Atkinson, Rachel J., Thomas, Evert, Roscioli, Federico, Cornelius, Jonathan P., Zamora-Cristales, Rene, Franco Chuaire, Maria, Alcázar, Carolina, Mesén, Francisco, Lopez, Hariet, Ipinza, Roberto, Donoso, Pablo J., Gallo, Leonardo, Nieto, Victor, Ugarte, Julio, Sáenz-Romero, Cuauhtémoc, Fremout, Tobias, Jalonen, Riina, Gaisberger, Hannes, Vinceti, Barbara, Valette, Michel, Bosshard, Ennia, Ekué, Marius, Guerra, Gabriela Wiederkehr, and Kettle, Chris (2021) Seeding resilient restoration: an indicator system for the analysis of tree seed systems. Diversity, 13 (8). 367.

Cornelius, Jonathan P., and Miccolis, Andrew (2018) Can market-based agroforestry germplasm supply systems meet the needs of forest landscape restoration? New Forests, 49 (4). pp. 457-469.

Cornelius, Jonathan P., Pinedo-Ramírez, Roger, Sotelo Montes, Carmen, Ugarte-Guerra, L. Julio, and Weber, John C. (2018) Efficiency of early selection in Calycophyllum spruceanum and Guazuma crinita, two fast-growing timber species of the Peruvian Amazon. Canadian Journal of Forest Research, 48 (5). pp. 517-523.

Page, Tony, Murphy, Miriam E., Mizrahi, Me'ira, Cornelius, Jonathan P., and Venter, Michelle (2016) Sustainability of wood-use in remote forest-dependent communities of Papua New Guinea. Forest Ecology and Management, 382. pp. 88-99.

Dawson, Ian K., Leakey, Roger, Clement, Charles R., Weber, John C., Cornelius, Jonathan P., Roshetko, James M., Vinceti, Barbara, Kalinganire, Antoine, Tchoundjeu, Zacharie, Masters, Eliot, and Jamnadass, Ramni (2014) The management of tree genetic resources and the livelihoods of rural communities in the tropics: non-timber forest products, smallholder agroforestry practices and tree commodity crops. Forest Ecology and Management, 333. pp. 9-21.

Tamla, H.T., Cornelius, J.P., and Page, T. (2012) Reproductive biology of three commercially valuable Santalum species: development of flowers and inflorescences, breeding systems, and interspecific crossability. Euphytica, 184 (3). pp. 323-333.

Leakey, Roger R.B., Weber, John C., Page, Tony, Cornelius, Jonathan P., Akinnifesi, Festus K., Roshetko, James M., Tchoundjeu, Zacharie, and Jamnadass, Ramni (2012) Tree domestication in agroforestry: progress in the second decade (2003-2012). In: Nair, P.K. Ramachandran, and Garrity, Dennis, (eds.) Agroforestry: the future of global land use. Advances in Agroforestry, 9 . Springer, New York City, NY, USA, pp. 145-173.

Weber, J.C,, Sotelo Montes, C., Cornelius, J., and Ugarte-Guerra, J. (2011) Genetic variation in tree growth, stem form and mortality of Guazuma crinita in slower and faster-growing plantations in the Peruvian Amazon. Silvae Genetica, 60 (2). pp. 70-78.

Cornelius, Jonathan, Montes, Sotelo C., Ugarte-Guerra, Julio, and Weber, J.C. (2011) The effectiveness of phenotypic selection in natural populations: a case study from the Peruvian Amazon. Silvae Genetica, 60 (5). pp. 205-209.

Leakey, Roger R.B., and Cornelius, Jonathan P. (2010) Guest editorial. Forests, Trees and Livelihoods, 19 (3). pp. 199-200.

Cornelius, J.P., Weber, J.C., Sotelo-Montes, C., and Ugarte-Guerra, L.J. (2010) Phenotypic correlations and site effects in a Peruvian landrace of peach palm (Bactris gasipaes Kunth). Euphytica, 173 (2). pp. 173-183.

Cornelius, Jonathan P., Mesén, Francisco, Ohashi, Selma, Toyoko, Leão, Noemi, Silva, Claudio Emídio, Ugarte-Guerra, L. Julio, and Wightman, Kevyn E. (2010) Smallholder production of agroforestry germplasm: experiences and lessons from Brazil, Costa Rica, Mexico and Peru. Forests, Trees and Livelihoods, 19 (3). pp. 201-216.

