Development and calibration of a soil carbon inventory model for New Zealand
Stephen J. E. McNeill A C , Nancy Golubiewski B and James Barringer A
+ Author Affiliations
- Author Affiliations
A Landcare Research, Box 69040, Lincoln 7640, New Zealand.
B Ministry for the Environment, PO Box 10362, Wellington 6143, New Zealand.
C Corresponding author. Email: mcneills@landcareresearch.co.nz
Soil Research 52(8) 789-804 https://doi.org/10.1071/SR14020
Submitted: 24 January 2014 Accepted: 8 September 2014 Published: 25 November 2014
Journal Compilation © CSIRO Publishing 2014 Open Access CC BY-NC-ND
Abstract
A soil organic carbon (SOC) and SOC change model for New Zealand is developed for use in national SOC inventory reporting. The foundation for the model is a generalised least-squares regression, based on explanatory variables of land use, soil–climate class, and erosivity. The SOC change model is based on the assumption that changes in SOC over a decadal timescale are usually restricted to transitions in land use. Improvements to the model are then considered that are intended to reduce the uncertainty of SOC changes through reduction of the standard error of the land-use effects. Stochastic gradient boosting is used to find data layers most strongly associated with SOC. The most influential of these were then used in a general least-squares model after stepwise refinement. The stepwise-refined model significantly reduced the standard error for SOC, but did not result in a consistent reduction in the standard error for land-use classes, nor did it result in an improvement in the SOC change model. The method of calculating SOC change from a transition between two land-use classes is described, along with the significance of the transition, by use of a multi-comparison significance procedure.
Additional keywords: carbon accounting, Kyoto Protocol, land-use change, soil carbon, soil inventory model, UNFCCC.
References
Bain LJ, Engelhardt M (1992) ‘Introduction to probability and mathematical statistics.’ (Duxbury: Pacific Grove, CA, USA)Baisden WT, Wilde RH, Arnold GC, Trotter CM (2006) Operating the New Zealand carbon monitoring system. Landcare Research Contract Report LC0506/107 for the Ministry for the Environment, Wellington, New Zealand.
Bárcena TG, Kiaer LP, Vesterdal L, Stefansdottir HM, Gundersen P, Sigurdsson BD (2014) Soil carbon stock change following afforestation in Northern Europe: a meta-analysis. Global Change Biology 20, 2393–2405.
| Soil carbon stock change following afforestation in Northern Europe: a meta-analysis.Crossref | GoogleScholarGoogle Scholar | 24634314PubMed |
Beets PN, Oliver GR, Clinton PW (2002) Soil carbon protection in podocarp/hardwood forest, and effects of conversion to pasture and exotic pine forest. Environmental Pollution 116, S63–S73.
| Soil carbon protection in podocarp/hardwood forest, and effects of conversion to pasture and exotic pine forest.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD38XhsFel&md5=4977568b2ffb083d3dbe72fddba3277eCAS | 11833919PubMed |
Bretz F, Hothorn T, Westfall P (2010) ‘Multiple comparisons using R.’ (CRC Press: Boca Raton, FL, USA)
Burnham KP, Anderson DR (2002) ‘Model selection and multimodel inference: a practical information-theoretic approach.’ 2nd edn (Springer-Verlag: New York)
Callesen I, Liski J, Raulund-Rasmussen K, Olsson MT, Tau-Strand L, Vesterdal L, Westman CJ (2003) Soil carbon stores in Nordic well-drained forest soils - relationships with climate and texture class. Global Change Biology 9, 358–370.
| Soil carbon stores in Nordic well-drained forest soils - relationships with climate and texture class.Crossref | GoogleScholarGoogle Scholar |
Cheng C-L, Van Ness JW (2001) ‘Statistical regression with measurement error.’ (Arnold: London)
Coleman K, Jenkinson DS (1996) RothC-26.3: A model for the turnover of carbon in soil. In ‘Evaluation of soil organic matter models using existing, long-term datasets’. (Eds DS Powlson, P Smith, JU Smith) pp. 237–246. (Springer-Verlag: Heidelberg, Germany)
Coomes DA, Allen RB, Scott NA, Goulding C, Beets P (2002) Designing systems to monitor carbon stocks in forests and shrublands. Forest Ecology and Management 164, 89–108.
| Designing systems to monitor carbon stocks in forests and shrublands.Crossref | GoogleScholarGoogle Scholar |
Davis MR, Condron LM (2002) Impact of grassland afforestation on soil carbon in New Zealand: a review of paired-site studies. Australian Journal of Soil Research 40, 675–690.
