Other Publication Sources

Please feel free to browse Google Scholar and Research Gate for additional information about our work.

Peer-Reviewed Publications

bold = Lab members + students advised by S.J. Fonte; *corresponding author


Visscher, A., C. Wellstein, S. Vanek, A. Bricca, K. Meza, J. Huaraca, R. Ccanto, E. Olivera. J. Loayza, L. Vigil, S. Palomino, M. Scurrah, S. Zerbe. G. Bonari, and S.J. Fonte (2023) Drivers of growth and establishment of the invasive plant Rumex acetosella within Andean fallow systems. Agriculture, Ecosystem and Environment 351: 108446.

Kelly, C., P.F. Byrne, M. Schipanski, J. Schneekloth, F. Calderón, and S.J. Fonte (2023) Soil management legacy interacts with wheat genotype to determine access to organic N in a dryland system. Agriculture, Ecosystem and Environment 345: 108336.

Pantigoso, H., D.K. Manter, S.J. Fonte and J.M. Vivanco. (2023) Root exudate-derived compounds stimulate the phosphorus solubilizing ability of bacteria. Scientific Reports 13: 4050.

Ghimire, R., V.R. Thapa, V. Acosta-Martinez, M. Schipanski, L.C. Slaughter, S.J. Fonte, M. Shukla, P. Bista, S. Angadi, M.M. Mikha, O. Adebayo, and T. Noble Strohm (2023) Soil Health Assessment and Management Framework for Water-Limited Environments: Examples from the Great Plains of USA. Soil Systems 7: 22.

Visscher, A., S.J. Vanek, K. Meza, C. Wellstein, S. Zerbe, R. Ccanto, E. Olivera, M. Scurrah, and S.J. Fonte (2022) Tree-based land uses enhance the provision of ecosystem services in agricultural landscapes of the Peruvian highlands. Agriculture, Ecosystems and Environment 342: 108213.


Caulfield, M., S.J. Vanek, K. Meza, J. Huaraca, J.L. Loayza, S. Palomino, E. Olivera, R. Ccanto, L. Vigil, and S.J. Fonte (2022) Drivers of farmer involvement in experimental forage trials in the Peruvian Andes and implications for participatory research design Experimental Agriculture. Journal of Experimental Agriculture 58: e39 1-19.

Flynn, N., C.E. Stewart, L Comas, S. del Grosso, C. Schnarr, M. Schipanski, J. von Fisher, E. Stuchiner, and S.J. Fonte (2022) Deficit irrigation impacts on greenhouse gas emissions under drip-fertigated maize in the Great Plains of Colorado. Journal of Environmental Quality 51: 877–889.

Wang, D., J.Y Lin, J.M. Sayre, R. Schmidt, and S.J. Fonte, J.L.M. Rodrigues, and K.M. Scow (2022) Compost amendment maintains soil structure and carbon storage by increasing available carbon and microbial biomass in agricultural soil – a six-year field study.  Geoderma 427: 116117.

Nyamsoka-Magonziwa, B., S.J. Vanek, J.O. Ojiem, and S.J. Fonte (2022) Examining the contributions of maize shoots, roots, and manure to stable soil organic carbon pools in tropical smallholder farming soils. Geoderma 425: 116049.

Rieke, E.L., Cappellazzia, S.B., and 100+ authors. Evaluation of aggregate stability methods for soil health. Geoderma 428: 1161156.

Mathieu, J., A.C. Antunes, S. Barot, A.E. Bonato Asato, M.L.C. Bartz, G.G. Brown, I. Calderon-Sanou, T. Decaëns, S.J. Fonte, P. Ganault, B. Gauzens, K.B. Gongalsky, C.A. Guerra, T. Hengl, P. Lavelle, R. Marichal, H. Mehring, C.P. Peña-Venegas, D. Castro, A. Potapov, E. Thébault, W. Thuiller, M. Witjes, C. Zhang, N. Eisenhauer (2022) sOilFauna – a global synthesis effort on the drivers of soil macrofauna communities and functioning. Soil Organisms 94: 111-126.

