A review on parameterization and uncertainty in modeling greenhouse gas emissions from soil

Geoderma

Volumn 170, Issue , 2012, Pages 206-216

  Wang, Gangsheng ^a   Chen, Shulin ^a  

^a WASHINGTON STATE UNIVERSITY   (United States)

Author keywords

Bayesian theorem; Greenhouse gas (GHG); Markov Chain Monte Carlo (MCMC); Modeling; Parameterization; Uncertainty

Indexed keywords

BAYESIAN THEOREM; DAYCENT; EVENT-BASED MODEL; GHG EMISSION; LATENT VARIABLE; MARKOV CHAIN MONTE CARLO; MARKOV CHAIN MONTE CARLO METHOD; MATHEMATICAL MODELING; MODEL INPUTS; MODEL PARAMETERIZATION; MODEL PARAMETERS; MODEL SELECTION; MODEL UNCERTAINTIES; MULTIPLE OBJECTIVES; PARAMETER SPACES; SOURCES OF UNCERTAINTY; STRONG CORRELATION; SYSTEMATIC EVALUATION; UNCERTAINTY;

GAS EMISSIONS; GEOLOGIC MODELS; GREENHOUSE GASES; MARKOV PROCESSES; MODELS; MONTE CARLO METHODS; PARAMETERIZATION; SOILS;

UNCERTAINTY ANALYSIS;

BAYESIAN ANALYSIS; CALIBRATION; ERROR ANALYSIS; GREENHOUSE GAS; MARKOV CHAIN; MONTE CARLO ANALYSIS; NUMERICAL MODEL; PARAMETERIZATION; SOIL EMISSION; UNCERTAINTY ANALYSIS;

EID: 84155183012     PISSN: 00167061     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.geoderma.2011.11.009     Document Type: Review

References (86)