| Impact of grassland afforestation on soil carbon in New Zealand: a review of paired-site studies.Crossref | GoogleScholarGoogle Scholar |
Draper NR, Smith H (1998) ‘Applied regression analysis.’ (Wiley: New York)
Elsgaard L, Görresa C-M, Hoffmann CC, Blicher-Mathiesen G, Schelde K, Petersen SO (2012) Net ecosystem exchange of CO2 and carbon balance for eight temperate organic soils under agricultural management. Agriculture, Ecosystems & Environment 162, 52–67.
| Net ecosystem exchange of CO2 and carbon balance for eight temperate organic soils under agricultural management.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC38XhslWrurnN&md5=e9cd657f9311a8c3578f2061a7f3702fCAS |
Friedman JH (2001) Greedy function approximation: a gradient boosting machine. Annals of Statistics 29, 1189–1232.
| Greedy function approximation: a gradient boosting machine.Crossref | GoogleScholarGoogle Scholar |
Giltrap DJ, Betts H, Wilde RH, Oliver G, Tate KR, Baisden WT (2001) Contribution of soil carbon to New Zealand’s CO2 emissions. XIII: integrated general linear model and digital elevation model. Landcare Research, Forest Research Joint Contract Report JNT 9899/136 for the Ministry for the Environment, Wellington, New Zealand.
Gimmi U, Bugmann H (2013) Preface: integrating historical ecology and ecological modelling. Landscape Ecology 28, 785–787.
| Preface: integrating historical ecology and ecological modelling.Crossref | GoogleScholarGoogle Scholar |
Hastie T, Tibshirani R, Friedman J (2009) ‘The elements of statistical learning: data mining, inference and prediction.’ 2nd edn (Springer: New York)
Hedley CB, Payton IJ, Lynn IH, Carrick ST, Webb TH, McNeill S (2012) Random sampling of stony and non-stony soils for testing a national soil carbon monitoring system. Soil Research 50, 18–29.
| Random sampling of stony and non-stony soils for testing a national soil carbon monitoring system.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BC38XisVyksb0%3D&md5=d3517b57370558e7d5a995fe499c3ab0CAS |
Hewitt AE (2010) ‘New Zealand Soil Classification.’ Landcare Research Science Series No. 1. 3rd edn (Manaaki-Whenua Press: Lincoln, New Zealand)
Houghton RA, Hackler JL, Lawrence KT (1999) The U.S. carbon budget: contributions from land-use change. Science 285, 574–578.
| The U.S. carbon budget: contributions from land-use change.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaK1MXltVSjsbw%3D&md5=f6e4749440d4cf375c80c0d397710098CAS | 10417385PubMed |
IPCC (1996) Chapter 5, Land-use change and forestry. In ‘Intergovernmental Panel for Climate Change. Revised 1996 Guidelines for National Greenhouse Gas Inventories: Reference Manual.’ pp. 5.6–5.75. (Intergovernmental Panel for Climate Change: Bracknell, UK)
Kahle M, Kleber M, Jahn R (2002) Predicting carbon content in illitic clay fractions from surface area, cation exchange capacity and dithionite-extractable iron. European Journal of Soil Science 53, 639–644.
| Predicting carbon content in illitic clay fractions from surface area, cation exchange capacity and dithionite-extractable iron.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3sXktVSlsQ%3D%3D&md5=4c1c783987d5ed9af68dca6f6d3ad5a6CAS |
Kirschbaum MUF, Trotter C, Wakelin S, Baisden T, Curtin D, Dymond J, Ghani A, Jones H, Deurer M, Arnold G, Beets P, Davis M, Hedley C, Peltzer D, Ross C, Schipper L, Sutherland A, Wang H, Beare M, Clothier B, Mason N, Ward N (2009) Carbon stocks and changes in New Zealand’s soils and forests, and implications of Post-2012 accounting options for land-based emissions offsets and mitigation opportunities. Landcare Research Contract Report LC0708/174 for MAF (now MPI), Wellington, New Zealand.
Koordinates (2013) LUCAS New Zealand land use map 1990–2008 (v011). Koordinates. Available at: http://koordinates.com/#/layer/4316-lucas-new-zealand-land-use-map-1990-2008-v011/ (accessed 21 July 2013)
Laganière J, Angers DA, Paré D (2010) Carbon accumulation in agricultural soils after afforestation: a meta-analysis. Global Change Biology 16, 439–453.
| Carbon accumulation in agricultural soils after afforestation: a meta-analysis.Crossref | GoogleScholarGoogle Scholar |
Landcare Research (2014) NZ Land Cover Database. Landcare Research. Available at: www.lcdb.scinfo.org.nz (accessed 24 January 2014).
