,” Ocean Dynamics, vol. 61, no. 9, pp. 1215--1235, 2011. [ bib | DOI ] |
| [23] | I. R. Jenkinson and J. Sun, “A model of pycnocline thickness modified by the rheological properties of phytoplankton exopolymeric substances,” Journal of Plankton Research, vol. 33, pp. 373--383, 2011. [ bib | DOI ] |
| [24] | E. V. Yakushev, I. S. Kuznetsov, O. I. Podymov, H. Burchard, T. Neumann, and F. Pollehne, “Modeling of influence of oxygenated inflows on biogeochemical structure of the Gotland Sea, central Baltic Sea: changes in distribution of manganese,” Computers and Geosciences, vol. 37, pp. 398--409, 2011. [ bib | DOI ] |
| [25] | L. Umlauf and H. Burchard, “Diapycnal transport and mixing efficiency in stratified boundary layers near sloping topography,” Journal of Physical Oceanography, vol. 41, p. 329–345, 2011. [ bib | DOI ] |
| [26] | B. Schippmann and H. Burchard, “Rosenbrock methods in biogeochemical modelling - a comparison to Runge-Kutta methods and modified Patankar schemes,” Ocean Modelling, vol. 37, pp. 112--121, 2011. [ bib | DOI ] |
| [27] | N. Steiner, M. Robert, M. Arychuk, M. Levasseur, A. Merzouk, A. Pena, W. Richardson, and P. Tortell, “Evaluating dms measurements and model results in the northeast subarctic pacific from 1996-2010,” Biogeochemistry, vol. 110, no. 1-3, pp. 269--285, 2011. [ bib | DOI ] |
| [28] | S. Falchetti, D. Conley, M. Brocchini, and S. Elgar, “Nearshore bar migration and sediment induced buoyancy effects,” Continental Shelf Research, vol. 30, pp. 226--238, 2010. [ bib | DOI ] |
| [29] | I. Hense and H. Burchard, “Modelling cyanobacteria in shallow coastal seas,” Ecological Modelling, vol. 221, pp. 238--244, 2010. [ bib | DOI ] |
| [30] | S. Miladinova and A. Stips, “Sensitivity of oxygen dynamics in the water column of the baltic sea to external forcing,” Ocean Science, vol. 6, no. 2, pp. 461--474, 2010. [ bib | http ] |
| [31] | I. R. Jenkinson and J. Sun, “Rheological properties of natural waters with regard to plankton thin layers. A short review,” Journal of Marine Systems, vol. 83, pp. 287--297, 2010. [ bib | DOI ] |
| [32] | H. Burchard and R. Hetland, “Quantifying the contributions of tidal straining and gravitational circulation to residual circulation in periodically stratified tidal estuaries,” Journal of Physical Oceanography, vol. 40, pp. 1243--1262, 2010. [ bib | DOI ] |
| [33] | I. Hense and B. Quack, “Modelling the vertical distribution of bromoform in the upper water column of the tropical Atlantic Ocean,” Biogeosciences, vol. 6, pp. 535--544, 2009. [ bib ] |
| [34] | F. I. Verspecht, H. Burchard, T. P. Rippeth, M. J. Howarth, , and J. H. Simpson, “Processes impacting on stratification in a region of freshwater influence: Application to Liverpool Bay,” Journal of Geophysical Research, vol. 114, p. 11022, 2009. [ bib | DOI ] |
| [35] | H. Burchard, “Combined effects of wind, tide and horizontal density gradients on stratification in estuaries and coastal seas,” Journal of Physical Oceanography, vol. 39, pp. 2117--2136, 2009. [ bib | DOI ] |
| [36] | Y. Ye, C. Volker, and D. A. Wolf-Gladrow, “A model of Fe speciation and biogeochemistry at the Tropical Eastern North Atlantic Time-Series Observatory site,” Biogeosciences, vol. 6, no. 10, pp. 2041--2061, 2009. [ bib | http ] |
| [37] | J. van der Molen, K. Bolding, N. Greenword, and D. K. Mills, “A 1-d vertical multiple grain size model of suspended particulate matter in combined currents and waves in shelf seas,” Journal of Geophysical Research, vol. 114, p. F01030, 2009. [ bib | DOI ] |
| [38] | A. W. Omta, J. Bruggeman, S. A. L. M. Kooijman, and H. Dijkstra, “The organic carbon pump in the Atlantic,” Journal of Sea Research, vol. 62, pp. 179--187, 2009. [ bib | DOI ] |
| [39] | E. Yakushev, S. Pakhomova, K. Sorensen, and J. Skei, “Importance of the different manganese species in the formation of water column redox zones: Observations and modelling,” Marine Chemistry, vol. 117, pp. 59--70, 2009. [ bib | DOI ] |
