Silman Lab--Publications

Aguirre-Gutiérrez, J., S. Díaz, S. W. Rifai, J. J. Corral-Rivas, M. G. Nava-Miranda, R. González-M, A. B. Hurtado-M, N. S. Revilla, E. Vilanova, M. R. Silman and E. Almeida. 2025. Tropical forests in the Americas are changing too slowly to track climate change. Science 387:eadl5414.

Aguirre-Gutiérrez, J., S. W. Rifai, X. Deng, H. Ter Steege, E. Thomson, J. J. Corral-Rivas, A. F. Guimaraes, S. Muller, J. Klipel, M. R. Silman, and S. Fauset. 2025. Canopy functional trait variation across Earth’s tropical forests. Nature:1–8.

Cui, K., W. Tang, R. Zhu, M. Wang, G. D. Larsen, V. P. Pauca, S. Alqahtani, F. Yang, D. Segurado, P. Fine and M. R. Silman. 2025. Efficient Localization and Spatial Distribution Modeling of Canopy Palms Using UAV Imagery. IEEE Transactions on Geoscience and Remote Sensing.

Cui, K., R. Zhu, M. Wang, W. Tang, G. D. Larsen, V. P. Pauca, S. Alqahtani, F. Yang, D. Segurado, D. Lutz, and M. R. Silman. 2025b. Detection and geographic localization of natural objects in the wild: A case study on palms. arXiv preprint arXiv:2502.13023.

Farfan-Rios, W., K. J. Feeley, J. A. Myers, S. Tello, J. Sallo-Bravo, Y. Malhi, O. L. Phillips, T. R. Baker, A. Nina-Quispe, K. Garcia-Cabrera, and M. R. Silman. 2025. Amazonian and Andean tree communities are not tracking current climate warming. Proceedings of the National Academy of Sciences 122:e2425619122.

Farfan‐Rios, W., S. Saatchi, I. Oliveras Menor, Y. Malhi, C. M. Robinson, O. L. Phillips, A. Nina‐Quispe, J. A. Gibaja, I. Cuba, K. Garcia‐Cabrera, and M. R. Silman. 2025. Wood density variation across an Andes‐to‐Amazon elevational gradient. Journal of Ecology 113:2370–2385.

Fischer, F. J., B. Morgan, T. Jackson, J. Chave, D. Coomes, K. C. Cushman, R. Dalagnol, M. Dalponte, L. Duncanson, M. R. Silman and S. Saatchi. 2025. The Global Canopy Atlas: analysis-ready maps of 3D structure for the world’s woody ecosystems. bioRxiv:2025.08. 31.673375.

Gupta, D., A. Golder, S. Sidheekh, S. Imtiaz, S. Alaqahtani, F. Yang, G. Larsen, M. R. Silman, L. Fernendez, and R. Plemmons. 2025. Scalable Knowledge Graph Construction from Unstructured Text: A Case Study on Artisanal and Small-Scale Gold Mining. Pages 469–481 Pacific-Asia Conference on Knowledge Discovery and Data Mining. Springer Nature Singapore Singapore.

McElhinny, J. S., G. D. Larsen, M. Messinger, C. H. Newbolt, A. Whitworth, S. S. Ditchkoff, M. R. Silman, and J. T. Beaver. 2025. Experimental assessment of large mammal population estimates from airborne thermal videography. bioRxiv:2024.12. 31.630817.

Moulatlet, G. M., M. V. Capparelli, C. Thomas, B. Boyle, X. Feng, A. E. Frazier, C. Hinojo-Hinojo, J. Herrera-Pérez, L. N. Kajiki, M. R. Silman, and A. M. Lechner. 2025. Amazon biodiversity is at risk from metal contamination due to mining activity. bioRxiv:2025.05. 21.654597.

Quinlan, E. J., C. A. Layman, and M. R. Silman. 2025a. Climate‐Mediated Hybridisation and the Future of Andean Forests. Journal of Biogeography 52:e15113.

Quinlan, E. J., D. A. Neill, G. Rivas-Torres, and M. R. Silman. 2025b. Assessing rarity: genomic insights for population assessments and conservation of the most poorly known Neotropical trees. Biological Conservation 309:111280.

