Publications

3D ocean modelling in the Baltic-North Sea

  • Christensen A., Mariani P. & Payne M.R. Accepted 2017. A generic framework for individual-based modelling and physical-biological interaction. PLOS One.

  • Larsen, J., Maar, M., Brüning, T., She, J., Mohn, C. 2017. Flexsem: a new method for offline ocean modelling. Technical report from DCE - Danish Centre for Environment and Energy, No. 105, 28 pp. http://dce2.au.dk/pub/TR105.pdf

  • She, J., Allen I., Buch E., Crise A., J. Johannessen J.A., Le Traon P.-Y., Lips U., Nolan G., Pinardi N., Reißmann J.H., Siddorn J., Stanev E. & Wehde H. 2016. Developing European operational oceanography for Blue Growth, climate change adaptation and mitigation, and ecosystem-based management. Ocean Sci. 12(4): 953-976. DOI:10.5194/os-12-953-2016.

  • Gómez, B.P., Fanjul E.Á., She J., González I.P. & F.M. Muñoz F.M. 2016. Extreme sea level event. Ch. 4.4 in The Copernicus Marine Environment Monitoring Service Ocean State Report. Ed. K. von Schuckmnn et al. Journal of Operational Oceanography 9:sup2, s235-s3209.

  • She J., Allen I., Buch E., Crise A., Johannessen J.A., Le Traon P.Y., Lips U., Nolan G., Pinardi N., Reißmann J.H., Siddorn J., Stanev E. & Wehde H. 2016. Developing European operational oceanography for Blue Growth, climate change adaptation and mitigation and ecosystem-based management. Ocean Sci. 12: 953-976. doi:10.5194/os-12-953-2016.
  • Poulsen J.W., Berg P. & Raman K. 2014. Better Concurrency and SIMD on HBM. - In Reinders J. & Jeffers J. (Eds.), Chapter 3 in High Performance Parallelism Pearls - Multicore and Many-core Programming Approaches. Morgan Kaufmann. ISBN 978-0-128-02118-7.
  • Tian T., Boberg F., Christensen O., Christensen J., She J. & Vihma T. 2013. Resolved complex coastlines and land-sea contrasts in a high-resolution regional climate model: a comparative study using prescribed and modelled SSTs. Tellus 65.
  • Berg P. 2012. Mixing in HBM. DMI Scientific Report 12-03, 21 pp. www.dmi.dk/dmi/sr12-03.pdf
  • Berg P. & Poulsen J.W. 2012. Implementation details for HBM, DMI Technical Report 12-11. 147 pp. www.dmi.dk/dmi/tr12-11.pdf
  • Poulsen J.W. & Berg P. 2012. More details on HBM - general modelling theory and survey of recent studies, DMI Technical Report 12-16, 115 pp. www.dmi.dk/dmi/tr12-16.pdf
  • She J., Berg P., Larsen J. & Nielsen J.W. 2007. Operational three dimensional ocean modelling for the Baltic Sea. Environ. Res., Eng. and Management 1(39): 3-7.
  • She J., Berg P. & Berg J.. 2007. Bathymetry impacts on water exchange modelling through the Danish Straits. J. Mar. Sys. 65: 450-459.