Lawrence EJ, Beare MH, Tregurtha CS, Cuff J (2008) Quantifying the effects of soil and crop management history on soil quality. In ‘Carbon and nutrient management for agriculture’. Fertilizer & Lime Research Centre, Occasional Report No. 21. (Eds LD Currie, JA Hanly) pp. 23–28. (Massey University: Palmerston North, New Zealand)
Lawrence-Smith EJ, Tregurtha CS, Beare MH (2010a) Land Management Index data for use in New Zealand’s Soil Carbon Monitoring System. SPTS No. 4612. Plant & Food Research Client Report (Contract No. 25265) for the Ministry of the Environment, Wellington, New Zealand.
Lawrence-Smith EJ, Beare MH, Curtin D, Tregurtha C (2010b) Explaining variability in soil carbon stocks based on farm management factors. In ‘Food security from sustainable agriculture. Proceedings 15th Agronomy Conference’. 15–18 November 2010, Lincoln, NZ. (Eds H Dove, RA Culvenor) (Australian Society of Agronomy)
Leathwick JR (2001) New Zealands’s potential forest pattern as predicted from current species-environment relationships. New Zealand Journal of Botany 39, 447–464.
| New Zealands’s potential forest pattern as predicted from current species-environment relationships.Crossref | GoogleScholarGoogle Scholar |
Leathwick J (2005) ‘Predicted potential natural vegetation of New Zealand.’ CD of ArcGIS files. (Landcare Research: Hamilton, New Zealand)
Leathwick J, Morgan F, Wilson G, Rutledge D, McLeod M, Johnston K (2002) ‘Land environments of New Zealand: a technical guide.’ (Ministry for the Environment: Wellington, New Zealand)
Li C, Frokling S, Harriss RC (1994) Modeling carbon biogeochemistry in agricultural soils. Global Biogeochemical Cycles 8, 237–254.
| Modeling carbon biogeochemistry in agricultural soils.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaK2cXmtVCiu7s%3D&md5=b4e1f46643e7245a288aa3ea162dde0bCAS |
Lilburne LR, Hewitt AE, Webb TW (2012) Soil and informatics science combine to develop S-map: A new generation soil information system for New Zealand. Geoderma 170, 232–238.
| Soil and informatics science combine to develop S-map: A new generation soil information system for New Zealand.Crossref | GoogleScholarGoogle Scholar |
Lohr S (1999) ‘Sampling: design and analysis.’ (Duxbury Press: Pacific Grove, CA, USA)
Marcus R, Peritz E, Gabriel KR (1976) On closed testing procedures with special reference to ordered analysis of variance. Biometrika 63, 655–660.
| On closed testing procedures with special reference to ordered analysis of variance.Crossref | GoogleScholarGoogle Scholar |
McCune B, Grace JB (2002) ‘Analysis of ecological communities.’ (MjM Software Design: Gleneden Beach, OR, USA)
McNeill SJ (2010) Soil CMS model recalibration and uncertainty analysis. Landcare Research Contract Report LC93 for the Ministry for the Environment, Wellington, New Zealand.
McNeill SJ (2012) Respecification and reclassification of the MfE SoilCMS model. Landcare Research Contract Report LC975 for the Ministry for the Environment, Wellington, New Zealand.
McNeill SJ (2013) Respecification and Reclassification of the 2012 MfE Soil CMS Model. Landcare Research Contract Report LC1649 for the Ministry for the Environment, Wellington, New Zealand.
McNeill SJ, Forester G, Giltrap D (2009) Spatial autocorrelation analysis of data for the Soils CMS model. Landcare Research Contract Report LC0910/003 for the Ministry for the Environment, Wellington, NZ.
MfE (Ministry for the Environment) (2012) ‘Land use, land-use change and forestry. In ‘New Zealand’s Greenhouse Gas Inventory 1990–2010.’ Publication no. ME 1095. pp. 173–270. (Ministry for the Environment: Wellington, New Zealand)
Milne JDG, Clayden B, Singleton PL, Wilson AD (1995) ‘Soil description handbook.’ (Manaaki Whenua Press: Lincoln, New Zealand)
National Research Council (2013) ‘Frontiers in massive data analysis.’ (The National Academies Press: Washington, DC)
Newsome PFJ (1987) ‘The vegetative cover of New Zealand.’ Water and Soil Miscellaneous Publication No. 112. (National Water and Soil Conservation Authority: Wellington, New Zealand)
Ogle SM, Paustian K (2005) Soil organic carbon as an indicator of environmental quality at the national scale: Inventory monitoring methods and policy relevance. Canadian Journal of Soil Science 85, 531–540.
