The role of boundary layer dynamics on the diurnal evolution of isoprene and the hydroxyl radical over tropical forests

Journal of Geophysical Research Atmospheres

Volumn 116, Issue 7, 2011, Pages

  De Arellano, Jordi Vilà Guerau ^a   Patton, Edward G ^b   Karl, Thomas ^b   Van Den Dries, Kees ^a   Barth, Mary C ^b   Orlando, John J ^b  

^a WAGENINGEN UNIVERSITY   (Netherlands)

^b NATIONAL CENTER FOR ATMOSPHERIC RESEARCH   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ATMOSPHERIC CHEMISTRY; ATMOSPHERIC THERMODYNAMICS; ATMOSPHERIC TURBULENCE; ATMOSPHERICS; COMPUTER SIMULATION; DYNAMICS; NITRIC OXIDE; NITROGEN OXIDES; RECYCLING; TROPOSPHERE;

AMAZONIAN REGION; ATMOSPHERIC DYNAMICS; BOUNDARY LAYER DYNAMICS; CHEMICAL MECHANISM; CHEMICAL PATHWAYS; CHEMICAL PROCESS; CHEMICAL REGIMES; CHEMICAL SPECIES; DIURNAL VARIABILITY; EDDY SIMULATION; ENTRAINMENT FLUX; FREE TROPOSPHERE; HYDROXYL RADICALS; ISOPRENE EMISSION; MIXED-LAYER MODELS; MIXING RATIOS; NITRIC OXIDE EMISSIONS; PARAMETERIZED; RECYCLING PATHWAYS; SCALE MODELING; SURFACE EMISSIONS; TEMPORAL EVOLUTION; TROPICAL FOREST;

ATMOSPHERIC BOUNDARY LAYER;

ATMOSPHERIC DYNAMICS; BOUNDARY LAYER; DIURNAL VARIATION; HYDROXYL RADICAL; ISOPRENE; LARGE EDDY SIMULATION; MIXING RATIO; NITRIC OXIDE; PARAMETERIZATION; TEMPORAL EVOLUTION; TROPICAL FOREST; TROPOSPHERE; TURBULENCE;

AMAZONIA;

EID: 79954533130     PISSN: 01480227     EISSN: None     Source Type: Journal    
DOI: 10.1029/2010JD014857     Document Type: Article

References (46)