Pantigoso, H., Y. He, D.K. Manter, S.J. Fonte and J.M. Vivanco (2022). Phosphorus-solubilizing bacteria isolated from the rhizosphere of wild potato Solanum bulbocastanum enhance growth of modern potato varieties. Bulletin of the National Research Centre 46: 224.

Kelly, C., M. Haddix, P. Byrne, M.F. Cotrufo, M. Schipanski, C. Kallenbach, M. Wallenstein, and S.J Fonte (2022). Long-term compost amendment modulates wheat genotype differences in belowground carbon allocation, microbial rhizosphere recruitment and N acquisition. Soil Biology and Biochemistry 172: 108768.

Olayemi, O.P., J.P. Schneekloth, M.D. Wallenstein, P. Trivedi, F.J. Calderón and S.J. Fonte* (2022) Soil macrofauna and microbial communities respond in similar ways to management drivers in an irrigated maize system of Colorado (USA). Applied Soil Ecology 178: 104562.

Sanabria, C.M., S.B. Barot, S.J. Fonte, and F. Dubs. Do morphological traits of ground-dwelling ants respond to land use changes in a neotropical landscape? Geoderma 418: 115841.

Liptzin, D., Norris, C.E., and 100+ authors. An evaluation of carbon indicators of soil health in long-term agricultural experiments. Soil Biology and Biochemistry 172: 108708.

Lavelle, P., J. Mathieu, A. Spain, G. Brown, C. Fragoso, E., Lapied, A. de Aquino, I. Barois, E. Barrios, M. E. Barros, J.C. Bedano, E. Blanchart, M. Caulfield, Y. Chagueza, J. Dai, T. Decaëns, A. Dominguez, Y. Dominguez, A. Feijoo, P. Folgarait, S.J. Fonte, N. Gorosito, E. Huerta, J. J. Jimenez, C. Kelly, G. Loranger, R. Marchão, R. Marichal, C. Praxedes, L. Rodriguez, G. Rousseau, L. Rousseau, C. Sanabria, J.C. Suarez, J.E. Tondoh, A. de Valença, S.J. Vanek, J. Vasquez, E. Velasquez, E. Webster, and C. Zhang (2022) Soil macroinvertebrate communities. A worldwide assessment. Global Ecology and Biogeography 31: 1261–1276.

Bagnall, D.K., Morgan, C.L.S. and 100+ authors (2022) Selecting Soil Hydraulic Properties as Indicators of Soil Health: Measurement Response to Management and Site Characteristics. Soil Science Society of America Journal 86: 1206-1226.

Rieke, E.L., Cappellazzia, S.B., and 100+ authors (2022). Linking soil microbial community structure to potential carbon mineralization: A continental scale assessment of reduced tillage. Soil Biology and Biochemistry 168: 108618.

Bagnall, D.K., Morgan, C.L.S. and 100+ authors (2022). Carbon‐sensitive pedotransfer functions for plant available water. Soil Science Society of America Journal 86: 612-62.

Galindo, V., C. Giraldo, P. Lavelle, I. Armbrecht, and S.J. Fonte* (2022) Land use conversion to agriculture impacts biodiversity, erosion control and key soil properties in an Andean watershed. Ecosphere 13: e3979.

Meza, K., S.J. Vanek, Y. Samudio, E. Olivera, R. Ccanto, M. Scurrah, S.J. Fonte* (2022) Grass-legume mixtures show potential to increase above and belowground biomass production for Andean forage-based fallows. Agronomy 12: 142.

Kelly, C., P. Byrne, M. Haddix, M.F. Cotrufo, M. Wallenstein, C. Kallenbach, M. Schipanski, and S.J Fonte (2022) Divergent belowground carbon patterns of winter wheat shape rhizosphere microbial communities and nitrogen cycling activities Soil Biology and Biochemistry 165: 108518.