1. Andrieu C., Thoms J. A tutorial on adaptive MCMC. Statistics and Computing 2008, 18(4):343-373.
2. 2O field emission measurements. Atmospheric Environment 2007, 41(29):6196-6211.
3. Beven K., Freer J. Equifinality, data assimilation, and uncertainty estimation in mechanistic modelling of complex environmental systems using the GLUE methodology. Journal of Hydrology 2001, 249(1-4):11-29.
4. Bland J.M., Altman D.G. Transforming data. British Medical Journal 1996, 312(7033):770.
5. Blasone R.S., Vrugt J.A., Madsen H., Rosbjerg D., Robinson B.A., Zyvoloski G.A. Generalized likelihood uncertainty estimation (GLUE) using adaptive Markov chain Monte Carlo sampling. Advances in Water Resources 2008, 31(4):630-648.
6. Bruun S., Christensen B.T., Hansen E.M., Magid J., Jensen L.S. Calibration and validation of the soil organic matter dynamics of the DAISY model with data from the Askov long-term experiments. Soil Biology and Biochemistry 2003, 35(1):67-76.
7. 2O emissions from agricultural lands: a synthesis of simulation approaches. Plant and Soil 2008, 309(1-2):169-189.
8. 2 degassing and pH in a stream-aquifer system. Journal of Hydrology 1998, 209(1-4):297-310.
9. Choi J., Harvey J.W., Conklin M. Use of Multi-parameter sensitivity analysis to determine relative importance of factors influencing natural attenuation of mining contaminants. Proceedings of the Toxic Substances Hydrology Program Meeting, Charleston, SC 1999, 185-192. D. Morganwalp (Ed.).
10. Chumbley J.R., Friston K.J., Fearn T., Kiebel S.J. A Metropolis-Hastings algorithm for dynamic causal models. NeuroImage 2007, 38(3):478-487.
11. Congdon P. Bayesian Statistical Modelling. Wiley series in probability and statistics 2001, Wiley, Chichester, NY.
12. Croke B.F.W. Representing uncertainty in objective functions: extension to include the influence of serial correlation. Modelling and Simulation Society of Australia and New Zealand and International Association for Mathematics and Computers in Simulation, Cairns, Australia 2009, 3372-3378. R.S. Anderssen, R.D. Braddock, L.T.H. Newham (Eds.).
13. 2 gas emissions from soils due to dentrification. Global Biogeochemical Cycles 2000, 14(4):1045-1060.
14. Del Grosso S.J., Parton W.J., Mosier A.R., Walsh M.K., Ojima D.S., Thornton P.E. DAYCENT national-scale simulations of nitrous oxide emissions from cropped soils in the United States. Journal of Environmental Quality 2006, 35(4):1451-1460.
15. Del Grosso S.J., Halvorson A.D., Parton W.J. Testing DAYCENT model simulations of corn yields and nitrous oxide emissions in irrigated tillage systems in Colorado. Journal of Environmental Quality 2008, 37(4):1383-1389.
16. Del Grosso S., Ogle S., Parton W., Breidt F. Estimating uncertainty in N2O emissions from US cropland soils. Global Biogeochemical Cycles 2010, 24(1):GB1009.
17. Desjardins R.L., Sivakumar M.V.K., de Kimpe C. The contribution of agriculture to the state of climate: workshop summary and recommendations. Agricultural and Forest Meteorology 2007, 142(2-4):314-324.
18. Eidsvik J., Tjelmeland H. On directional Metropolis-Hastings algorithms. Statistics and Computing 2006, 16(1):93-106.
19. Elad M., Datsenko D. Example-based regularization deployed to super-resolution reconstruction of a single image. The Computer Journal 2009, 52(1):15-30.
20. Engeland K., Xu C.-Y., Gottschalk L. Assessing uncertainties in a conceptual water balance model using Bayesian methodology. Hydrological Sciences Journal 2005, 50(1):45-63.
21. Fang S.F., Gertner G.Z., Anderson A.A. Estimation of sensitivity coefficients of nonlinear model input parameters which have a multinormal distribution. Computer Physics Communications 2004, 157(1):9-16.
22. Garcia M., Peters-Lidard C.D., Goodrich D.C. Spatial interpolation of precipitation in a dense gauge network for monsoon storm events in the southwestern United States. Water Resources Research 2008, 44(5):W05S13.
23. Grant R.F. Simulation of methanogenesis in the mathematical model ecosys. Soil Biology and Biochemistry 1998, 30(7):883-896.
