Biogeosciences www.biogeosciences.net 1726-4170 1726-4189 6 10 2009 10.5194/bg-6-2265-2009 http://www.biogeosciences.net/6/2265/2009/ http://www.biogeosciences.net/6/2265/2009/bg-6-2265-2009.html http://www.biogeosciences.net/6/2265/2009/bg-6-2265-2009.pdf 2265 2280 2009-10-26 Modelling regional scale surface fluxes, meteorology and CO₂ mixing ratios for the Cabauw tower in the Netherlands L. F. Tolk lieselotte.tolk@falw.vu.nl W. Peters A. G. C. A. Meesters M. Groenendijk A. T. Vermeulen G. J. Steeneveld A. J. Dolman VU University Amsterdam, Amsterdam, The Netherlands Wageningen University and Research Centre, Wageningen, The Netherlands Energy Research Centre of the Netherlands, Petten, The Netherlands We simulated meteorology and atmospheric CO₂ transport over the Netherlands with the mesoscale model RAMS-Leaf3 coupled to the biospheric CO₂ flux model 5PM. The results were compared with meteorological and CO₂ observations, with emphasis on the tall tower of Cabauw. An analysis of the coupled exchange of energy, moisture and CO₂ showed that the surface fluxes in the domain strongly influenced the atmospheric properties. The majority of the variability in the afternoon CO₂ mixing ratio in the middle of the domain was determined by biospheric and fossil fuel CO₂ fluxes in the limited area domain (640×640 km). Variation of the surface CO₂ fluxes, reflecting the uncertainty of the parameters in the CO₂ flux model 5PM, resulted in a range of simulated atmospheric CO₂ mixing ratios of on average 11.7 ppm in the well-mixed boundary layer. Additionally, we found that observed surface energy fluxes and observed atmospheric temperature and moisture could not be reconciled with the simulations. Including this as an uncertainty in the simulation of surface energy fluxes changed simulated atmospheric vertical mixing and horizontal advection, leading to differences in simulated CO₂ of on average 1.7 ppm. 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