Data assimilation

  • Fu W., J. She, and M. Dobrynin. 2012. A 20-yr reanalysis Experiment in the Baltic Sea Using three Dimensional Variational (3DVAR) method. Ocean Sci. 8: 827-844.
  • Fu W., J L Høyer, J She. 2011. Assessment of the three dimensional temperature and salinity observational networks in the Baltic Sea and North Sea. Ocean Science 7: 75-90.
  • Fu W., J. She and S. Zhuang. 2011. Application of an Ensemble Optimal Interpolation in a North/Baltic Sea model: Assimilating temperature and salinity profiles. Ocean Modelling 40: 227-245. Doi:10.1016/j.ocemod.2011.09.004.
  • Zhuang, S. W. Fu, and J. She. 2011: A pre-operational 3-D variational data assimilation system in the North/Baltic Sea. Ocean Sci. 7: 771-781. Doi:10.5194/os-7-771-2011.
  • Liu Y., J. Zhu, J. She, S. Zhuang, W. Fu and J. Gao. 2009. Assimilating temperature and salinity profiles using anisotropic recursive filter in a coastal ocean model. Ocean modelling 30: 75-87.
  • Larsen, J., J. L. Høyer and J. She. 2007. Validation of a hybrid optimal interpolation and Kalman filter scheme for sea surface temperature assimilation. J. Mar. Sys. 65: 122-133.

Biogeochemical and lower trophic level modelling

  • Maar M, Larsen J, Dahl K & Riemann B (in revision). Modelling the environmental impact of offshore fish farms in the inner Danish waters. AEI.

  • Petersen ME, Maar M, Larsen J, Møller EF & Hansen PJ 2017. Trophic cascades of bottom-up and top-down forcing on plankton and nutrients in the Kattegat, evaluated by modelling. J Mar Syst. 169: 15-39.

  • Radtke H & Maar M 2016. Estimating the effective nitrogen import: An example for the North Sea-Baltic Sea boundary. J Geophys Res-Biogeosci. 121: 2562-2575.

  • Queiros AM, Huebert K, Keyl F, Stolte W, Maar M, Kay S, Fernandes JA, Jones M, Hammon K, Hendriksen G, Vermard Y, Marchal P, Sell A, Teal L, Somerfield PJ, Austen MV & Peck, M 2016. Solutions for ecosystem-level protection of ocean systems under climate change. Global Change Biol. 22: 3927-3936.

  • Møller EF, Bohr M, Møhl M, Kjellerup S, Swalethorp R, Maar M & Nielsen TG. 2016. Calanus finmarchicus egg production at its northern border. J Plankt Res. 38: 1206-1214.

  • Soetaert K, Mohn C, Rengstorf A, Grehan A & van Oevelen D. 2016. Ecosystem engineering creates a direct nutritional link between 600-m deep cold-water coral mounds and surface productivity. Scientific Reports 6:35057. DOI:10.1038/srep35057.
  • Maar M, Markager SS, Madsen KS, Windolf J, Lyngsgaard MM, Andersen HE & Møller EF. 2015. The importance of local versus external nutrient loads for Chl a and primary production in the Western Baltic Sea. Ecol Model. 320: 258-272.
  • Maar M, Møller EF, Gürkan Z, Jónasdóttir SH & Nielsen TG. 2013. Sensitivity of Calanus copepods to environmental changes in the North Sea. Prog Oceanogr. 111: 24-37.
  • Wan Z, Bi H & She J. 2013. Comparison of two light attenuation parameterization focusing on timing of spring bloom and primary production in the Baltic Sea. Ecological modelling 259: 40-49.
  • Wan Z, She J, Maar M, Jonasson L & Baasch-Larsen J. 2012. Assessment of a physical-biogeochemical coupled model system for operational service in the Baltic Sea. Ocean Science 8: 683-701.
  • Jonasson, L, Hansen JLS, Wan Z & She J. 2012. The impacts of physical processes on oxygen variations in the North Sea-Baltic Sea transition zone. Ocean Sciences 8: 37-48. Doi:10.5194/os-8-37-2012
  • Møller EF, Maar M, Jónasdóttir SH, Nielsen TG, Tönnesson K. 2012. The effect of changes in in temperature and food on the development of Calanus finmarchicus and Calanus helgolandicus populations. Limnol Oceanogr. 57(1): 211-220.
  • Kulinski K, She J & Pempkowiak J. 2011. Short and medium term dynamics of the carbon exchange between the Baltic Sea and the North Sea. Continental Shelf Research 31: 161-1619.
  • Maar M, Larsen J, Møller EF, Madsen KS, Wan Z, She J, Jonasson L & Neumann T. 2011. Ecosystem modelling across a salinity gradient from the North Sea to the Baltic Sea. Ecol Model. 222: 1696-1711.
  • Maar M & Hansen JLS. 2011. Change in the balance between pelagic- and benthic secondary production in the Kattegat due to climate warming-a model study. J Mar Syst. 85: 57-70.
  • Tian T, Su J, Flöser G, Wiltshire K & Wirtz K. 2011. Factors controlling the onset of spring blooms in the German Bight 2002-2005: light, wind and stratification. Continental Shelf Res. 31(10): 1140-1148.
  • Hjalmarsson S., Anderson LG & She J. 2010. The exchange of dissolved inorganic carbon between the Baltic Sea and the North Sea in 2006 based on measured data and water transport estimates from a 3D model, Marine Chemistry 121: 200-205. Doi:10.1016/j.marchem.2010.04.008.
  • Tian T, Merico A, Su J, Staneva J, Wiltshire K & Wirtz K. 2009. Importance of resuspended sediment dynamics for the phytoplankton spring bloom in a coastal marine ecosystem. J. Sea Res. 62(4): 214-228.