24. Grant R.F. Simulation of methanotrophy in the mathematical model ecosys. Soil Biology and Biochemistry 1999, 31(2):287-297.
25. Grant R.F. A review of the Canadian ecosystem model-ECOSYS. Modeling Carbon and Nitrogen Dynamics for Soil Management 2001, 173-264. CRC Press, Boca Raton, FL. M.J. Shaffer, L. Ma (Eds.).
26. 2O emissions from fertilized agricultural fields. Soil Biology and Biochemistry 2003, 35(2):225-243.
27. Grant R.F., Nyborg M., Laidlaw J.W. Evolution of nitrous oxide from soil. 1. Model development. Soil Science 1993, 156(4):259-265.
28. Grant R.F., Nyborg M., Laidlaw J.W. Evolution of nitrous oxide from soil. 2. Experimental results and model testing. Soil Science 1993, 156(4):266-277.
29. Grant R.F., Pattey E., Goddard T.W., Kryzanowski L.M., Puurveen H. Modeling the effects of fertilizer application rate on nitrous oxide emissions. Soil Science Society of America Journal 2006, 70(1):235-248.
30. Haile-Mariam S., Collins H.R., Higgins S.S. Greenhouse gas fluxes from an irrigated sweet corn (Zea mays L.)-potato (- L.) rotation. Journal of Environmental Quality 2008, 37(3):759-771.
31. Hastings W.K. Monte Carlo sampling methods using Markov Chains and their applications. Biometrika 1970, 57(1):97-109.
32. Hero A.O., Fessler J.A. Convergence in norm for alternating expectation-maximization (EM) type algorithms. Statistica Sinica 1995, 5(1):41-54.
33. IPCC 2006 IPCC Guidelines for National Greenhouse Gas Inventories 2006, Institute for Global Environmental Strategies, Kamiyamaguchi, Japan.
34. Kavetski D., Kuczera G., Franks S.W. Bayesian analysis of input uncertainty in hydrological modeling: 1. Theory. Water Resources Research 2006, 42(3):W03407.
35. Kavetski D., Kuczera G., Franks S.W. Bayesian analysis of input uncertainty in hydrological modeling: 2. Application. Water Resources Research 2006, 42(3):W03408.
36. Kercher J.R., Chambers J.Q. Parameter estimation for a global model of terrestrial biogeochemical cycling by an iterative method. Ecological Modelling 2001, 139(2-3):137-175.
37. Kuczera G., Parent E. Monte Carlo assessment of parameter uncertainty in conceptual catchment models: the Metropolis algorithm. Journal of Hydrology 1998, 211(1-4):69-85.
38. Kuehl R.O. Design of Experiments: Statistical Principles of Research Design and Analysis 1999, Duxbury Press, Pacific Grove, CA. 2nd Ed.
39. Lee K.S., Kim S.U. Identification of uncertainty in low flow frequency analysis using Bayesian MCMC method. Hydrological Processes 2008, 22(12):1949-1964.
40. Lehuger S., Gabrielle B., Oijen M., Makowski D., Germon J.C., Morvan T., Hénault C. Bayesian calibration of the nitrous oxide emission module of an agro-ecosystem model. Agriculture, Ecosystems & Environment 2009, 133(3-4):208-222.
41. Li C.S. Modeling trace gas emissions from agricultural ecosystems. Nutrient Cycling in Agroecosystems 2000, 58(1-3):259-276.
42. Li C.S. Quantifying greenhouse gas emissions from soils: scientific basis and modeling approach. Soil Science and Plant Nutrition 2007, 53(4):344-352.
43. Li C.S. User's Guide for the DNDC Model (ver 9.1). Institute for the Study of Earth, Oceans, and Space 2007, University of New Hampshire, Durham, NH.
44. Li C.S., Frolking S., Frolking T.A. A model of nitrous oxide evolution from soil driven by rainfall events. 1. Model structure and sensitivity. Journal of Geophysical Research-Atmospheres 1992, 97(D9):9759-9776.
45. Li C.S., Frolking S., Frolking T.A. A model of nitrous oxide evolution from soil driven by rainfall events. 2. Model applications. Journal of Geophysical Research-Atmospheres 1992, 97(D9):9777-9783.
46. Li C.S., Aber J., Stange F., Butterbach-Bahl K., Papen H. A process-oriented model of N2O and NO emissions from forest soils: 1. Model development. Journal of Geophysical Research-Atmospheres 2000, 105(D4):4369-4384.
47. Lin T. A comparison of multiple imputation with EM algorithm and MCMC method for quality of life missing data. Quality and Quantity 2010, 44(2):277-287.