Cornelius, Jonathan P. (2009) The utility of the predictive decapitation test as a tool for early genetic selection for Hypsipyla tolerance in big-leaf mahogany (Swietenia macrophylla King). Forest Ecology and Management, 257 (8). pp. 1815-1821.

Leakey, R.R.B, Nevenimo, T., Moxon, J., Pauku, R., Tate, H, Page, T., and Cornelius, J. (2009) Domestication and improvement of tropical crops for multi-functional farming systems. In: Proceedings of 14th Australasian Plant Breeding Conference and 11th SABRAO Congress. pp. 1-23. From: 14th APBC/11th SABRAO Congress, 10-13 August 2009, Cairns, QLD, Australia.

Cornelius, Jonathan P. (2009) Management and development of agroforestry germplasm in the tropics: an orientation. In: Porro, Roberto, (ed.) Agroforestry Alternatives for an Amazonia in Transition. Embrapa Informação Tecnológica, Brasilia, D.F., Brazil, pp. 517-536.

Guariguata, Manuel R., Cornelius, Jonathan P., Locatelli, Bruno, Forner, Claudio, and Sánchez-Azofeifa, G.Arturo (2008) Mitigation needs adaptation: tropical forestry and climate change. Mitigation and adaptation strategies for global change, 13 (8). pp. 793-808.

de la Torre , Amanda, López, Cesar, Yglesias, Eliana, and Cornelius, Jonathan P. (2008) Genetic (AFLP) diversity of nine Cedrela odorata populations in Madre de Dios, southern Peruvian Amazon. Forest Ecology and Management, 255 (2). pp. 334-339.

Wightman, Kevyn E., Ward, Sheila E., Haggar, Jeremy P., Rodríguez Santiago, Bartolo, and Cornelius, Jonathan P. (2008) Performance and genetic variation of big-leaf mahogany (Swietenia macrophylla King) in provenance and progeny trials in the Yucatan Peninsula of Mexico. Forest Ecology and Management, 255 (2). pp. 346-355.

Clement, Charles R., Cornelius, Jonathan P., Pinedo-Panduro, Mario H., and Yuyama, Kaoru (2007) Native fruit tree improvement in Amazonia: an overview. In: Akinnifesi, Festus K., Leakey, Roger R.B., Ajayi, Oluyede C., Sileshi, Gudeta, Tchoundjeu, Zac, Matakala, Patrick, and Kwesiga, Freddie R., (eds.) Indigenous Fruit Trees in the Tropics: domestication, utilization and commercialization. CAB International, Wallingford, UK, - .

Cornelius, J.P., Clement, C.R., Weber, J.C., Sotelo-Montes, C., Van Leeuwen, J., Ugarte-Guerra, L.J., Ricse-Tembladera, A., and Arevalo-Lopez, L. (2006) The trade-off between genetic gain and conservation in a participatory improvement programme: the case of peach palm (Bactris gasipaes Kunth). Forests, Trees and Livelihoods, 16 (1). pp. 17-34.

Cornelius, J.P., Navarro, C.M., Wightman, K.E., and Ward, S.E. (2005) Is mahogany dysgenically selected? Environmental Conservation, 32 (2). pp. 129-139.

Wightman, Kevyn, Rodríguez Santiago, Bartolo, Ward, Sheila, and Cornelius, Jonathan (2005) Domestication of spanish cedar and mahogany in the Yucatan Peninsula of Mexico: experiences in forest tree germplasm improvement. Recursos Naturales y Ambiente, 44. pp. 119-128.

Cornelius, J.P., Wightman, K.E., Grogan, J.E., and Ward, S.E. (2004) Swietenia (American mahogany). In: Burley, J, Evans, J, and Youngquist, J, (eds.) Encyclopaedia of Forest Science. Elsevier , pp. 1720-1726.

Cornelius, J.P., and Watt, A.D. (2003) Genetic variation in a Hypsipyla-attacked clonal trial of Cedrela odorata under two pruning regimes. Forest Ecology and Management, 183 (1). pp. 341-349.

Watt, Allan D., Newton, Adrian C., and Cornelius, Jonathan P (2003) Resistance to the shoot borer in mahoganies. In: Lugo, Ariel E., Figueroa Colon, Julio C., and Alayón, Mildred, (eds.) Big-leaf mahogany: Genetics, ecology and management. Ecological Studies (159). Springer - Verlag New York, New York, NY, USA, pp. 395-404.