Quinlan, E. J., J. B. Pease, J. Sallo Bravo, W. Farfan Rios, and M. R. Silman. 2025c. Upslope diversification and gene flow among congeneric Andean trees. bioRxiv:2025.09. 22.677938.

Sanchez‐Martinez, P., K. G. Dexter, F. C. Draper, C. Baraloto, I. Leão do Amaral, L. de Souza Coelho, F. D. de Almeida Matos, D. de Andrade Lima Filho, R. P. Salomão, M. R. Silman, and F. Wittmann. 2025. Phylogenetic conservatism in the relationship between functional and demographic characteristics in Amazon tree taxa. Functional Ecology 39:181–198.

Sullivan, M. J., O. L. Phillips, D. Galbraith, E. Almeida, E. A. de Oliveira, J. Almeida, E. Á. Dávila, L. F. Alves, A. Andrade, M. R. Silman, and L. Aragão. 2025. Variation in wood density across South American tropical forests. Nature Communications 16:2351.

Ter Steege, H., L. Poorter, J. Aguirre-Gutiérrez, C. Fortunel, W. E. Magnusson, O. L. Phillips, E. Pos, B. G. Luize, C. Baraloto, M. R. Silman,..., and J. E. Guevara. 2025. Functional composition of the Amazonian tree flora and forests. Communications Biology 8:355.

Timana‐Mendoza, C., A. Reyes‐Calderón, P. Venail, R. Britzke, M. C. Santa‐Maria, J. M. Araújo‐Flores, M. R. Silman, and L. E. Fernandez. 2025. Hydrological Connectivity Enhances Fish Biodiversity in Amazonian Mining Ponds: Insights From eDNA and Traditional Sampling. Molecular Ecology 34:e17784.

Ward, R. E., H. Zhang‐Zheng, K. Abernethy, S. Adu‐Bredu, L. Arroyo, A. Bailey, J. Barlow, E. Berenguer, L. Chesini‐Rossi, M. R. Silman, and P. Cho. 2025. Forest age rivals climate to explain reproductive allocation patterns in forest ecosystems globally. Ecology Letters 28:e70191.

Zhu, R., K. Cui, W. Tang, R.-F. Wang, S. Alqahtani, D. Lutz, F. Yang, P. Fine, J. Karubian, R. Plemmons, and M. R. Silman. 2025. From Orthomosaics to Raw UAV Imagery: Enhancing Palm Detection and Crown-Center Localization. arXiv preprint arXiv:2509.12400.

Luize, B. G., Bauman, D., ter Steege, H., Palma-Silva, C., do Amaral, I. L., de Souza Coelho, L., de AlmeidaCooper, D. L., S. L. Lewis, M. J. Sullivan, P. I. Prado, H. Ter Steege, N. Barbier, F. Slik, B. Sonké, C. E. Ewango, M. R. Silman, and S. Adu-Bredu. 2024. Consistent patterns of common species across tropical tree communities. Nature 625:728–734.

Cui, K., Z. Shao, G. Larsen, V. Pauca, S. Alqahtani, D. Segurado, J. Pinheiro, M. Wang, D. Lutz, R. Plemmons, and M. R. Silman. 2024. Palmprobnet: A probabilistic approach to understanding palm distributions in ecuadorian tropical forest via transfer learning. Pages 272–277 Proceedings of the 2024 ACM Southeast Conference.

Cui, K., W. Tang, R. Zhu, M. Wang, G. D. Larsen, V. P. Pauca, S. Alqahtani, F. Yang, D. Segurado, P. Fine, and M. R. Silman. 2024. Real-time localization and bimodal point pattern analysis of palms using uav imagery. arXiv preprint arXiv:2410.11124.

Engstrand, R. C., J. C. Espejo, M. R. Silman, and G. P. Asner. 2024. Repeated mining accounts for the majority of artisanal and small-scale gold mining activity in Southeastern Peru. Environmental Research Letters 19:064036.

Gupta, D., A. Golder, L. Fernendez, M. Silman, G. Lersen, F. Yang, B. Plemmons, S. Alqahtani, and P. V. Pauca. 2024. ASGM-KG: Unveiling Alluvial Gold Mining Through Knowledge Graphs. arXiv preprint arXiv:2408.08972.