Ankrom, K.E., A.L.C. Franco, S.J. Fonte, L.A. Gherardi, C. Milano de Tomasel, C. Wepking, P. Guan, S. Cui, O.E. Sala, and D.H. Wall (2022) Ecological maturity and stability of nematode communities in response to precipitation manipulations in grasslands. Applied Soil Ecology 170: 104263


Wyckhuys, K. H. Nguyen, and S.J. Fonte* (2021) Artefactual depiction of predator-prey trophic linkages in global soils. Scientific Reports 11: 23861.

Caulfield, M., J. Hammond, S.J. Fonte, M.A. Florido, W. Fuentes, K. Meza, I. Navarette, S. Vanek, and M. van Wijk. (2021) Unpicking the inter-relationships between off-farm livelihood diversification, household characteristics, and farm management in the rural Andes. Frontiers in Sustainable Food Systems 5: 724492.

Obour, A., L. Simon, J. Holman, P. Carr, M. Schipanski, S.J. Fonte, R. Ghimire, T. Nleya, and H. Blanco-Canqui. (2021) Cover Crops to Improve Soil Health in the North American Great Plains. Agronomy Journal 113:4590–4604

Nyamsoka-Magonziwa, B., S.J. Vanek, M.S. Carolan, J.O. Ojiem, and S.J. Fonte (2021) Organic nutrient source allocation and use in smallholder farming communities: what are we missing? Frontiers in Sustainable Food Systems 5: 692981.

Eash, L., A. Berrada, K. Russell, and S.J. Fonte (2021) Cover crop impacts on water dynamics and yields in dryland wheat systems on the Colorado Plateau. Agronomy 11: 1102.

Kelly, C., S.J. Fonte, A. Shrestha, K.M. Daane, and J.P. Mitchell (2021) Winter cover crops and no-till promote soil macrofauna communities in irrigated, Mediterranean cropland of California. Applied Soil Ecology 166: 104068.

Liu, J., F.J. Calderón, and S.J. Fonte (2021) Compost inputs, cropping system and rotation phase drive aggregate-associated carbon. Soil Science Society of America Journal 85:829–846.

Kelly, C., M.E. Schipanski, A. Moore, W. Trujillo, J.D. Holman, A. Obour, S.K. Johnson, J.E. Brummer, L. Haag, and S.J. Fonte (2021) Dryland cover crop soil health benefits are maintained with grazing in the U.S. High and Central Plains. Agriculture, Ecosystems and Environment 313: 107358.

Phillips, H.R.P. and 100+ coauthors (2021) Global data on earthworm abundance, biomass, diversity and corresponding environmental properties. Scientific Data: 8:136.

Flynn, N., L Comas, C.E. Stewart, and S.J. Fonte (2021) Deficit irrigation drives maize root distribution and soil microbial communities with implications for soil carbon dynamics. Soil Science Society of America Journal. 85: 412–422.


Deleon, E., T. Bauder, E. Wardle, and S.J. Fonte* (2020) Conservation tillage supports soil macrofauna communities, infiltration, and farm profits in an irrigated maize-based cropping system of Colorado. Soil Science Society of America Journal 84: 1943–1956.

Matos, P, S.J. Fonte, S. Lima, C. Kelly, J. Melo Damian, F. Brasil, R. Tarré, G. Chaer, M. Pereira, and E. Zonta (2020) Linkages among soil properties and litter quality in agroforestry systems of southeastern Brazil. Sustainability 12: 9752.

Kelly, C., M.E. Schipanski, B. Kondratieff, L. Sherrod, J. Schneekloth, and S.J. Fonte (2020) The effect of dryland cropping system intensity on soil function and associated changes in macrofauna communities. Soil Science Society of America Journal 84:1854–1870.

Visscher, A.M., S.J. Vanek, K. Meza, R.G.M de Goede, A.A. Valverde, R. Ccanto, E. Olivera, M. Scurrah, and S.J. Fonte* (2020) Eucalyptus and alder field margins differ in their impact on ecosystem services and biodiversity within cropping fields of the Peruvian Andes. Agriculture, Ecosystems and Environment 303: 107017.

