Harmonization and translation of crop modeling data to ensure interoperability

Environmental Modelling and Software

Volumn 62, Issue , 2014, Pages 495-508

  Porter, Cheryl H ^a   Villalobos, Chris ^a   Holzworth, Dean ^b   Nelson, Roger ^c   White, Jeffrey W ^d   Athanasiadis, Ioannis N ^e   Janssen, Sander ^f   Ripoche, Dominique ^g   Cufi, Julien ^g   Raes, Dirk ^h   Zhang, Meng ^a   Knapen, Rob ^f   Sahajpal, Ritvik ⁱ   Boote, Kenneth ^a   Jones, James W ^a  

^a University of Florida   (United States)

^b CSIRO   (Australia)

^c WASHINGTON STATE UNIVERSITY   (United States)

^d AGRICULTURAL RESEARCH SERVICE   (United States)

^e DEMOCRITUS UNIVERSITY OF THRACE   (Greece)

^f WAGENINGEN UNIVERSITY   (Netherlands)

^g French National Institute for Agricultural Research   (France)

^h UNIVERSITY OF LEUVEN   (Belgium)

ⁱ UNIVERSITY OF MARYLAND   (United States)

Author keywords

Collaborative software design; Crop model; Data structure; Database; Harmonization; Schema

Indexed keywords

CLIMATE CHANGE; CROPS; DATA STRUCTURES; DATABASE SYSTEMS; ELECTRONIC DATA INTERCHANGE; GROUPWARE; INTEROPERABILITY; SOFTWARE DESIGN;

AGRICULTURAL SYSTEM; COLLABORATIVE SOFTWARE DESIGN; CROP MODEL; DATA INTEROPERABILITY; HARMONIZATION; INTERNATIONAL STANDARDS; MODEL INTER COMPARISONS; SCHEMA;

CLIMATE MODELS;

AGRICULTURAL MODELING; DATABASE; ECONOMIC GROWTH; ECOPHYSIOLOGY; EXPERIMENTAL STUDY; HARMONIC ANALYSIS; MODEL TEST;

EID: 84912130665     PISSN: 13648152     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.envsoft.2014.09.004     Document Type: Article

References (46)