1. Andreae, M. O., et al. (2002), Biogeochemical cycling of carbon, water, energy, trace gases, and aerosols in Amazonia: the LBA-EUSTACH experiment, J. Geophys. Res., 107(D19), 8032, doi:10.1029/2001JD001133. (Pubitemid 44793921)
2. Betts, A. K., and C. Jacob (2002), Evaluation of the diurnal cycle of precipitation, surface thermodynamics, and surface fluxes in the ECMWF model using LBA data, J. Geophys. Res., 107(D20), 8045, doi:10.1029/ 2001JD000427.
3. Braun, W., J. T. Herron, and D. K. Kahaner (1988), Acuchem: A computer program for modeling complex chemical reaction systems, Int. J. Chem. Kinet., 20(1), 51-62.
4. Butler, T., D. Taraborrelli, C. Brühl, H. Fischer, H. Harder, M. Martinez, J. Williams, M. Lawrence, and J. Lelieveld (2008), Improved simulation of isoprene oxidation chemistry with the ECHAM5/MESSy chemistry climate-model: Lessons from the GABRIEL airborne field campaign, Atmos. Chem. Phys., 8, 4259-4546.
5. Casso-Torralba, P., J. Vilà-Guerau de Arellano, F. Bosveld, M. Soler, A. Vermeulen, C. Werner, and E. Moors (2008), Diurnal and vertical variability of the sensible heat and carbon dioxide budgets in the atmospheric surface layer, J. Geophys. Res., 113, D12119, doi:10.1029/2007JD009583.
6. Conzemius, R., and E. Fedorovich (2006), Dynamics of sheared convective boundary layer entrainment. Part II: Evaluation of bulk model predictions of entrainment flux, J. Atmos. Sci., 63, 1179-1199.
7. Davis, K. J., D. H. Lenschow, and P. R. Zimmerman (1994), Biogenic non-methane hydrocarbon emissions estimated from tethered ballon observations, J. Geophys. Res., 99, 25,587-25,598.
8. Emmons, L. K., et al. (2010), Description and evaluation of the Model for Ozone and Related chemical Tracers, version 4 (MOZART-4), Geosci. Model Dev., 3, 43-67.
9. Fan, S.-M., S. C. Wofsy, P. S. Bakwin, D. J. Jacob, and D. R. Fitzjarrald (1990), Atmosphere-biosphere exchange of CO2 and O3 in the central Amazon forest, J. Geophys. Res., 95(D10), 16,851-16,864.
10. Fuentes, J. D., et al. (2000), Biogenic hydrocarbons in the atmospheric boundary layer: A review, Bull. Am. Meteorol. Soc., 81, 1537-1575.
11. Ganzeveld, L., et al. (2008), Surface and boundary layer exchanges of volatile organic compounds, nitrogen dioxides and ozone during the GABRIEL campaign, Atmos. Chem. Phys., 8, 6223-6224.
12. Gao, W., and M. L. Wesely (1994), Numerical modelling of the turbulent fluxes of chemically reactive trace gases in the atmospheric boundary layer, J. Appl. Meteorol., 33, 835-847. (Pubitemid 288933)
13. Garstang, M., et al. (1990), The Amazon Boundary-Layer Experiment ABLE 2B: A meteorlogical perspective, Bull. Am. Meteorol. Soc., 71, 19-32.
14. Guenther, A., P.Zimmerman, L.Klinger,J.Greenberg, C.Ennis,H.Westberg, G. Allwine, and C. Geron (1996), Estimates of regional natural volatile organic compound fluxes from enclosure and ambient measurements, J. Geophys. Res., 101, 1345-1359. (Pubitemid 26475329)
15. Heus, T., et al. (2010), Formulation and numerical studies by the Dutch Atmospheric Large-Eddy Simulation (DALES), Geosci. Model Dev., 3, 415-444.
16. Jonker, H. J. J., P. G. Duynkerke, and J. W. M. Cuijpers (1999), Mesoscale fluctuations in scalars generated by boundary layer convection, J. Atmos. Sci., 55, 801-808.
17. Karl, T., M. Potosnak, A. Guenther, D. Clark, J. Walker, J. D. Herrick, and C. Geron (2004), Exchange processes of volatile organic compounds above a tropical rain forest: Implications for modeling tropospheric chemistry above dense vegatation, J. Geophys. Res., 109, D18306, doi:10.1029/2004JD004738. (Pubitemid 39621657)
18. Karl, T., A. Guenther, R. J. Yokelson, J. Greenberg, M. Potosnak, D. R. Blake, and P. Artaxo (2007), The tropical forest and fire emissions experiment: Emission, chemistry, and transport of biogenic volatile organic compounds in the lower atmosphere over Amazonia, J. Geophys. Res., 112, D18302, doi:10.1029/2007JD008539.
19. Karl, T., A. Guenther, A. Turnipseed, P. Artaxo, and S. T. Martin (2009), Rapid formation of isoprene photo-oxidant products observed in Amazonia: Chemistry, and transport of biogenic volatile organic compounds in the lower atmosphere over Amazonia, Atmos. Chem. Phys., 9, 7753-7769.
20. Keller, M., D. J. Jacob, S. C. Wofsy, and R. C. Harriss (1991), Effects of tropical deforestation on global and regional atmospheric chemistry, Clim. Change, 19(1-2), 139-158.
21. Krol, M. C., M. J. Molemaker, and J. Vilà-Guerau de Arellano (2000), Effects of turbulence and heterogeneous emissions on photochemically active species in the convective boundary layer, J. Geophys. Res., 105, 6871-6884.
22. Kuhn, U., S. Rottenberger, T. Biesenthal, A. Wolf, G. Schebeske, P. Ciccioli, E. Brancaleoni, M. Frattoni, T. Tavares, and J. Kesselmeier (2004), Seasonal differences in isoprene and light-dependent monoterpene emission by Amazonian tree species, Global Change Biol., 10, 663-682. (Pubitemid 38727997)