Caulfield, M., J. Hammond, S.J. Fonte, M. van Wijk (2020) Land tenure insecurity constrains cropping system investment in the Jordan Valley of the West Bank. Sustainability 12: 6557.

Ankrom, K.E., A.L.C. Franco, L. S.J. Fonte, A. Gherardi, C.M. de Tomasel, W.S. Andriuzzi, E.A. Shaw, E.M. O.E. Sala, and D.H. Wall (2020) Ecto- and endoparasitic nematodes respond differently across sites to changes in precipitation. Oecologia 193: 761-771.

Nyamsoka-Magonziwa, B, S.J. Vanek, J.O. Ojiem, and S.J. Fonte (2020) A soil tool kit to evaluate soil properties and monitor soil health changes in smallholder farming contexts. Geoderma 376: 114539.

Caulfield, M., S.J. Fonte, P. Tittonell, S. Vanek, S. Sherwood, P. Oyarzun, R. Borja, S. Dumble, and J. Groot. (2020) Inter‐community and on‐farm asymmetric organic matter allocation patterns drive soil fertility gradients in a rural Andean landscape.  Land Degradation and Development 31: 2973-2985.

Schneekloth, J., F. Calderón, D. Nielsen, and S.J. Fonte (2020) Tillage and residue management effects on irrigated Corn (Zea mays) performance and water cycling in a semiarid cropping system of Eastern Colorado. Irrigation Science 38: 547-557.

Peterson, G., D. Westfall, M.E. Schipanski, and S.J. Fonte (2020) Soil and Crop Management Systems that Ameliorate Damage Caused by Decades of Dryland Agroecosystem Mismanagement. Agronomy Journal 112: 3227–3238.

Vanek, S.J., K. Meza, R. Ccanto, E. Olivera, M. Scurrah, and S.J. Fonte (2020) Participatory design of improved forage/fallow options across soil gradients with farmers of the Central Peruvian Andes. Agriculture, Ecosystems and Environment 300: 106933.

Lavelle, P., A. Spain, S.J. Fonte, J.C. Bedano, E. Blanchart, M. Grimaldi, E. Velasquez, V. Galindo, and A. Zangerlé (2020) Soil aggregation, ecosystem engineers and the C cycle. Acta Oecologica 105: 103561.

Reynolds, J.W., W.K. Reeves, O.P. Olayemi, S.J. Fonte, M. Miller and W. Cranshaw (2020) A new look at earthworms (Oligochaeta: Lumbricidae) in Colorado, USA as hosts of the cluster fly Pollenia Rudis F. (Diptera: Calliphoridae). Megadrilogica 25: 107-112.

Caulfield, M., S.J. Fonte, J. Groot, S. Vanek, S. Sherwood; P. Oyarzun, R. Borja, S. Dumble, and P. Tittonell (2020) Agroecosystem patterns and land management co-develop through environment, management and land-use interactions. Ecosphere 11: 103561.

Caulfield, M., J. Groot, S.J. Fonte, S. Sherwood; P. Oyarzun, R. Borja, S. Dumble, and P. Tittonell (2020) Live barriers and associated organic amendments mitigate land degradation and improve crop productivity in hillside agricultural systems of the Ecuadorian Andes. Land Degradation and Development 31: 1650–1661.

Wade, J., G. Maltais-Landry, D.E. Lucas, G. Bongiorno, T.M. Bowles, F.J. Calderón, S.W. Culman, R. Daughtridge, J.G. Ernakovich, S.J. Fonte, D. Giang, B.L. Herman, L. Guan, J.D. Jastrow, B.H.H. Loh, C. Kelly, M.E. Mann; R. Matamala, E.A. Miernicki, B. Peterson, M.M. Pulleman, K.M. Scow, S.S. Snapp, V. Thomas, X. Tu, D. Wang, N.A. Jelinski, G.C. Liles, F.H. Barrios-Masias, M.L. Silveira, and A.J. Margenot. (2020) Assessing the sensitivity and repeatability of permanganate oxidizable carbon as a soil health metric: an interlab comparison across soils. Geoderma 366: 114235.