Halbritter, A. H., V. Vandvik, S. H. Cotner, W. Farfan-Rios, B. S. Maitner, S. T. Michaletz, I. Oliveras Menor, R. J. Telford, A. Ccahuana, M. R. Silman, and R. Cruz. 2024. Plant trait and vegetation data along a 1314 m elevation gradient with fire history in Puna grasslands, Perú. Scientific Data 11:225.

Householder, J. E., F. Wittmann, J. Schöngart, M. T. F. Piedade, W. J. Junk, E. M. Latrubesse, A. C. Quaresma, L. O. Demarchi, G. de S. Lobo, M. R. Silman, and D. P. de Aguiar. 2024. One sixth of Amazonian tree diversity is dependent on river floodplains. Nature ecology & evolution 8:901–911.

Journé, V., M. Bogdziewicz, B. Courbaud, G. Kunstler, T. Qiu, M.-C. A. Acuña, D. Ascoli, Y. Bergeron, D. Berveiller, M. R. Silman, and T. Boivin. 2024. The relationship between maturation size and maximum tree size from tropical to boreal climates. Ecology letters 27:e14500.

Luize, B. G., D. Bauman, H. Ter Steege, C. Palma‐Silva, I. L. Do Amaral, L. de Souza Coelho, F. D. de Almeida Matos, D. de Andrade Lima Filho, R. P. Salomão, M. R. Silman, and F. Wittmann. 2024a. Geography and ecology shape the phylogenetic composition of Amazonian tree communities. Journal of Biogeography 51:1163–1184.

Luize, B. G., H. Tuomisto, R. Ekelschot, K. G. Dexter, I. L. do Amaral, L. de S. Coelho, F. D. de A. Matos, D. de A. Lima Filho, R. P. Salomão, M. R. Silman, and F. Wittmann. 2024b. The biogeography of the Amazonian tree flora. Communications biology 7:1240.

Pisconte, J. N., C. M. Vega, C. J. Sayers, C. S. Sevillano-Ríos, M. Pillaca, E. Quispe, V. Tejeda, C. Ascorra, M. R. Silman, and L. E. Fernandez. 2024. Elevated mercury exposure in bird communities inhabiting Artisanal and Small-Scale Gold Mining landscapes of the southeastern Peruvian Amazon. Ecotoxicology 33:472–483.

Portillo, A., C. M. Vega, J. L. Mena, E. Bonifaz, C. Ascorra, M. R. Silman, and L. E. Fernandez. 2024. Mercury bioaccumulation in bats in Madre de Dios, Peru: implications for Hg bioindicators for tropical ecosystems impacted by artisanal and small-scale gold mining. Ecotoxicology 33:457–469.

Rodriguez-Pascual, M. J., C. M. Vega, N. Andrade, L. E. Fernández, M. R. Silman, and A. Torrents. 2024. Hg distribution and accumulation in soil and vegetation in areas impacted by artisanal gold mining in the Southern Amazonian region of Madre de Dios, Peru. Chemosphere 361:142425.

Matos, F. D., de Andrade Lima Filho, D., Salomão, R. P., Wittmann, F., Silman, M. R. …& others. (2024). Geography and ecology shape the phylogenetic composition of Amazonian tree communities. Journal of Biogeography.

Dethier, E. N., Silman, M., Leiva, J. D., Alqahtani, S., Fernandez, L. E., Pauca, P., Çamalan, S., Tomhave, P., Magilligan, F. J., Renshaw, C. E., & others. 2023. A global rise in alluvial mining increases sediment load in tropical rivers. Nature, 620(7975), 787–793.

Freund, C. A., & Silman, M. R. 2023. Developing a more complete understanding of tropical montane forest disturbance ecology through landslide research. Frontiers in Forests and Global Change, 6, 1091387.

