Process-based modelling; Agroforestry systems; Climate change; GIS; Model implementation (programming); High power computing for large datasets


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Scientific Articles (ISI)

Gidey, T., Birhane E., Solomon, N., Atsbha,T., Manaye, A., Hisne, H., Gufi, H., Tesfaye, M., Negussie, A., Oliveira, T. S., Palma, J. H. N., Madera, P, Borges J.G. (2024)

Population and conservation status of the endangered Dracaena ombet tree in dry Afromontane forests

Global Ecology and Conservation 50, e02809. DOI:

Ferreiro-DomĂ­nguez N., Palma J.H.N., Paulo J.A., Rigueiro-RodrĂ­guez A., Mosquera-Losada M.R (2022)

Assessment of soil carbon storage in three land use types of a semi-arid ecosystem in South Portugal.

Catena, 213: 106196. DOI:

Rolo V., Roces-Diaz J.V., Torralba M., Kay S., Fagerholm N., Aviron S., Burgess P., Crous-Duran J., Ferreiro-Dominguez N., Graves A., …,Palma J.H.N. et al. (2021)

Mixtures of forest and agroforestry alleviate trade-offs between ecosystem services in European rural landscapes

Ecosystem Services, 101318. DOI:

White D.A., Silberstein R.P., Balocchi-Contreras F., Quiroga J.J., Meason D.F., Palma J.H.N., de Arellano P.R. (2021)

Growth, water use, and water use efficiency of Eucalyptus globulus and Pinus radiata plantations compared with natural stands of Roble-Hualo forest in the coastal mountains of central Chile

Forest Ecology and Management, 501: 119676. DOI:

Crous-Duran J., Graves A.R., de Jalon S.G., Kay S., Tomé M., Burgess P.J., Giannitsopoulos M., Palma J.H.N. (2020)

Quantifying regulating ecosystem services with increased tree densities on European farmland

Sustainability, 12(16): 6676. DOI:

Damianidis C., Santiago-Freijanes J.J., den Herder M., Burgess P., Mosquera-Losada M.R., Graves A., Papadopoulos A., Pisanelli A., Camilli F., Rois-Diaz M., Kay S., Palma J.H.N., Pantera A. (2020)

Agroforestry as a sustainable land use option to reduce wildfires risk in European Mediterranean areas

Agroforestry Systems, 95: 919–929. DOI:

Giannitsopoulos M.L., Graves A.R., Burgess P.J., Crous-Duran J., Moreno G., Herzog F., Palma J.H.N., Kay S., de Jalon S.G. (2020)

Whole system valuation of arable, agroforestry and tree-only systems at three case study sites in Europe

Journal of Cleaner Production, 269: 122283. DOI:

Gidey T., Hagos D., Juhar H.M., Solomon N., Negussie A., Crous-Duran J., Oliveira T.S., Abiyu A., Palma J.H.N. (2020)

Population status of Boswellia papyrifera woodland and prioritizing its conservation interventions using multi-criteria decision model in northern Ethiopia

Heliyon, 6(10): e05139. DOI:

Gidey T., Oliveira T.S., Crous-Duran J., Palma J.H.N. (2020)

Using the Yield-SAFE model to assess the impacts of climate change on yield of coffee (Coffea arabica L.) under agroforestry and monoculture systems

Agroforestry Systems, 94(1): 57-70. DOI:

Rolo V., Hartel T., Aviron S., Berg S., Crous-Duran J., Franca A., Mirck J., Palma J.H.N., Pantera A. Paulo J.A., Pulido F.J., Seddaiu G., Thenail C., Varga A., Viaud V., Burgess P.J., Moreno G. (2020)

Challenges and innovations for improving the sustainability of European agroforestry systems of high nature and cultural value: stakeholder perspectives

Sustainability Science, 15(5): 1301-1315. DOI:

Crous-Duran J., Graves A., Paulo J.A., Mirck J., Oliveira T.S., Kaya S., GarcĂ­a de JalĂłn S., Palma J.H.N. (2019)

Modelling tree density effects on provisioning ecosystem services in Europe

Agroforestry Systems, 93, 1985–2007. DOI:

Crous-Duran J., Graves A.R., Garcia-de-Jalón S., Paulo J.A., Tomé M., Palma J.H.N. (2019)

Assessing food sustainable intensification potential of agroforestry using a carbon balance method

iForest, 12: 85-91. DOI:

de Jalon S.G., Burgess P.J., Curiel-Yuste J., Moreno G., Graves A., Palma J.H.N., Crous-DurĂĄn J., Kay S., Chiabai A. (2019)

Dry deposition of air pollutants on trees at regional scale: a case study in the Basque Country

Agricultural and Forest Meteorology, 278: 107648.