48. Lipsius K. Estimating Available Water Capacity from Basic Soil Physical Properties-A Comparison of Common Pedotransfer Functions Department of Geoecology 2002, Braunschweig Technical University.
49. Ma L., Shaffer M.J. A review of carbon and nitrogen processes in nine U.S. soil nitrogen dynamics models. Modeling Carbon and Nitrogen Dynamics for Soil Management 2001, 55-102. CRC Press, Boca Raton, FL. M.J. Shaffer, L. Ma (Eds.).
50. Magnussen S., Reeves R. A method for bias-reduction of sample-based MLE of the autologistic model. Computational Statistics & Data Analysis 2008, 53(1):103-111.
51. McCuen R.H. Modeling Hydrologic Change: Statistical Methods 2003, Lewis Publishers, New York.
52. Mueller T., Magid J., Jensen L.S., Nielsen N.E. Decomposition of plant residues of different quality in soil-DAISY model calibration and simulation based on experimental data. Ecological Modelling 2003, 166(1-2):3-18.
53. Muller C. Modeling Soil-Biosphere Interactions 1999, CABI Publishing, New York, NY.
54. Ogle S.M., Breidt F.J., Easter M., Williams S., Paustian K. An empirically based approach for estimating uncertainty associated with modelling carbon sequestration in soils. Ecological Modelling 2007, 205(3-4):453-463.
55. Owen A.B., Tribble S.D. A quasi-Monte Carlo Metropolis algorithm. Proceedings of the National Academy of Sciences of the United States of America 2005, 102(25):8844-8849.
56. Pan L.H., Wu L.S. A hybrid global optimization method for inverse estimation of hydraulic parameters: annealing-simplex method. Water Resources Research 1998, 34(9):2261-2269.
57. 2O production from nitrification and denitrification. Global Biogeochemical Cycles 1996, 10(3):401-412.
58. Potter C.S., Davidson E.A., Verchot L.V. Estimation of global biogeochemical controls and seasonality in soil methane consumption. Chemosphere 1996, 32(11):2219-2246.
59. Priesack E., Achatz S., Stenger R. Parameterization of soil nitrogen transport models by use of laboratory and field data. Modeling Carbon and Nitrogen Dynamics for Soil Management 2001, 459-481. CRC Press, Boca Raton, FL. M.J. Shaffer, L. Ma (Eds.).
60. Pujol J. The solution of nonlinear inverse problems and the Levenberg-Marquardt method. Geophysics 2007, 72(4):W1-W16.
61. Refsgaard J.C. Parameterisation, calibration and validation of distributed hydrological models. Journal of Hydrology 1997, 198(1-4):69-97.
62. Refsgaard J.C., van der Sluijs J.P., Hojberg A.L., Vanrolleghem P.A. Uncertainty in the environmental modelling process-a framework and guidance. Environmental Modelling & Software 2007, 22(11):1543-1556.
63. Reth S., Hentschel K., Drosler M., Falge E. DenNit-experimental analysis and modelling of soil N2O efflux in response on changes of soil water content, soil temperature, soil pH, nutrient availability and the time after rain event. Plant and Soil 2005, 272(1-2):349-363.
64. Richardson A.D., Hollinger D.Y., Burba G.G., Davis K.J., Flanagan L.B., Katul G.G., William Munger J., Ricciuto D.M., Stoy P.C., Suyker A.E., Verma S.B., Wofsy S.C. A multi-site analysis of random error in tower-based measurements of carbon and energy fluxes. Agricultural and Forest Meteorology 2006, 136(1-2):1-18.
65. Sandor Z., Andras P. Alternative sampling methods for estimating multivariate normal probabilities. Journal of Econometrics 2004, 120(2):207-234.
66. Schaap M.G., Leij F.J., van Genuchten M.T. A computer program for estimating soil hydraulic parameters with hierarchical pedotransfer functions. Journal of Hydrology 2001, 251(3-4):163-176.
67. Modeling Carbon and Nitrogen Dynamics for Soil Management 2001, CRC Press, Boca Raton, FL. M.J. Shaffer, L. Ma, S. Hansen (Eds.).
68. Smith P., Smith J.U., Powlson D.S., McGill W.B., Arah J.R.M., Chertov O.G., Coleman K., Franko U., Frolking S., Jenkinson D.S., Jensen L.S., Kelly R.H., Klein-Gunnewiek H., Komarov A.S., Li C., Molina J.A.E., Mueller T., Parton W.J., Thornley J.H.M., Whitmore A.P. A comparison of the performance of nine soil organic matter models using datasets from seven long-term experiments. Geoderma 1997, 81(1-2):153-225.