Baldwin, R. W., Beaver, J. T., Messinger, M., Muday, J., Windsor, M., Larsen, G. D., Silman, M. R., & Anderson, T. M. (2023). Camera trap methods and drone thermal surveillance provide reliable, comparable density estimates of large, free-ranging ungulates. Animals, 13(11), 1884

Dethier, E. N., Silman, M. R., Fernandez, L. E., Espejo, J. C., Alqahtani, S., Pauca, P., & Lutz, D. A. 2023. Operation mercury: Impacts of national-level armed forces intervention and anticorruption strategy on artisanal gold mining and water quality in the Peruvian Amazon. Conservation Letters, e12978.

Pisconte, J. N., Vega, C. M., Pillaca-Ortiz, J. M., Quispe, E., Sevillano-R\’\ios, C. S., Tejeda, V., Ascorra, C., Silman, M. R., & Fernandez, L. E. 2023. Elevated mercury exposure to bird communities inhabiting Artisanal and Small-Scale Gold Mining landscapes of the southeastern Peruvian Amazon.

Whitworth, A., Pinto, C., Ortiz, J., Flatt, E., & Silman, M. (2022). Flight speed and time of day heavily influence rainforest canopy wildlife counts from drone-mounted thermal camera surveys. Biodiversity and Conservation, 31(13–14), 3179–3195

Blackburn, K. W., Libohova, Z., Adhikari, K., Kome, C., Maness, X., & Silman, M. R. 2022. Influence of Land Use and Topographic Factors on Soil Organic Carbon Stocks and Their Spatial and Vertical Distribution. Remote Sensing, 14(12), 2846.

Gerson, J. R., Szponar, N., Zambrano, A. A., Bergquist, B., Broadbent, E., Driscoll, C. T., ... Silman, M. R., …& Bernhardt, E. S. 2022. Amazon forests capture high levels of atmospheric mercury pollution from artisanal gold mining. Nature Comm. 13(1), 1-10.

Bilodeau, S. M., Schwartz, A. W., Xu, B., Paúl Pauca, V., & Silman, M. R. 2022. A low-cost, long-term underwater camera trap network coupled with deep residual learning image analysis. Plos One, 17(2), e0263377.

Silman, A. K., Chhabria, R., Hafzalla, G. W., Giffin, L., Kucharski, K., Myers, K., Culquichicón, C., Montero, S., Lescano, A. G., Vega, C. M., Silman, M. R.& others. (2022). Impairment in Working Memory and Executive Function Associated with Mercury Exposure in Indigenous Populations in Upper Amazonian Peru. International Journal of Environmental Research and Public Health, 19(17), 10989.

Camalan, S., Cui, K., Pauca, V. P., Alqahtani, S., Silman, M., Chan, R., ... & Lutz, D. A. 2022. Change detection of Amazonian alluvial gold mining using deep learning and sentinel-2 imagery. Remote Sensing, 14(7), 1746.

Qiu, T., Andrus, R., Aravena, M. C., Ascoli, D., Bergeron, Y., Berretti, R., ... Silman, M. R., … & Clark, J. S. 2022. Limits to reproduction and seed size-number trade-offs that shape forest dominance and future recovery. Nature Communications, 13(1), 1-12.

Aguirre‐Gutiérrez, J., Berenguer, E., Oliveras Menor, I., Bauman, D., Corral-Rivas, J. J., Nava-Miranda, M. G., ... Silman, M. R., … & Malhi, Y. 2022. Functional susceptibility of tropical forests to climate change. Nature Ecology & Evolution, 1-12.

Journé, V., Andrus, R., Aravena, M. C., Ascoli, D., Berretti, R., Berveiller, D., ... Silman, M. R., … & Clark, J. S. 2022. Globally, tree fecundity exceeds productivity gradients. Ecology Letters, 25(6), 1471-1482.

Wieczynski, D. J., Díaz, S., Durán, S. M., Fyllas, N. M., Salinas, N., Martin, R. E., Silman, M. R.... & Savage, V. M. 2022. Improving landscape‐scale productivity estimates by integrating trait‐based models and remotely‐sensed foliar‐trait and canopy‐structural data. Ecography, e06078.

Cui, K., Camalan, S., Li, R., Pauca, V. P., Alqahtani, S., Plemmons, R. J., Silman, M. R., ... & Chan, R. H. 2022. Semi-supervised Change Detection of Small Water Bodies Using RGB and Multispectral Images in Peruvian Rainforests. arXiv:2206.09365.