| [40] | J. Reissmann, H. Burchard, R. Feistel, E. Hagen, H. Lass, V. Mohrholz, G. Nausch, L. Umlauf, and G. Wieczorek, “State-of-the-art review on vertical mixing in the Baltic Sea and consequences for eutrophication,” Progress in Oceanography, vol. 82, pp. 47--80, 2009. [ bib | DOI ] |
| [41] | N. L. Jones and S. G. Monismith, “Modeling the influence of wave-enhanced turbulence in a shallow tide- and wind-driven water column,” Journal of Geophysical Research, vol. 113, p. C03009, 2008. [ bib | DOI ] |
| [42] | N. L. Jones and S. G. Monismith, “The influence of whitecapping waves on the vertical structure of turbulence in a shallow estuarine embayment,” Journal of Physical Oceanography, vol. 38, pp. 1563--1580, 2008. [ bib ] |
| [43] | D. Conley, S. Falchetti, I. Lohmann, and M. Brocchini, “The effects of flow stratification by non-cohesive sediment on transport in high-energy wave-driven flows,” Journal of Fluid Mechanics, vol. 610, pp. 43--67, 2008. [ bib | DOI ] |
| [44] | H. Burchard, G. Flöser, J. V. Staneva, R. Riethmüller, and T. Badewien, “Impact of density gradients on net sediment transport into the Wadden Sea,” Journal of Physical Oceanography, vol. 38, pp. 566--587, 2008. [ bib | DOI ] |
| [45] | H. Burchard and R. Hofmeister, “A dynamic equation for the potential energy anomaly for analysing mixing and stratification in estuaries and coastal seas,” Estuarine, Coastal and Shelf Science, vol. 77, pp. 679--687, 2008. [ bib | DOI ] |
| [46] | I. Kuznetzov, T. Neumann, and H. Burchard, “Model study on the ecosystem impact of a variable C:N:P ratio for cyanobacteria in the Baltic Proper,” Ecological Modelling, vol. 219, pp. 107--114, 2008. [ bib | DOI ] |
| [47] | H. Burchard, P. Craig, J. Gemmrich, H. van Haren, P.-P. Mathieu, H. Meier, W. N. Smith, H. Prandke, T. Rippeth, E. Skyllingstad, W. Smyth, D. Welsh, and H. Wijesekera, “Observational and numerical modeling methods for quantifying coastal ocean turbulence and mixing,” Progress in Oceanography, vol. 76, pp. 399--442, 2008. [ bib | DOI ] |
| [48] | N. Steiner and K. Denman, “Parameter sensitivities in a 1-d model for dms and sulphur cycling in the upper ocean,” Deep Sea Research I, vol. 55, pp. 847--865, 2008. [ bib ] |
| [49] | L. Arneborg, V. Fiekas, L. Umlauf, and H. Burchard, “Gravity current dynamics and entrainment - A process study based on observations in the Arkona Basin,” Journal of Physical Oceanography, vol. 37, pp. 2094--2113, 2007. [ bib | DOI ] |
| [50] | M. Maar, T. G. Nielsen, K. Bolding, H. Burchard, and A. W. Visser, “Grazing effects of blue mussel mytilus edulis on the pelagic food web under different turbulence conditions,” Marine Ecology Progress Series, vol. 339, pp. 199--213, 2007. [ bib ] |
| [51] | J. Bruggeman and S. A. L. M. Kooijman, “A biodiversity-inspired approach to aquatic ecosystem modeling.,” Limnology and Oceanography, vol. 52(4), pp. 1533--1544, 2007. [ bib | DOI ] |
| [52] | S. Carniel, M. Vichi, and M. Sclavo, “Sensitivity of a coupled physical-biological model to turbulence: high frequency simulations in a northern Adiratic station.,” Chemistry and Ecology, vol. 23(2), pp. 157--175, 2007. [ bib ] |
| [53] | N. Steiner, S. Vagle, K. Denman, and C. McNeil, “Oxygen and nitrogen cycling in the Notheast Pacific - simulations and observations at station Papa in 2003/2004,” Journal of Marine Research, vol. 65, no. 3, pp. 441--469, 2007. [ bib ] |
| [54] | H. Burchard, K. Bolding, W. Kühn, A. Meister, T. Neumann, and L. Umlauf, “Description of a flexible and extendable physical-biogeochemical model system for the water column,” Journal of Marine Systems, vol. 61, pp. 180--211, 2006. [ bib | DOI ] |
| [55] | J. Allen, S. D. Archer, J. C. Blackford, F. J. Gilbert, and A. H. Taylor, “Changes in dms production and flux in relation to decadal shifts in ocean circulation,” Tellus B, vol. 58, pp. 242--254, 2006. [ bib ] |