Ramírez, P.B., F.J. Calderón, S.J. Fonte, F. Santibanez, and C.A. Bonilla (2020) Spectral responses to labile organic carbon fractions as useful soil quality indicators across a climatic gradient. Ecological Indicators 111: 106042.

van Wilk, M., J. Hammond, L. Gorman, S. Adams, A. Ayantunde, D. Baines, A. Bolliger, C. Bosire, P. Carpena, S. Chesterman, A. Chinyophiro, H. Daudi, P. Dontsop, S. Douxchamps, W.D. Emera, S. Fraval, S.J. Fonte, L. Hok, H. Kiara, E. Kihoro, L. Korir, C. Lamanna, C.T.M. Long, G. Manyawu, Z. Mehrabi, D.K. Mengistu, L. Mercado, K. Meza, V. Mora, J. Mutemi, M. Ng’endo, P. Njingulula, C. Okafor, T.Pagella, P. Phengsavanh, J. Rao, R. Ritzema, T.S. Rosenstock, T. Skirrow, J. Steinke, C. Stirling, J.G. Suchini, N. Teufel, P. Thorne, S. Vanek, J. van Etten, B. Vanlauwe, J. Wichern, V.Yameogo (2020) The Rural Household Multiple Indicator Survey, data from 13,310 farm households in 21 countries. Scientific Data 7: 46.


Rocci, K., S.J. Fonte, J. von Fisher, and M.F. Cotrufo. (2019) Nitrogen dynamics in an established alfalfa field under low biochar application rates. Soil Systems 3: 77.

Eash, L., S.J. Fonte, K. Sonder, N. Honsdorf, A. Schmidt, B. Govaerts, and N. Verhulst. (2019) Factors contributing to maize and bean yield gaps in Central America vary with site and agroecological context. Journal of Agricultural Science 157: 300–317.

Phillips, H.R.P., Guerra, C.A., Bartz, M.L.C., and 100+ coauthors (2019) Global distribution of earthworm diversity. Science 366: 480–485.

Webster, E., A.C.M. Gaudin, M. Pulleman, P. Siles, and S.J. Fonte* (2019) Improved pastures support early indicators of soil restoration in low-input agroecosystems of Nicaragua. Environmental Management 64: 201-212.

Melman D.A., C. Kelly, J. Schneekloth, F. Calderón, and S.J. Fonte* (2019) Tillage and residue management drive rapid changes in soil macrofauna communities and soil properties in a semiarid cropping system of Eastern Colorado. Applied Soil Ecology 143: 98-106.

Caulfield, M., J. Bouniol, S.J. Fonte, and A. Kessler (2019) How rural out-migrations drive changes to farm and land management: A case study from the rural Andes. Land Use Policy 81: 594-603.

Fonte, S.J.*, C. Botero, D.C. Quintero, P. Lavelle, and C. van Kessel (2019) Earthworms regulate plant productivity and efficacy of soil fertility amendments in acid soils of the Colombian Llanos. Soil Biology and Biochemistry 129:136-143.

Ramírez, P.B., F.J. Calderón, S.J. Fonte, and C.A. Bonilla (2019) Environmental controls and long-term changes on carbon stocks under agricultural lands. Soil and Tillage Research 186: 310-321.

Garcia E.D., P. Siles, L. Eash, R. van der Hoek, S.M. Smukler, S.P. Kearney, and S.J. Fonte* (2019) Participatory evaluation of improved grasses and forage legumes for smallholder livestock production in Central America. Experimental Agriculture 55:776-792.

Kearney, S.P., S.J. Fonte, E. García, K.M. Chan, P. Siles, and S.M. Smukler (2019) Evaluating ecosystem service trade-offs and synergies from slash-and-mulch agroforestry systems in El Salvador. Ecological Indicators 105: 264-278.