Fishery and higher trophic level modelling

  • Nielsen JR, Thunberg E, Holland DS, et al. 2018. Integrated ecological–economic fisheries models - Evaluation, review and challenges for implementation.  Fish and Fisheries 19(1): 1-29.

  • van Beest FM, Kindt-Larsen L, Bastardie F, Bartolino V, Nabe-Nielsen J. 2017. Predicting the population-level impact of mitigating harbor porpoise bycatch with pingers and time-area fishing closures. Ecosphere 8:e01785. doi: 10.1002/ecs2.1785.

  • Dähne M., Tougaard J., Carstensen J., Rose A. & Nabe-Nielsen J. 2017. Bubble curtains attenuate noise from offshore wind farm construction and reduce temporary habitat loss for harbour porpoises. Marine Ecology Progress Series 580: 221–237.

  • Lindegren M, Van Deurs M, MacKenzie B, Worsoe Clausen L, Christensen A, Rindorf A. (accepted 2017) Productivity and recovery of forage fish under climate change and fishing: North Sea sandeel as a case study. Fisheries Oceanography.

  • Sveegaard S, Balle JD, Kyhn, LA, Larsen J, Mohn C, Teilmann J, Nabe-Nielsen J. 2017. Monthly variation in fine-scale distribution of harbour porpoises at St. Middelgrund reef. Aarhus University, DCE – Danish Centre for Environment and Energy. 34 pp. Technical Report from DCE No. 97. http://dce2.au.dk/pub/TR97.pdf

  • Edelvang K , Gislason H, Bastardie F, Christensen A, Egekvist J, Dahl K, Göke C, Petersen IK, Sveegaard S, Heinanen S, Middelboe AL,  Al Hamdani Z, Jensen JB & Leth J. 2017. Analysis of marine protected areas in the Danish part of the North Sea and the Central Baltic around Bornholm, Part 1+2. Report to Miljøstyrelsen.

  • Jahnke M, Christensen A, Micu D, Milchakova N, Sezgin M, Todorova V, Strungaru S & Procaccini G. 2016. Patterns and mechanisms of dispersal in a keystone seagrass species. Marine Environmental Research 117: 54-62.

  • Ulrich C, Hemmer Hansen J, Boje J, Christensen A, Hüssy K, Sun H, Worsøe Clausen L. 2016. Variability and connectivity of plaice populations from the Eastern North Sea to the Baltic Sea, part II. Biological evidence of population mixing, Journal of Sea Research 120: 13-23.