1. Aggarwal P.K., Kalra N., Chander S., Pathak H. InfoCrop: a dynamic simulation model for the assessment of crop yields, losses due to pests, and environmental impact of agro-ecosystems in tropical environments. I. Model description. Agric. Syst. 2006, 89(1):1-25.
2. The Root Zone Water Quality Model 2000, Water Resources Publications LLC, Highlands Ranch, CO, 372pp. L.R. Ahuja, K.W. Rojas, J.D. Hanson, M.J. Shaffer, L. Ma (Eds.).
3. Argent R.M. An overview of model integration for environmental applications - components, frameworks and semantics. Environ. Model. Softw. 2004, 19(3):219-234.
4. Asseng S., Ewert F., Rosenzweig C., Jones J.W., Hatfield J.L., Ruane A.C., Boote K.J., Thorburn P.J., Rötter R.P., Cammarano D., Brisson N., Basso B., Martre P., Aggarwal P.K., Angulo C., Bertuzzi P., Biernath C., Challinor A.J., Doltra J., Gayler S., Goldberg R., Grant R., Heng L., Hooker J., Hunt L.A., Ingwersen J., Izaurralde R.C., Kersebaum K.C., Müller C., Kumar S.N., Nendel C., O'Leary G., Olesen J.E., Osborne T.M., Palosuo T., Priesack E., Ripoche D., Semenov M.A., Shcherbak I., Steduto P., Stöckle C., Stratonovitch P., Streck T., Supit I., Tao F., Travasso M., Waha K., Wallach D., White J.W., Williams J.R., Wolf J. Uncertainties in simulating wheat yields under climate change. Nat. Clim. Change 2013, 3:827-832.
5. Athanasiadis I.N., Rizzoli A.E., Janssen S., Andersen E., Villa F. Ontology for seamless integration of agricultural data and models. Metadata and Semantic Research 2009, 282-293. Springer, Berlin Heidelberg.
6. Basso B., Cammarano D., Troccoli A., Chen D., Ritchie J.T. Long-term wheat response to nitrogen in a rainfed mediterranean environment: field data and simulation analysis. Eur. J. Agron. 2010, 33:132-138.
7. Basso B., Ritchie J.T. Assessing the impact of management strategies on water use efficiency using soil-plant-atmosphere models. Vadose Zone J. 2012, 11(3). 10.2136/vzj2011.0173.
8. Bassu S., Brisson N., Durand J.L., Boote K.J., Lizaso J.I., Jones J.W., Rosenzweig C., Ruane A.C., Adam M., Baron C., Basso B., Biernath C., Boogaard H., Conijn S., Corbeels M., Deryng D., De Sanctis G., Gayler S., Grassini P., Hatfield J., Hoek S., Izaurralde C., Jongschaap R., Kemanian A.R., Kersebaum K.C., Kim S.H., Kumar N.S., Makowski D., Müller C., Nendel C., Priesack E., Pravia M.V., Sau F., Shcherbak I., Tao F., Teixeira E., Timlin D., Waha K. How do various maize crop models vary in their responses to climate change factors?. Glob. Change Biol. 2014, 20:2301-2320. 10.1111/gcb.12520.
9. Boote K.J., Jones J.W., White J.W., Asseng S., Lizaso J.I. Putting mechanisms into crop production models. Plant Cell Environ. 2013, 36:1658-1672.
10. Bouman B.A.M., Kropff M.J., Tuong T.P., Wopereis M.C.S., Ten Berge H.F.M., Van Laar H.H. ORYZA2000: Modeling Lowland Rice 2001, International Rice Research Institute, Los Baños, Philippines, and Wageningen University and Research Centre, Wageningen, Netherlands, 235 pp.
11. Bouman B.A.M., Van Laar H.H. Description and evaluation of the rice growth model ORYZA2000 under nitrogen-limited conditions. Agric. Syst. 2006, 87:249-273.
12. Brisson N., Gary C., Justes E., Roche R., Mary B., Ripoche D., Zimmer D., Sierra J., Bertuzzi P., Burger P., Bussiere F., Cabidoche Y.M., Cellier P., Debaeke P., Gaudillere J.P., Henault C., Maraux F., Seguin B., Sinoquet H. An overview of the crop model STICS. Eur. J. Agron. 2003, 18:309-332.
13. Brisson N., Launay M., Mary B., Beaudoin N. Conceptual Basis, Formalisations and Parameterization of the STICS Crop Model 2009, Editions QUAE.
14. Chandler W.S., Stackhouse P.W., Hoell J.M., Westberg D., Zhang T. NASA prediction of worldwide Energy resource high resolution meteorology data for sustainable building design. Proceedings of the Solar 2013 Conference (American Solar Energy Society), April 16-20, Baltimore, Maryland 2013, http://power.larc.nasa.gov/solar/publications/solar2013_0319.pdf.