Junaidi, J., C. Kallenbach, P. Byrne, and S.J. Fonte (2018) Root traits and root biomass allocation impact how wheat genotypes respond to organic amendments and earthworms. PLOS One 13:  e0200646.

Rosenzweig, S., S.J. Fonte, and M. Schipanski (2018) Intensifying rotations increases soil carbon, fungi, and aggregation in semi-arid agroecosystems. Agriculture, Ecosystems and Environment 258: 14-22.

Sherrod, L.A., G. McMaster, J.A. Delgado, M.E. Schipanski, S.J. Fonte, R.L. Montenieri, and K. Larson (2018) Soil carbon pools in dryland agroecosystems as impacted by several years of drought. Journal of Environmental Quality 47: 766-773.

Manning, D.T., S. Lurbé, T. Trout, L. Comas, N. Flynn, and S.J. Fonte (2018) Economic viability of deficit irrigation in the Western US. Agricultural Water Management 96: 114-123.

Kearney, S.P., S.J. Fonte, E. García, P. Siles, and S.M. Smukler (2018) Improving the utility of erosion pins: absolute value of pin height change as an indicator of relative erosion rates. Catena 163: 427-432.


Margenot A.J., B.K. Paul, R.R. Sommer, M.M. Pulleman, S.J. Parikh, L.E. Jackson, and S.J. Fonte (2017) Biochemical proxies indicate differences in soil C cycling induced by long-term tillage and residue management in a tropical agroecosystem. Plant and Soil 420: 315-329.

Wyckhuys, K.A.G., D.D. Burra, D.H. Tran, I. Graziosi, A.J. Walter, T.G. Nguyen, H.N. Trong, B.V. Le, T.T.N. Le, and S.J. Fonte (2017) Soil fertility regulates invasive herbivore performance and top-down control in tropical agroecosystems of Southeast Asia. Agriculture, Ecosystems and Environment 249: 38-49.

Kearney, S.P., K.M.A. Chan, N.C. Coops, S.J. Fonte, P. Siles, and S.M. Smukler (2017) Predicting carbon benefits from climate-smart agriculture: high-resolution carbon mapping and uncertainty assessment in El Salvador. Journal of Environmental Management 202: 287-298.

Wang, D., S.J. Fonte, S.J. Parikh, J. Six, and K. Scow (2017) Biochar additions can enhance soil structure and the physical stabilization of C in aggregates. Geoderma 303: 110-117.

de Valença, A.W., S.J. Vanek, K. Meza, R. Ccanto, E. Olivera, M. Scurrah, E.A. Lantinga and S.J. Fonte (2017) Land use as a driver of soil fertility and biodiversity across an agricultural landscape in the Central Peruvian Andes. Ecological Applications 27: 1138-1154.

Margenot, A.J., B.K. Paul, R.R. Sommer, M.M. Pulleman, S.J. Parikh, L.E. Jackson, and S.J. Fonte (2017). Can conservation agriculture improve P availability in weathered soils? Effects of tillage and residue management on soil P status after 9 years in a Kenyan Oxisol. Soil and Tillage Research 166: 157-166.


LaHue, G.T., M.A. Adviento-Borbe, B.A. Linquist, C. van Kessel, and S.J. Fonte (2016) Residual effects of fertilization history increase nitrous oxide emissions from zero-N controls: Implications for estimating fertilizer-induced emission factors. Journal of Environmental Quality 45: 1501-1508.

De Palma, A., S. Abrahamczyk, M.A. Aizen, and 50+ coauthors (2016) Predicting bee community responses to land-use changes: Effects of geographic and taxonomic biases. Scientific Reports 6: 31153.