  • Boero F, Foglini F, Fraschetti S, Goriup P, Macpherson E, Planes S, Soukissian T, The CoCoNet Consortium. 2016. CoCoNet: towards coast to coast networks of marine protected areas (from the shore to the high and deep sea), coupled with sea-based wind energy potential. SCIentific RESearch and Information Technology 6, Supplement: 1-95. Editorial. A supplement of Scires-it on the COCONET european project, ISSN: 2239-4303, DOI 10.2423/i22394303v6SpI.

  • Rindorf A, Wright PJ, Jensen H, Maar M. 2016. Spatial differences in growth of lesser sandeel in the North Sea. Journal of Experimental Marine Biology and Ecology. 479: 9-19.

  • Maar M, Larsen MM, Tørring D, Petersen JK. 2016. Bioaccumulation of metals (Cd, Cu, Ni, Pb and Zn) in suspended cultures of blue mussels exposed to different environmental conditions. Estuar Coast Shelf Sci. in press. Doi:10.1016/j.ecss.2015.10.010
  • Maar M, Saurel C, Landes A, Petersen JK & Dolmer P. 2015. Growth response of blue mussels (M. edulis) exposed to different salinities evaluated by a Dynamic Energy Budget Model. J Mar Syst. 148: 48-55.
  • Maar M, Rindorf A, Møller EF, Madsen KS, Christensen A & van Deurs M. 2014. Zooplankton mortality in 3D ecosystem modelling considering variable spatial-temporal fish consumption in the North Sea. Prog Oceanogr. 124: 78-91.
  • Christensen A, Butenschön M, Gürkan Z & Allen I. 2013. Towards an integrated forecasting system for fisheries on habitat-bound stocks. Ocean Sci. 9: 261-279.
  • Gürkan Z, Christensen A, Payne MR, Maar M, Møller EF, Madsen KS, Munk P & Mosegaard H. 2013. Modeling Spatio-Temporal Dynamics of Growth and Survival in Larval and Early Juvenile Lesser Sandeel in the North Sea by using a Bioenergetic Individual-Based Model Integrated with 3-Dimensional Hydrodynamic Biogeochemical Model. Ecol Model. 250: 294-306.
  • Wright A., Maar M, Mohn C, Nabe-Nielsen J, Siebert U & Teilmann J. 2013. Possible causes for a mass stranding of Harbour porpoise in Danish waters in 2005. Plos One 8(2): e55553.
  • Gürkan Z, Christensen A, van Deurs M & Mosegaard H. 2012. The Effect of Patchiness in Prey on the Growth of Larval Lesser Sandeel. Ecol. Model. 232: 78-90.
  • Heide-Jørgensen MP, Iversen M, Nielsen NH, Lockyer C, Stern H & Ribergaard MH. 2011. Harbour porpoises respond to climate change. Ecology and Evolution 1(4): 579-585. Doi:10.1002/ece3.51.
  • Christensen A., Jensen H, Mosegaard H,  St. John M & Schrum C. 2008. Sandeel (Ammodytes marinus) larval transport patterns in the North Sea. Can. J. Fish. Aquat. Sci. 65: 1498-1511.
  • Stenberg C,  Ribergaard MH, Boje J & Sundby S. 2007. Larval drift and settling of Greenland halibut (R. hippoglossoides Walbaum) in the NW Atlantic with special focus on Greenlandic waters. Modified from manuscript in: Stenberg, C. 2007. Recruitment processes in West Greenland waters: With special focus on Greenland halibut (Reinhardtius hippoglossoides, W.). PhD thesis. University of Bergen. Published at Technical University of Denmark.
  • Tian T, Fiksen Ø & A. Folkvord A. 2007. Estimating larval fish growth under size-dependent mortality: a numerical analysis of bias. Can. J. Fish. Aquat. Sci. 64(3): 554-562.

Arctic and climate change modelling

  • Banas NS, EF Møller, TG Nielsen  & LB Eisner. 2016. Linking climate change to community-level impacts on copepods via a new, trait-based model: Life history and metabolic mechanisms compared. Frontiers in Marine Science. Doi:10.3389/fmars.2016.00225.