| [56] | R. Torres, J. I. Allen, and F. G. Figueiras, “Sequential data assimilation in an upwelling influenced estuary,” Journal of Marine Systems, vol. 60, pp. 317--329, 2006. [ bib ] |
| [57] | D. K. Ralston and M. T. Stacey, “Shear and turbulence production across subtidal channels,” Journal of Marine Systems, vol. 64, pp. 147--171, 2006. [ bib ] |
| [58] | N. Steiner, K. Denman, N. McFarlane, and L. Solheim, “Simulating the atmosphere-ocean physical conditions and effects on the planktonic ecosystem response during SERIES,” Deep Sea Research II, vol. 53, pp. 2434--2454, 2006. [ bib | DOI ] |
| [59] | S. Vagle, C. McNeil, and N. Steiner, “Upper ocean bubble measurements from the NE Pacific and estimates of their role in air-sea gas transfer of nitrogen,” Journal of Geophysical Research, vol. 115, no. C12054,, 2006. [ bib | DOI ] |
| [60] | L. Umlauf, “Modelling the effects of horizontal and vertical shear in stratified turbulent flows,” Deep Sea Research II, vol. 52, pp. 1181--1201, 2005. [ bib ] |
| [61] | L. Umlauf and H. Burchard, “Second-order turbulence closure models for gephysical boundary layers. A review of recent work,” Continental Shelf Research, vol. 25, pp. 795--827, 2005. [ bib | DOI ] |
| [62] | A. Stips, H. Burchard, K. Bolding, H. Prandke, and A. Wüest, “Measurement and simulation of viscous dissipation rates in the wave affected surface layer,” Deep Sea Research II, vol. 52, pp. 1133--1155, 2005. [ bib | DOI ] |
| [63] | H. Burchard, H. Lass, V. Mohrholz, L. Umlauf, J. Sellschopp, V. Fiekas, K. Bolding, and L. Arneborg, “Dynamics of medium-intensity dense water plumes in the Arkona Sea, Western Baltic Sea,” Ocean Dynamics, vol. 55, pp. 391--402, 2005. [ bib | DOI ] |
| [64] | J. C. Blackford, J. Allen, and F. J. G. J. Allen, “Ecosystem dynamics at six contrasting sites: a generic modelling study,” Journal of Marine Systems, vol. 52, pp. 191--215, 2004. [ bib ] |
| [65] | S. D. Archer, F. J. Gilbert, J. Allen, J. C. Blackford, and P. D. Nightingale, “Modelling of the seasonal patterns of dimethyl sulphide production and fate during 1989 at a site in the North Sea,” Canadian Journal of Fisheries Research, vol. 61, pp. 765--787, 2004. [ bib ] |
| [66] | J. Allen, J. D. Siddorn, J. C. Blackford, and F. J. Gilbert, “Turbulence as a control on the microbial loop in a temperate seasonally stratified marine systems model,” Journal of Sea Research, vol. 52, pp. 1--20, 2004. [ bib ] |
| [67] | L. Umlauf and H. Burchard, “A generic length-scale equation for geophysical turbulence models,” Journal of Marine Research, vol. 61, pp. 235--265, 2003. [ bib | DOI ] |
| [68] | L. Umlauf, H. Burchard, and K. Hutter, “Extending the k-ω turbulence model towards oceanic applications,” Ocean Modelling, vol. 5, pp. 195--218, 2003. [ bib | DOI ] |
| [69] | H. Burchard, K. Bolding, T. P. Rippeth, A. Stips, J. H. Simpson, and J. Sündermann, “Microstructure of turbulence in the northern north sea: comparative study of observations and model simulations,” Journal of Sea Research, vol. 47, pp. 223--238, 2002. [ bib | DOI ] |
| [70] | A. Stips, H. Burchard, K. Bolding, and W. Eifler, “Modelling of convective turbulence with a two-equation k-ε turbulence closure scheme,” Ocean Dynamics, vol. 52, pp. 153--168, 2002. [ bib | DOI ] |
| [71] | H. Burchard, A. Stips, W. Eifler, K. Bolding, and M. Villarreal, “Numerical simulation of dissipation measurements in non-stratified and strongly stratified estuaries.,” Interactions between Estuaries, Coastal Seas and Shelf Sea, pp. 1--18, 2000. [ bib ] |
| [72] | H. Burchard and K. Bolding, “Comparitive analysis of four second-moment turbulence closure for the oceanic mixed layer.,” Journal of Physical Oceanography, 2000. [ bib | DOI ] |
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