Lavelle, P., S. Dolédec, X. Arnauld de Sartre, T. Decaëns, V. Gond, M. Grimaldi, J. Oszwald, B. Hubert, B. Ramirez, I. Veiga, S. de Souza, W. Santos de Assis, F. Michelotti, M. Martins, A. Feijoo, P. Bommel, P. Chacon, T. Desjardins, S.J. Fonte, M.P. Hurtado; P. Lena, T. Lima, R. Marichal, D. Mitja, I.Miranda, T. Otero, C. Praxedes, R. Poccard, P. de Robert, G. Rodriguez, C. Sanabria, S. Tselouiko, G. Brown, A. Velasquez, E. Velasquez, and J. Velasquez (2016) Unsustainable landscapes of deforested Amazonia: an analysis of the relationships among landscapes and the social, economic and environmental profiles of farms at different ages following deforestation. Global Environmental Change 40: 137-155.

Murphy, R., J. Six, B. Govaerts, J. Montes, C. van Kessel, and S.J. Fonte (2016) Crop residue retention enhances soil properties and nitrogen cycling in smallholder maize systems of Chiapas, Mexico. Applied Soil Ecology 103: 110-116.

Sanabria, C., F. Dubs, P. Lavelle, S.J. Fonte, and S. Barot (2016) Influence of regions, land uses and soil properties on termite and ant communities in agricultural landscapes of the Colombian Llanos. European Journal of Soil Biology 74:81-92.

Blankinship, J.C., S.J. Fonte, J. Six, and J.P. Schimel (2016) Plant versus microbial controls on soil aggregate stability in a seasonally dry ecosystem. Geoderma 272: 39–50.

2015 and earlier

Nesper, M., E.K. Bünemann, S.J. Fonte, J.E. Velásquez, I.M. Rao, E. Frossard and A. Oberson (2015) Pasture degradation decreases organic P content of tropical soils due to soil structural decline. Geoderma 257-258: 123-133.

Sanabria, C., P. Lavelle, and S.J. Fonte (2014) Ants as indicators of soil-based ecosystem services in agroecosystems of the Colombian Llanos. Applied Soil Ecology 84: 24-30.

Fonte, S.J., D. Hegglin, M. Nesper, J.E. Velásquez, B. Ramirez, I.M. Rao, S. Bernasconi E.K. Bünemann, E. Frossard, and A. Oberson (2014) Pasture degradation impacts soil phosphorus storage via changes to aggregate-associated soil organic matter in highly weathered tropical soils of Caquetá, Colombia. Soil Biology and Biochemistry 68: 150-157.

Hudson, L., T Newbold, and 50+ coauthors (2014) The PREDICTS database: a global database of how local terrestrial biodiversity responds to human impacts. Ecology and Evolution 4: 4701-4735.

Lavelle, P., N. Rodríguez , O. Arguello, J. Bernal, C. Botero, P. Chaparro, Y. Gómez, A. Gutiérrez, M.P. Hurtado, S. Loaiza, E. Rodríguez, C. Sanabria, E. Velásquez, and S.J. Fonte (2014) Soil ecosystem services and land use in the rapidly changing Orinoco River Basin of eastern Colombia. Agriculture, Ecosystems, and Environment 185: 106-117.

Lubbers, I., K.J. van Groenigen, S.J. Fonte, J. Six, L. Brussaard, and J.W. van Groenigen (2013) Greenhouse gas emissions from soils increased by earthworms. Nature Climate Change 3: 187-194.

Rousseau, L., S.J. Fonte, O. Téllez, R. van der Hoek and P. Lavelle (2013) Soil macrofauna as indicators of soil quality and land use impacts in smallholder agroecosystems of western Nicaragua. Ecological Indicators 27: 71–82.

Fonte, S.J., D.C. Quintero, E. Velásquez, and P. Lavelle (2012) Interactive effects of earthworms and plants on the physical stabilization of soil organic matter. Plant and Soil, 359: 205-214.

Kearney, S., S.J. Fonte, A. Salomon, J. Six, and K.M. Scow (2012). Forty percent revenue increase by combining organic and mineral nutrient amendments in Ugandan smallholder market vegetable production. Agronomy for Sustainable Development, 32: 831-839.