| Soil organic carbon as an indicator of environmental quality at the national scale: Inventory monitoring methods and policy relevance.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD28Xjs1Ggug%3D%3D&md5=4e70f7204485fe8870eafe04150092fbCAS |
Ogle SM, Breidt FJ, Easter M, Williams S, Paustian K (2007) An empirically based approach for estimating uncertainty associated with modelling carbon sequestration in soils. Ecological Modelling 205, 453–463.
| An empirically based approach for estimating uncertainty associated with modelling carbon sequestration in soils.Crossref | GoogleScholarGoogle Scholar |
Parton WJ, Schimel DS, Cole CV, Ojima DS (1987) Analysis of factors controlling soil organic matter levels in Great Plains grasslands. Soil Science Society of America Journal 51, 1173–1179.
| Analysis of factors controlling soil organic matter levels in Great Plains grasslands.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DyaL2sXmtlGnsbw%3D&md5=83adee9d531a52b4c726cce830d3407cCAS |
Penman J, Gytarsky M, Hiraishi T, Krug T, Kruger D, Pipatti R, Buendia L, Miwa K, Ngara T, Tanabe K, Wagner F (Eds) (2003) ‘Good practice guidance for land use, land-use change and forestry.’ (Intergovernmental Panel on Climate Change: Kanagawa, Japan)
Poeplau C, Don A, Vesterdal L, Leifeld J, Van Wesemael B, Schumacher J, Gensior A (2011) Temporal dynamics of soil organic carbon after land-use change in the temperate zone—carbon response functions as a model approach. Global Change Biology 17, 2415–2427.
| Temporal dynamics of soil organic carbon after land-use change in the temperate zone—carbon response functions as a model approach.Crossref | GoogleScholarGoogle Scholar |
Ridgeway G (2013) gbm: Generalized Boosted Regression Models. package version 2.1. The R Project for Statistical Computing. Available at: http://CRAN.R-project.org/package=gbm.
Scott NA, Tate KR, Giltrap DJ, Smith CT, Wilde RH, Newsome PF, Davis MR (2002) Monitoring land-use change effects on soil carbon in New Zealand: Quantifying baseline soil carbon stocks. Environmental Pollution 116, S167–S186.
| Monitoring land-use change effects on soil carbon in New Zealand: Quantifying baseline soil carbon stocks.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD38XhsFCk&md5=9c1e23ebc7d1eaa34fabf40e7403a1f5CAS | 11837235PubMed |
Tate KR, Scott NA, Saggar S, Giltrap DJ, Baisden WT, Newsome PF, Trotter CM, Wilde RH (2003a) Land-use change alters New Zealand’s terrestrial carbon budget: Uncertainties associated with estimates of soil carbon change between 1990 and 2000. Tellus 55B, 364–377.
| Land-use change alters New Zealand’s terrestrial carbon budget: Uncertainties associated with estimates of soil carbon change between 1990 and 2000.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD3sXktlSiu7Y%3D&md5=8b5d25138dfddb0291a8102845ffe261CAS |
Tate KR, Barton JP, Trustrum NA, Baisden WT, Saggar S, Wilde RH, Giltrap DJ, Scott NA (2003b) Monitoring and modeling soil organic carbon stocks and flows in New Zealand. In ‘Soil organic carbon and agriculture: Developing indicators for policy analysis’. Proceedings of an OECD Expert Meeting, Ottawa, ON, October 2002. (Ed. CA Scott-Smith) pp. 253–268. (Agriculture and Agri-Food Canada and Organisation for Economic Co-operation and Development: Paris, France)
Tate KR, Wilde RH, Giltrap DJ, Baisden WT, Saggar S, Trustrum NA, Scott NA, Barton JP (2005) Soil organic carbon stocks and flows in New Zealand: System development, measurement and modelling. Canadian Journal of Soil Science 85, 481–489.
| Soil organic carbon stocks and flows in New Zealand: System development, measurement and modelling.Crossref | GoogleScholarGoogle Scholar | 1:CAS:528:DC%2BD28Xjs1GgsQ%3D%3D&md5=93925b0ff2ecd5c7487473fbbea6e74fCAS |
Taylor NH, Pohlen IJ (1979) ‘Soil survey method. A New Zealand handbook for the field study of soils.’ Soil Bureau Bulletin 25. (Department of Scientific and Industrial Research: Wellington, New Zealand)
Wilde H, Davis M, Tate K, Giltrap D (2004) Testing the representativeness of soil carbon data held in databases underpinning the New Zealand Soil Carbon Monitoring System. In ‘SuperSoil 2004. Proceedings 3rd Australian New Zealand Soils Conference’. 5–9 December 2004, University of Sydney, NSW. (The Regional Institute: Gosford, NSW) Available at: www.regional.org.au/au/asssi/