Kay S., Graves A.R., Palma J.H.N., Moreno G., Roces-Diaz J.V., Aviron S., Chouvardas D., Crous-Duran J., Ferreiro-Domínguez N., García de Jalón S., MăcicăƟan V., Mosquera-Losada M.R., Pantera A., Santiago-Freijanes J.J., Szerencsits E., Torralba M., Burgess P.J., Herzog F. (2019)

Agroforestry is paying off – Economic evaluation of ecosystem services in European landscapes with and without agroforestry systems

Ecosystem Services, 36: art100896.

Kaya S., Rega C., Moreno G., Den Herder M., Palma J.H.N., Borek R., Crous-Duran J., Freese D., Giannitsopoulos M., Graves A., JĂ€ger M., Lamersdorf N., Memedemin D., Mosquera-Losada R., Pantera A., Paracchini M.L., Paris P., Roces-DĂ­az J.V., Rolo V., Rosati A., Sandor M., Smith J., Szerencsits E., Varga A., Viaud V., Wawer R., Burgess P.J., Herzog F. (2019)

Agroforestry creates carbon sinks whilst enhancing the environment in agricultural landscapes in Europe

Land Use Policy, 83: 581-593.

de JalĂłn S.G., Burgess P.J., Graves A., Moreno G., McAdam J., Pottier E., Novak S., Bondesan V., Mosquera-Losada R., Crous-Duran J., Palma J.H.N., Paulo J.A., Oliveira T.S., Cirou E., Hannachi Y., Pantera A., Wartelle R., Kay S., Malignier N., Lerberghe P.V., Tsonkova P., Mirck J., Rois M., Kongsted A.G., Thenail C., Luske B., Berg S., Gosme M., Vityi A. (2018)

How is agroforestry perceived in Europe? An assessment of positive and negative aspects by stakeholders

Agroforestry Systems, 92(4): 829-848. DOI:

de JalĂłn S.G., Graves A., Moreno A., Palma J.H.N., Crous-DurĂĄn J., Kay S., Burgess P.J. (2018)

Forage-SAFE: a model for assessing the impact of tree cover on wood pasture profitability

Ecological Modelling, 372: 24–32. DOI:

de JalĂłn S.G., Graves A., Palma J.H.N., Williams A., Upson M., Burgess P.J. (2018)

Modelling and valuing the environmental impacts of arable, forestry and agroforestry systems: a case study

Agroforestry Systems, 92(4): 1059-1073. DOI:

Faias S.P., Paulo J.A., Palma J.H.N., Tomé M. (2018)

Understory effect on tree and cork growth in cork oak woodlands

Forest Systems, 27(1).

Kay S., Crous-Duran J., Ferreiro-DomĂ­nguez N., GarcĂ­a de JalĂłn S., Graves A., Moreno G., Mosquera-Losada M.R., Palma J.H.N., Roces-DĂ­az J.V., Santiago-Freijanes J.J., Szerencsits E., Weibel R., Herzog F. (2018)

Spatial similarities between European agroforestry systems and ecosystem services at the landscape scale

Agroforestry Systems, 92(4): 1075–1089.

Kay S., Crous-Duran J., GarcĂ­a de JalĂłn S., Palma J.H.N., Roces-DĂ­az J.V., Szerencsits E., Weibel R., Herzog F. (2018)

Landscape-scale modelling of agroforestry ecosystems services in Swiss orchards: a methodological approach

Landscape Ecology, 33(9): 1633–1644.

Moreno G., Aviron S., Berg S., Crous-Duran J., Franca A., de JalĂłn S.G., Hartel T., Mirck J., Pantera A., Palma J.H.N., Paulo J.A., Re G.A., Sanna F., Thenail C., Varga A., Viaud V., Burgess P.J. (2018)

Agroforestry systems of high nature and cultural value in Europe: provision of commercial goods and other ecosystem services

Agroforestry Systems, 92(4): 877–891.

Palma J.H.N., Cardoso R.M., Soares P.M.M., Oliveira T.S., Tomé M. (2018)

Using high-resolution simulated climate projections on forest process based modelling

Agricultural and Forest Meteorology, 263: 100-106.