  • Møller EF, Bohr M, Kjellerup S, Maar M,  Møhl M,  Swalethorp R & Nielsen TG .2016. Calanus finmarchicus egg production at its northern border. Journal of Planktton Research 38:1206-1214.

  • van Beest F.M., Aars J., Routti H., Lie E., Andersen M., Pavlova V., Sonne C., Nabe-Nielsen J. & Dietz R. 2016. Spatiotemporal variation in home range size of female polar bears and correlations with individual contaminant load. Polar Biology 39:1479–1489.

  • Pavlova V., Nabe-Nielsen J., Dietz R., Sonne C. & Grimm V. 2016. Allee effect in polar bears: a potential consequence of PCB contamination. Proceedings of the Royal Society B 283: 20161883.

  • Andresen, C. S., F. Straneo, M. H. Ribergaard, A. A. Bjørk, T. J. Andersen, A. Kuijpers, N. Nørgaard-Pedersen, K. H. Kjær, F. Schjøth, K. Weckström and A. P. Ahlstrøm. 2012. Rapid response of Helheim Glacier, Greenland, to climate variability over the last century. Nature Geoscience 5: 37-41. Doi: 10.1038/ngeo1349. Supplementary information.
  • Ribergaard, M. H. 2011. Ensemble oil drift modelling for bottom spill off Southwest Greenland. DMI Scientific Report 11-02.
  • Christiansen, B., T. Schmith, and P. Thejll. 2010. A surrogate ensemble study of sea level reconstructions. J. Climate 23: 4306-4326. Doi: 10.1175/2010JCLI3014.1
  • Christiansen, B., T. Schmith and P. Thejll. 2010. Reply to Comment on ”A surrogate ensemble study ..” by Rutherford et al. J. Climate 23: 2839-2844. Doi: 10.1175/2010JCLI3281.1.
  • Hazeleger, W., C. Severijns, T. Semmler, S. Stefanescu, S. Yang, X. Wang, K. Wyser, R. Bintanja, R. Caballero, E. Dutra, A. Ekman, J. Hesselbjerg Christensen, B. van den Hurk, P. Jimenez, C. Jones ,P. Kallberg, R. McGrath, P. de Miranda, F. Molteni, T. van Noije, T. Palmer, E. Rodriguez Camino, T. Schmith, F. Selten, T. Storelvmo, A. Sterl, H. Tapamo, P. Viterbo. 2010. EC-Earth: a seamless earth system prediction approach in action. Bull. Am. Met. Soc. 91: 1357-1363. Doi: 10.1175/2010BAMS2877.1.
  • Hanna, E., J. Cappelen, X. Fettweis, P. Huybrechts, A. Luckman and M. H. Ribergaard. 2009. Hydrologic response of the Greenland Ice sheet: the role of oceanographic warming. Hydrological Processes 23: 7-30. Doi:10.1002/hyp.7090.
  • Myers, P. G., C. Donnelly and M. H. Ribergaard. 2009. Structure and Variability of the West Greenland Current in Summer Derived From 6 Repeat Standard Sections. Progress in Oceanography 80: 93-112. Doi:10.1016/j.pocean.2008.12.003.
  • Seidenkrantz, M.-S., A. Kuijpers and T. Schmith. 2009. Comparing past and present climate – a tool to distinguish between natural and human-induced climate change. IOP Conf. Ser.: Earth Environ. Sci. 8: 012012. Doi:10.1088/1755-1315/8/1/012012.
  • Shaffer G., S. M. Olsen and J. O. P. Pedersen. 2009. Long-term ocean oxygen depletion in response to carbon dioxide emissions from fossil fuels. Nature Geoscience 2: 105-109. Doi:10.1038/ngeo420.
  • Våge, K., R. S. Pickart, V. Thierry, G. Reverdin, C. M. Lee, B. Petrie, T. A. Agnew, A. Wong and M. H. Ribergaard. 2009. Surprising return of deep convection to the subpolar North Atlantic in winter 2007-08. Nature Geoscience 2: 67-72. Doi:10.1038/ngeo382.