15. David O., Ascough J.C., Lloyd W., Green T.R., Rojas K.W., Leavesley G.H., Ahuja L.R. Asoftware engineering perspective on environmental modeling framework design: the Object Modeling System. Environ. Model. Softw. 2013, 39:201-213.
16. Elliott J., Glotter M., Best N., Chryssanthacopoulos J., Kelly D., Wilde M., Foster I. The Parallel System for Integrating Impact Models and Sectors (pSIMS). Environ. Model. Softw. Agric. Syst. Model. Softw. 2014, 62:509-516.
17. Gregersen J.B., Gijsbers P.J.A., Westen S.J.P. OpenMI: open modelling interface. J.Hydroinf. 2007, 9(3):175-191.
18. Handbook of Climate and Agroecosystems: the Agricultural Model Intercomparison and Improvement Project (AgMIP). IPC Series on Climate Change Impacts, Adaptation, and Mitigation 2014, vol. 3. Joint Publication with American Society of Agronomy and Imperial College Press- World Scientific, (in preparation). D. Hillel, C. Rosenzweig (Eds.).
19. Holzworth D., Huth N., deVoil P., Zurcher E., Herrmann N., McLean G., Chenu K., van Oosterom E., Snow V., Murphy C., Moore A., Brown H., Whish J., Verrall S., Fainges J., Bell L., Peake A., Poulton P., Hochman Z., Thorburn P., Gaydon D., Dalgliesh N., Rodriguez D., Cox H., Chapman S., Doherty A., Teixeira E., Sharp J., Cichota R., Vogeler I., Li F., Wang E., Hammer G., Robertson M., Dimes J., Carberry P., Hargreaves J., MacLeod N.C.M., Harsdorf J., Wedgewood S., Keating B. APSIM - evolution towards a new generation of agricultural systems simulation. Environ. Model. Softw. Agric. Syst. Model. Softw. 2014, 62:327-350. 10.1016/j.envsoft.2014.07.009.
20. Hoogenboom G., Jones J.W., Wilkens P.W., Porter C.H., Boote K.J., Hunt L.A., Singh U., Lisazo J.I., White J.W., Uryasev O., Royce F.S., Ogoshi R., Gijsman A.J., Tsuji G.Y. Decision Support System for Agrotechnology Transfer Version 4.5 [CD-ROM] 2010, University of Hawaii, Honolulu, Hawaii.
21. Hsiao T.C., Heng L., Steduto P., Rojas-Lara B., Raes D., Fereres E. AquaCrop-The FAO crop model to simulate yield response to water: III. Parameterization and testing for maize. Agron. J. 2009, 101(3):448-459.
22. Hunt L.A., White J.W., Hoogenboom G. Agronomic data: advances in documentation and protocols for exchange and use. Agric. Syst. 2001, 70:477-492.
23. ICRISAT (International Crops Research Institute for the Semi-Arid Tropics) Proceedings of the International Symposium on Minimum Datasets for Agrotechnology Transfer. 21-26 March 1983. ICRISAT Center, India, Patancheru, A.P. 502 324, India: ICRISAT 1984.
24. Izaurralde R.C., Williams J.R., McGill W.B., Rosenberg N.J., Jakas M.C. Simulating soil C dynamics with EPIC: model description and testing against long-term data. Ecol. Model. 2006, 192(3):362-384.
25. Janssen S., Athanasiadis I.N., Bezlepkina I., Knapen R., Li H., Domínguez I.P., Rizzoli A.E., van Ittersum M.K. Linking models for assessing agricultural land use change. Comput. Electron. Agric. 2011, 76:148-160.
26. Jones J.W., Hoogenboom G., Porter C.H., Boote K.J., Batchelor W.D., Hunt L.A., Wilkens P.W., Singh U., Gijsman A.J., Ritchie J.T. The DSSAT cropping system model. Eur. J. Agron. 2003, 18(3-4):235-265.
27. Keating B.A., Carberry P.S., Hammer G.L., Probert M.E., Robertson M.J., Holzworth D., Huth N.I., Hargreaves J.N.G., Meinke H., Hochman Z., McLean G., Verburg K., Snow V., Dimes J.P., Silburne M., Wang E., Brown S., Bristow K.L., Asseng S., Chapman S., McCown R.L., Freebairne D.M., Smith C.J. An overview of APSIM, a model designed for farming systems simulation. Eur. J. Agron. 2003, 18:267-288.
28. Knapen R., Janssen S., Roosenschoon O., Verweij P., de Winter W., Uiterwijk M., Wien J. Evaluating OpenMI as a model integration platform across disciplines. Environ. Model. Softw. 2013, 39:274-282. http://dx.doi.org/10.1016/j.envsoft.2012.06.011, 1364-8152.