Palma J.H.N., Crous-Duran J., Graves A., GarcĂ­a de JĂĄlon S., Upson M., Oliveira T., Paulo J.A., Ferreiro-Dominguez N., Moreno G., Burgess P. (2018)

Integrating belowground carbon dynamics into Yield-SAFE, a parameter sparse agroforestry model

Agroforestry Systems, 92 (4): 1047-1057.

Rois-Díaz M., Lovrić N., Lovrić M., Ferreiro-Domínguez N., Mosquera-Losada M.R., den Herder M., Graves A., Palma J.H.N., Paulo J.A., Pisanelli A., Smith J., Moreno G., García S., Varga A., Pantera A., Mirck J., Burgess P. (2018)

Farmers’ reasoning behind the uptake of agroforestry practices: evidence from multiple case-studies across Europe

Agroforesty Systems, 92(4): 811-828.

den Herder M., Moreno G., Mosquera-Losada R., Palma J.H.N, Sidiropoulou A., Freijanes J.J.S., Crous-Duran J., Paulo J.A., Tomé M., Pantera A., Papanastasis V.P., Mantzanas K., Pachana P., Papadopoulos A., Plieninger T., Burgess P.J. (2017)

Current extent and stratification of agroforestry in the European Union

Agriculture, Ecosystems and Environment, 241: 121–132. DOI:

Palma J.H.N. (2017)

CliPick – Climate change web picker. A tool bridging daily climate needs in process based modelling in forestry and agriculture

Forest Systems, 26(1): eRC01.

Reyer C., Bathgate S., Blennow K., Borges J.G., Bugmann H., Delzon S., Faias S.P., Garcia-Gonzalo J., Gardiner B., Gonzalez-Olabarria J.R., Gracia C., Guerra J., KellomÀki S., Kramer K., Lexer M.J., Lindner M., van der Maaten E., Maroschek M., Muys B., Nicoll B., Palahi M., Palma J.H.N., Paulo J.A., Peltola H., Pukkala T., Rammer W., Ray D., Sabaté S., Schelhaas M., Seidl R., Temperli C., Tomé M., Yousefpour R., Zimmermann N.E., Hanewinkel M. (2017)

Are forest disturbances amplifying or canceling out climate change-induced productivity changes in European forests?

Environmental Research Letters, 12(3).

Yousefpour R., Temperli C., Jacobsen J.B., Thorsen B.J., Meilby H., Lexer M.J., Lindner M., Bugmann H., Borges J.G., Palma J.H.N., Ray D., Zimmermann N.E., Delzon S., Kremer A., Kramer K., Reyer C.P.O., Lasch-Born P., Garcia-Gonzalo J., Hanewinkel M. (2017)

A framework for modeling adaptive forest management and decision making under climate change

Ecology and Society, 22(4):40.

Palma J.H.N., Paulo J.A., Faias S.P., Garcia-Gonzalo J., Borges J.G., Tomé M. (2015)

Adaptive management and debarking schedule optimization of Quercus suber L. stands, under climate change. Case study in Chamusca, Portugal

Regional Environmental Change, 15:(8): 1569-1580.

Paulo J.A., Faias S., Gomes A.A., Palma J.H.N., Tomé J., Tomé M. (2015)

Predicting site index from climate and soil variables for cork oak (Quercus suber L.) stands in Portugal

New Forests, 46(2):293-307.

Sereke F., Graves A.R., Dux D., Palma J.H.N., Herzog F. (2015)

Innovative agroecosystem goods and services: key profitability drivers in Swiss agroforestry

Agronomy for Sustainable Development, 35(2): 759-770.

Garcia-Gonzalo J., Borges J.G., Palma J.H.N., Zuzibarreta-Gerendiain A. (2014)

A decision support system for management planning of Eucalyptus plantations facing climate change

Annals of Forest Science, 71(2): 187-199.

Palma J.H.N., Paulo J.A., Tomé M. (2014)

Carbon sequestration of modern Quercus suber L. silvoarable agroforestry systems in Portugal: a YieldSAFE-based estimation

Agroforestry Systems, 88(5): 791-801.

Yao R.T., Scarpa R., Turner J.A., Barnard T.D., Rose J.M., Palma J.H.N., Harrison D.R. (2014)

Valuing biodiversity enhancement in New Zealand’s planted forests: socioeconomic and spatial determinants of willingness-to-pay

Ecological Economics,98: 90-101.

Garcia-Gonzalo J., Palma J.H.N., Freire J., Tomé M., Mateus R., Rodríguez L. C., Bushenkov V., Borges J. G. (2013)

A decision support system for a multi stakeholder’s decision process in a Portuguese national forest

Foresty Systems, 22(2): 359-373.