  • Christiansen, B., T. Schmith and P. Thejll. 2008. A surrogate ensemble study of climate reconstruction methods: Stochasticity and robustness. J. Climate 22: 951-976. Doi: 10.1175/2008JCLI2301.1.
  • Holland, D. M., R. H. Thomas, B. deYoung, M. H. Ribergaard and B. Lybert. 2008. Acceleration of Jakobshavn Isbrae triggered by warm subsurface ocean waters. Nature Geoscience 1: 659-664. Doi:10.1038/ngeo316. Supplementary information.
  • Olsen S.M., B. Hansen, D. Quadfasel and S. Østerhus. 2008. Observed and modelled stability of overflow across the Greenland-Scotland Ridge. Nature 455: 519-522. Doi:10.1038/nature07302.
  • Pickart, R. S., K. Våge, G. W. K. Moore, I. A. Renfrew, M. H. Ribergaard and H. C. Davies. 2008. Convection in the western North Atlantic sub-polar gyre: Do small-scale wind events matter? In: Dickson, R.R, J. Meincke and P. Rhines (Eds.) Arctic-Subarctic Ocean Fluxes. Defining the Role of Northern Seas in Climate. Springer, chapter 26, pp 629-652. Doi:10.1007/978-1-4020-6774-7_27.
  • Schmith, T. 2008. Stationarity of regression relationships: Application to empirical downscaling. J. Climate 21: 4529-4537.
  • Shaffer G., S. M. Olsen and J Pedersen. 2008. Calibration and verification of the low-order, DCESS Earth System Model. Geosci. Mod. Dev. 1: 17-51.
  • Våge, K., R. S. Pickart, G. W. K. Moore and M. H. Ribergaard. 2008. Winter mixed-layer development in the central Irminger Sea: The effect of strong, intermittent wind events. Journal of Physical Oceanography 38 (3): 541-565. Doi:10.1175/2007JPO3678.1.
  • Myers, P. G., N. Kulan and M. H. Ribergaard. 2007. Irminger Water variability in the West Greenland Current. Geophysical Research Letters 34: L17601. Doi: 10.1029/2007GL030419.
  • Olsen, S. M., and T. Schmith. 2007. North Atlantic-Arctic Ocean exchanges: An ensemble hindcast study. J. Geophys. Res. 112: C04010. Doi: 10.1029/2006JC003838.
  • Schmidli, J., C. M. Goodess, C. Frei, M. R. Haylock, Y. Hundecha, J. Ribalaygua and T. Schmith. 2007. Statistical and dynamical downscaling of precipitation: An evaluation and comparison of scenarios for the European Alps. J. Geophys. Res. 112: D04105. Doi:10.1029/2005JD007026.
  • Schmith, T., S. Johansen and P. Thejll. 2007: Comment on “A Semi-Empirical Approach to Projecting Future Sea-Level Rise”. Science 317: 1866. Doi: 10.1126/science.1143286.

Bioeconomic modelling

  • Ahtiainen, H., Artell, J., Czajkowski, M., Hasler, B., Hasselström, L., Huhtala, A., Meyerhoff, J., Smart, J.C.R., Söderqvist, T., Alemu, M., Angeli, D., Dahlbo, K., Fleming-Lehtinen, V., Hyytiäinen, K., Karlõseva, A., Khaleeva, Y., Maar, M., Martinsen, L., Nõmmann, T., Pakalniete, K., Oskolokaite, I. and Semeniene, D.  2014. Benefits of meeting the Baltic Sea nutrient reduction targets - Combining ecological modelling and contingent valuation in the nine littoral states. Journal of Environmental Economics and Policy 3(3): 278-305.