23. Lelieveld, J., et al. (2008), Atmospheric oxidation capacity sustained by a tropical forest, Nature, 452, 737-740. (Pubitemid 351521085)
24. Lilly, D. K. (1968), Models of cloud-topped mixed layers under s strong inversion, Q. J. R. Meteorol. Soc., 94, 292-309.
25. Martin, C. L., D. Fitzjarrald, M. Garstang, A. P. Oliveira, S. Greco, and E. Brodwell (1988), Structure and growth of the mixing layer over the Amazonian rain forest, J. Geophys. Res., 93, 1361-1375.
26. Ouwersloot, H. G., J. Vilà-Guerau de Arellano, C. C. van Heerwaarden, L. N. Ganzeveld, M. C. Krol, and J. Lelieveld (2010), The significance of segregation for amazonian chemistry, paper presented at 19th Symposium of Boundary Layer and Turbulence, Am. Meteorol. Soc., Keystone, Colo.
27. Patton, E. G., K. J. Davis, M. C. Barth, and P. P. Sullivan (2001), Decaying scalars by a forest canopy: A numerical study, Boundary Layer Meteorol., 100, 91-129. (Pubitemid 32554774)
28. Peeters, J., T. L. Nguyen, and L. Vereecken (2009), HOx radical regeneration in the oxidation of isoprene, Phys. Chem. Chem. Phys., 11, 5953-5939.
29. Pino, D., J. Vilà-Guerau de Arellano, and P. G. Duynkerke (2003), The contribution of shear to the evolution of a convective boundary layer, J. Atmos. Sci., 60, 1913-1926. (Pubitemid 37124303)
30. Pino, D., J. Vilà-Guerau de Arellano, and S. W. Kim (2006), Representing shear convective boundary layer by zeroth- and first-order jump mixed layer models: Large-eddy simulation verification, J. Appl. Meteorol., 45, 1224-1243. (Pubitemid 44613049)
31. Pugh, T. A. M., et al. (2009), Simulating atmospheric composition over South-East Asian tropical rainforest: Performance of a chemistry box model, Atmos. Chem. Phys. Discuss., 9, 19,243-19,278.
32. Schumann, U. (1989), Large-eddy simulation of turbulent diffusion with chemical reactions in the convective boundary layer, Atmos. Environ., 23, 1713-1729.
33. Sullivan, P. P., C. Moeng, B. Stevens, D. H. Lenschow, and S. D. Mayor (1998), Structure of the entrainment zone capping the convective atmospheric boundary layer, J. Atmos. Sci., 55, 3042-3064.
34. Tennekes, H. (1973), A model for the dynamics of the inversion above a convective boundary layer, J. Atmos. Sci., 30, 558-567.
35. Tuazon, E. C., and R. Atkinson (1990), A product study of the gas- phase reaction of Isoprene with the OH radical in the presence of NOx, Int. J. Chem. Kinet., 22(12), 1221-1236.
36. van Heerwaarden, C. C., J. Vilà-Guerau de Arellano, A. F. Moene, and A. A. M. Holtslag (2009), Interactions between dry-air entrainment, surface evaporation and convective boundary layer development, Q. J. R. Meteorol. Soc., 135, 1277-1231.
37. Verwer, J. G. (1994), Gauss Seidel iterations for stiff ODEs from chemical kinetics, SIAM J. Sci. Comput., 15, 1243-1250.
38. Verwer, J. G., and D. Simpson (1995), Explicit methods for stiff ODEs from atmospheric chemistry, Appl. Numer. Math., 18, 413-430, doi:10.1016/0168-9274(95)00068-6.
39. Vilà-Guerau de Arellano, J., A. M. Talmon, and P. J. H. Builtjes (1990), A chemically reactive plume model for the NO-NO2-O 3 system, Atmos. Environ., 24, 2237-2246. (Pubitemid 20326126)
40. Vilà-Guerau de Arellano, J., B. Gioli, F. Miglietta, H. Jonker, H. Baltink, R. Hutjes, and A. Holtslag (2004), Entrainment process of carbon dioxide in the atmospheric boundary layer, J. Geophys. Res., 109, D18110, doi:10.1029/2004JD004725. (Pubitemid 39621634)
41. Vilà-Guerau de Arellano, J., S. Kim, M. C. Barth, and E. G. Patton (2005), Transport and chemical transformations influenced by shallow cumulus over land, Atmos. Chem. Phys., 5, 3219-3231. (Pubitemid 43085626)
42. Vilà-Guerau de Arellano, J., K. van den Dries, and D. Pino (2009), On inferring isoprene emission surface flux from atmospheric boundary layer concentration measurements, Atmos. Chem. Phys., 9, 3629-3640.
43. Vinuesa, J. F., and J. Vilà-Guerau de Arellano (2003), Fluxes and (co-)variances of reacting scalars in the convective boundary layer, Tellus, Ser. B, 55, 935-949.
44. Wiegand, A. N., and N. D. Bofinger (2000), Review of empirical methods for the calculation of the diurnal N2O photolysis reaction rate, Atmos. Environ., 34, 99-108. (Pubitemid 29505519)
45. Yokelson, R. J., T. J. Christian, T. G. Karl, and A. Guenther (2008), The tropical forest and fire emissions experiment: labarotory fire measurements and synthesis of the campaign data, Atmos. Chem. Phys., 8, 3509-3527.
46. Zimmerman, P. R., J. P. Greenberg, and C. E. Westberg (1988), Measurement of atmospheric hydrocarbons and biogenic emission fluxes in the Amazon boundary layer, J. Geophys. Res., 93, 1407-1416.