29. Oettli P., Sultan B., Baron C., Vrac M. Are regional climate models relevant for crop yield prediction in West Africa. Environ. Res. Lett. 2011, 6. pp014008. http://stacks.iop.org/1748-9326/6/014008.
30. OGC Open Geospatial Consortium 2014, (accessed 31.3.14.). http://www.opengeospatial.org/.
31. Raes D., Steduto P., Hsiao T.C., Fereres E. AquaCrop-the FAO crop model to simulate yield response to water: II. Main algorithms and software description. Agron. J. 2009, 101(3):438-447.
32. Rosenzweig C., Elliott J., Deryng D., Ruane A.C., Arneth A., Boote K.J., Folberth C., Glotter M., Müller C., Neumann K., Piontek F., Pugh T., Schmid E., Stehfest E., Jones J.W. Assessing agricultural risks of climate change in the 21st century in a global gridded crop model intercomparison. PNAS 2014, 111(9):3268-3273.
33. Rosenzweig C., Jones J.W., Hatfield J.L., Ruane A.C., Boote K.J., Thorburn P.J., Antle J.M., Nelson G.C., Porter C.H., Janssen S., Asseng S., Basso B., Ewert F., Wallach D., Baigorria G.A., Winter J.M. The Agricultural Model Intercomparison and Improvement Project (AgMIP): protocols and pilot studies. Agric. For. Meteorol. 2013, 170:166-182.
34. Rosenzweig C., Jones J.W., Hatfield J.L., Antle J.M., Ruane A.C., Boote K.J., Thorburn P.J., Valdivia R., Porter C.H., Janssen S., Mutter C.Z. AgMIP Guide for Regional Integrated Assessments: Handbook of Methods and Procedures Version 5.0 2013, http://www.agmip.org/wp-content/uploads/2013/10/AgMIP-Regional-Integrated-Assessment-Handbook-v5.pdf.
35. Rosenzweig C., Jones J.W., Hatfield J.L., Ruane A.C., Boote K.J., Thorburn P.J., Antle J.M., Nelson G.C., Porter C.H., Janssen S. AgMIP Protocols 2011, http://research.agmip.org/display/research/AgMIP+Protocols.
36. Secure Hash Standards (SHS). 2012. National Institute of Standards and Technology, FIPS 180-2.
37. Steduto P., Hsiao T.C., Raes D., Fereres E. AquaCrop-the FAO crop model to simulate yield response to water: I. Concepts and underlying principles. Agron. J. 2009, 101(3):426-437.
38. Stöckle C.O., Donatelli M., Nelson R. CropSyst, a cropping systems simulation model. Eur. J. Agron. 2003, 18:289-307.
39. Sultan B., Roudier P., Quirion P., Alhassane A., Muller B., Dingkuhn M., Ciais P., Guimberteau M., Traore S., Baron C. Assessing climate change impacts on sorghum and millet yields in the Sudanian and Sahelian savannas of West Africa. Environ. Res. Lett. 2013, 8. 014040. http://iopscience.iop.org/1748-9326/8/1/014040/article, 10.1088/1748-9326/8/1/014040.
40. Uehara G., Tsuji G.Y. Overview of IBSNAT. Understanding Options for Agricultural Production 1998, pp. 1-7, Kluwer Academic Publishers, Dordrecht, The Netherlands. G.Y. Tsuji, G. Hoogenboom, P.K. Thornton (Eds.).
41. Van Diepen C.A., Wolf J., van Keulen H., Rappoldt C. WOFOST: a simulation model of crop production. Soil Use Manag. 1989, 5(1):16-24. 10.1111/j.1475-2743.1989.tb00755.x.
42. Van Ittersum M.K., Ewert F., Heckelei T., Wery J., Olsson J.A., Andersen E., Bezlepkina I., Brouwer F., Donatelli M., Flichman G., Olsson L., Rizzoli A.E., van der Wal T., Wien J.E., Wolf J. Integrated assessment of agricultural systems-a component-based framework for the European Union (SEAMLESS). Agric. Syst. 2008, 96.1-3:150-165.
43. Villa F., Athanasiadis I.N., Rizzoli A.E. Modelling with knowledge: a review of emerging semantic approaches to environmental modelling. Environ. Model. Softw. 2009, 24:577-587.
44. Villalobos C. Using JSON & Riak for AgMIP. AgMIP White Paper 2012, University of Florida. http://research.agmip.org/pages/viewpage.action?pageId=1212592.
45. White J.W., Hunt L.A., Boote K.J., Jones J.W., Koo J., Kim S., Porter C.H., Wilkens P.W., Hoogenboom G. Integrated description of agricultural field experiments and production: the ICASA version 2.0 data standards. Comput. Electron. Agric. 2013, 96:1-12.
46. Yan Z., Weixiang S., Weixing C., Yongchao T. Dynamic knowledge model and decision support system for rapeseed cultivation management. Trans. Chin. Soc. Agric. Eng. 2004, 6:141-144.