Rammer W., Schauflinger C., Vacik H., Palma J.H.N., Garcia-Gonzalo J., Borges J.G., Lexer M.J. (2013)

A web-based ToolBox approach to support adaptive forest management under climate change

Scandinavian Journal of Forest Research, 29(1): 96-107.

Coelho M.B., Paulo J.A., Palma J.H.N., Tomé M. (2012)

Contribution of cork oak plantations installed after 1990 in Portugal to the Kyoto commitments and to the landowners economy

Forest Policy and Economics, 17: 59-68.

Faias S.P., Palma J.H.N., Barreiro S., Paulo J.A., Tomé M. (2012)

sIMfLOR – Platform for the Portuguese forest simulators

Forest Systems, 21 (3): 543-548.

Graves A.R., Burgess P.J., Liagre F., Terreaux J.P., Borrel T., Dupraz C., Palma J.H.N., Herzog F. (2011)

Farm-SAFE: the process of developing a plot- and farm-scale model of arable, forestry, and silvoarable economics

Agroforestry Systems, 81(2): 93-108.

Keesman K., Graves A., van der Werf W., Burgess P., Palma J.H.N., Dupraz C., van Keulen H. (2011)

A system identification approach for developing and parameterising an agroforestry system model under constrained availability of data

Environmental Modelling and Software, 26(12): 1540-1553.

Graves A.R., Burgess P.J., Palma J.H.N., Keesman K., van der Werf W., Dupraz C., van Keulen H., Herzog F., Mayus M., Moreno G. (2010)

Implementation and calibration of the parameter-sparse Yield-SAFE model to predict production and land equivalent ratio in mixed tree and crop systems under two contrasting production situations in Europe

Ecological Modelling, 221(13-14): 1744-1756.


Estudo prospetivo para o setor florestal

Caldeira B., Praxedes J., Santos P.M., Brígido S., Paulo J.A., Palma J.H.N., Pina J.P., Garcia-Gonzalo J., Borges J.G.C., Tomé M., Soares P., Barreiro S., Mendes A.M.S.C., Sottomayor M. (2013)

Associação para a Competitividade da IndĂșstria da Fileira Floresta, 295 p.. URL:

Book Chapters

Tomé, M., Cañellas, I., Bonet, J. A., Paulo, J. A., Palma, J. H. N., Martínez de Aragón, J., Miina, J., Sheppard, J., Kurttila, M., Sanchés-Gonzalez, M., Pasalodos, M., de-Miguel, Sergio. (2019)

Resource and management – Novel management concepts to boost product diversity and secure higher product flows

In: Wolfslehner, B., Prokofieva, I. and Mavsar, R. (editors). Non-wood forest products in Europe: Seeing the forest around the trees. What Science Can Tell Us 10. European Forest Institute. pp 114. . URL:

Tomé, M., Sheppard, J., Alma, M. H., Carrasquinho, I., Christensen, C. J., Hellström, J., Kurttila, M., Marnila, P., Mattila, P., Miina, J., Mutke, S., Paulo, J. A., Palma, J. H., Pihlava, J., Pignatti, G., Sanchéz-Gonzålez, M., Silva, C. S., Soares, P., Vanhanen, H. (2019)

Non-wood tree products in Europe.

In: Harald Vacik, Mike Hale, Heinrich Spiecker, Davide Pettenella & Margarida Tomé (Eds.) 2020: Non-Wood Forest Products in Europe, Ecology and management of mushrooms, tree products, understory plants and animal products, Outcomes of the COST Action FP1203 on European NWFPs, BoD, Norderstedt, 416p.. ISBN: 978-3-7494-7546-9

Borges J.G., Garcia-Gonzalo J., Guerra-Hernandez J., Marques S., Palma J.H.N. (2013)

Chapter IX. A decision support system for forest management planning under climate change

In: Adapting to climate change in European forests – results of the MOTIVE Project. J. Fitzgerald and M. Linder (Eds.). Pensoft, pp. 89-92.. URL:



Estudo e modelação da interação de sobreiros com a vegetação circundante

Duration: 2016-2019

CEF Budget: 156.000 €


Modelação do Sistema Terra no Atlùntico Este

Duration: 2016-2019

CEF Budget: 3120,00€ €


Models and decision SUpport tools for integrated FOrest policy development under global change and associated Risk and UNcertainty

Duration: 2016-2020

CEF Budget: 275333.00 €


AGroFORestry that Will Advance Rural Development

Duration: 2014-2017

CEF Budget: 409.852 €