Fonte, S.J., S. Vanek, P. Oyarzun, S. Parsa, I. Rao, D.C. Quintero, and P. Lavelle. (2012) Pathways to agroecological intensification of soil fertility management by smallholder farmers in the Andean highlands. Advances in Agronomy 116: 125-184.

Velásquez, E., S.J. Fonte, S. Barot, M. Grimaldi, T. Desjardins, and P. Lavelle. (2012) Soil macrofauna-mediated impacts of plant species composition on soil functioning in Amazonian pastures. Applied Soil Ecology 56: 43-50.

Schowalter, T.D., S.J. Fonte, J. Geaghan and J. Wang (2011) Effects of manipulated herbivore inputs on nutrient flux and decomposition in a tropical rainforest in Puerto Rico. Oecologia 176: 1141-1149.

Briar, S.S., S.J. Fonte, I. Park, J. Six, K.M. Scow, and H. Ferris (2011) The distribution of nematodes and soil microbial communities across soil aggregate fractions and farm management systems. Soil Biology and Biochemistry 43: 905-914.

Fonte, S.J. and J. Six (2010) Earthworms and litter management contributions to ecosystem services in a tropical agroforestry system. Ecological Applications 20: 1061-1073.

Fonte, S.J., E. Barrios, and J. Six (2010) Earthworms, soil fertility and aggregate-associated organic matter dynamics in the Quesungual agroforestry system of western Honduras. Geoderma 155: 320-328.

Fonte, S.J., E. Barrios, and J. Six (2010) Earthworm impacts on soil organic matter and fertilizer dynamics in tropical hillside agroecosystems of Honduras. Pedobiologia 53: 327-335.

Smukler, S.M., S. Sánchez-Moreno, S.J. Fonte, H. Ferris, K. Klonsky, A.T. O’Geen, K.M. Scow, K.L. Steenwerth, and L.E. Jackson. (2010) Biodiversity and multiple ecosystem functions in an organic farmscape. Agriculture, Ecosystems and Environment 139: 80-97.

Fonte, S.J., E. Yeboah, P. Ofori, G.W. Quansah, B. Vanlauwe, and J. Six (2009) Fertilizer and residue quality effects on organic matter stabilization in soil aggregates. Soil Science Society of America Journal 73: 961-966.

Kong, A.Y.Y., S.J. Fonte, C. van Kessel, and J. Six (2009) Transitioning from standard to minimum tillage: Trade-offs between soil organic matter stabilization, nitrous oxide emissions, and N availability in irrigated cropping systems. Soil and Tillage Research 104: 256-262.

Fonte, S.J., T. Winsome, and J. Six (2009) Earthworm populations in relation to soil organic matter dynamics and management in California tomato cropping systems. Applied Soil Ecology 41: 206-214.

Fonte, S.J., A.Y.Y. Kong, C. van Kessel, P.F. Hendrix and J. Six (2007) Influence of earthworm activity on aggregate-associated carbon and nitrogen dynamics differs with agroecosystem management. Soil Biology and Biochemistry 39: 1014-1022.

Kong, A.Y.Y., S.J. Fonte, C. van Kessel, and J. Six (2007) Soil aggregates control N cycling efficiency in long-term conventional and alternative cropping systems. Nutrient Cycling in Agroecosystems 79: 45 -58.

Fonte, S.J. and T.D. Schowalter (2005) The influence of a neotropical herbivore (Lamponius portoricensis) on nutrient cycling and soil processes. Oecologia 146: 423-431.

Fonte, S.J. and T.D. Schowalter (2004) Decomposition of greenfall vs. senescent foliage in a tropical forest ecosystem in Puerto Rico. Biotropica 36: 474-482.

Rinker, H.B., M.D. Lowman, M.D. Hunter, T.D. Schowalter, and S.J. Fonte (2001) Literature review: canopy herbivory and soil ecology, the top-down impact of forest processes. Selbyana 22:225-231.