69. Smith P., Smith J., Flynn H., Killham K., Rangel-Castro I., Foereid B., Aitkenhead M., Chapman S., Towers W., Bell J., Lumsdon D., Milne R., Thomson A., Simmons I., Skiba U., Reynolds B., Evans C., Frogbrook Z., Bradley I., Shitmore A., Falloon P. ECOSSE-Estimating Carbon in Organic Soils Sequestration and Emissions 2007, Scottish Executive Environment and Rural Affairs Department, Edinburgh.
70. Smith P., Martino D., Cai Z., Gwary D., Janzen H., Kumar P., McCarl B., Ogle S., O'Mara F., Rice C., Scholes B., Sirotenko O., Howden M., McAllister T., Pan G., Romanenkov V., Schneider U., Towprayoon S., Wattenbach M., Smith J. Greenhouse gas mitigation in agriculture. Philosophical Transactions of the Royal Society B-Biological Sciences 2008, 363(1492):789-813.
71. 2O and NO emissions from forest soils 2. Sensitivity analysis and validation. Journal of Geophysical Research-Atmospheres 2000, 105(D4):4385-4398.
72. Strid I. Efficient parallelisation of Metropolis-Hastings algorithms using a prefetching approach. Computational Statistics & Data Analysis 2010, 54(11):2814-2835.
73. Thorsen M., Refsgaard J.C., Hansen S., Pebesma E., Jensen J.B., Kleeschulte S. Assessment of uncertainty in simulation of nitrate leaching to aquifers at catchment scale. Journal of Hydrology 2001, 242(3-4):210-227.
74. Tonitto C., David M.B., Li C.S., Drinkwater L.E. Application of the DNDC model to tile-drained Illinois agroecosystems: model comparison of conventional and diversified rotations. Nutrient Cycling in Agroecosystems 2007, 78(1):65-81.
75. Twarakavi N.K.C., Saito H., Simunek J., van Genuchten M.T. A new approach to estimate soil hydraulic parameters using only soil water retention data. Soil Science Society of America Journal 2008, 72(2):471-479.
76. Valstar J., Minnema B. Using a Bayesian estimation algorithm for estimating parameter uncertainty and optimisation of monitoring networks. Acta Universitatis Carolinae Geologica 2002, 46(2-3):299-301.
77. Vrugt J.A., Robinson B.A. Treatment of uncertainty using ensemble methods: comparison of sequential data assimilation and Bayesian model averaging. Water Resources Research 2007, 43:W01411.
78. Vrugt J.A., Diks C., Clark M. Ensemble Bayesian model averaging using Markov Chain Monte Carlo sampling. Environmental Fluid Mechanics 2008, 8(5-6):579-595.
79. Vrugt J.A., ter Braak C.J.F., Clark M.P., Hyman J.M., Robinson B.A. Treatment of input uncertainty in hydrologic modeling: doing hydrology backward with Markov chain Monte Carlo simulation. Water Resources Research 2008, 44:W00B09.
80. Wang G., Xia J. Improvement of SWAT2000 modelling to assess the impact of dams and sluices on streamflow in the Huai River basin of China. Hydrological Processes 2010, 24(11):1455-1471.
81. Wang G., Xia J., Chen J. Quantification of effects of climate variations and human activities on runoff by a monthly water balance model: a case study of the Chaobai River basin in northern China. Water Resources Research 2009, 45:W00A11.
82. Wang G., Chen S., Frear C. Estimating greenhouse gas emissions from soil following liquid manure applications using a unit response curve method. In Revision for Geoderma 2011.
83. Wilks D.S. High-resolution spatial interpolation of weather generator parameters using local weighted regressions. Agricultural and Forest Meteorology 2008, 148:111-120.
84. Wu L., McGechan M.B. A review of carbon and nitrogen processes in four soil nitrogen dynamics models. Journal of Agricultural Engineering Research 1998, 69(4):279-305.
85. Wu L., McGechan M.B., Lewis D.R., Hooda P.S., Vinten A.J.A. Parameter selection and testing the soil nitrogen dynamics model SOILN. Soil Use and Management 1998, 14(3):170-181.
86. Yang J., Reichert P., Abbaspour K.C. Bayesian uncertainty analysis in distributed hydrologic modeling: a case study in the Thur River basin (Switzerland). Water Resources Research 2007, 43:W10401.