Aguirre-Gutiérrez, J., S. Rifai, A. Shenkin, I. Oliveras, L. P. Bentley, M. Svátek, C. A. J. Girardin, S. Both, T. Riutta, E. Berenguer, …R. E. Martin, P. S. Morandi, O. L. Phillips, C. A. Quesada, N. Salinas, B. Schwantes Marimon, M. Silman, Y. A. Teh, L. J. T. White, and Y. Malhi. 2021. Pantropical modelling of canopy functional traits using Sentinel-2 remote sensing data. Remote Sensing of Environment 252:112122.

Araújo-Flores, J. M., J. Garate-Quispe, J. García Molinos, J. M. Pillaca-Ortiz, J. Caballero-Espejo, C. Ascorra, M. Silman, and L. E. Fernandez. 2021. Seasonality and aquatic metacommunity assemblage in three abandoned gold mining ponds in the southwestern Amazon, Madre de Dios (Peru). Ecological Indicators 125:107455.

Baker, T. R., E. Vicuña Miñano, K. Banda-R, D. del Castillo Torres, W. Farfan-Rios, I. T. Lawson, E. Loja Alemán, N. Pallqui Camacho, M. R. Silman, K. H. Roucoux, O. L. Phillips, E. N. Honorio Coronado, A. Monteagudo Mendoza, and R. Rojas Gonzáles. 2021. From plots to policy: How to ensure long-term forest plot data supports environmental management in intact tropical forest landscapes. Plants, People, Planet 3:229–237.

Bilodeau, S. M., C. A. Layman, and M. R. Silman. 2021. Benthic pattern formation in shallow tropical reefscapes: does grazing explain grazing halos? Landscape Ecology 36:1605–1620. Bilodeau, S. M., A. W. H. Schwartz, B. Xu, V. P. Pauca, and M. R. Silman. 2021. A low-cost, long-term underwater camera trap network coupled with deep residual learning image analysis. bioRxiv.

Blundo, C., Carilla, J., Grau, R., Malizia, A., Malizia, L., Osinaga-Acosta, O., ... & De Araujo, R. O. 2021. Taking the pulse of Earth's tropical forests using networks of highly distributed plots. Biological Conservation, 260, 108849.

Duque, A., M. A. Peña, F. Cuesta, S. González-Caro, P. Kennedy, O. L. Phillips, M. Calderón-Loor, C. Blundo, J. Carilla, L. Cayola, W. Farfán-Ríos, A. Fuentes, R. Grau, J. Homeier, M. I. Loza-Rivera, Y. Malhi, A. Malizia, L. Malizia, J. A. Martínez-Villa, J. A. Myers, O. Osinaga-Acosta, M. Peralvo, E. Pinto, S. Saatchi, M. Silman, J. S. Tello, A. Terán-Valdez, and K. J. Feeley. 2021. Mature Andean forests as globally important carbon sinks and future carbon refuges. Nature Communications 2021 12:1 12:1–10.

Fadrique, B., P. Santos-Andrade, W. Farfan-Rios, N. Salinas, M. Silman, and K. J. Feeley. 2021. Reduced tree density and basal area in Andean forests are associated with bamboo dominance. Forest Ecology and Management 480:118648.

Freund, C. A., K. E. Clark, J. F. Curran, G. P. Asner, and M. R. Silman. 2021. Landslide age, elevation and residual vegetation determine tropical montane forest canopy recovery and biomass accumulation after landslide disturbances in the Peruvian Andes. Journal of Ecology 109:3555–3571.

Griffiths, A. R., M. R. Silman, W. Farfán Rios, K. J. Feeley, K. García Cabrera, P. Meir, N. Salinas, and K. G. Dexter. 2021. Evolutionary heritage shapes tree distributions along an Amazon-to-Andes elevation gradient. Biotropica 53.

Griffiths, A. R., M. R. Silman, W. Farfan-Rios, K. J. Feeley, K. G. Cabrera, P. Meir, N. Salinas, R. A. Segovia, and K. G. Dexter. 2021. Evolutionary Diversity Peaks at Mid-Elevations Along an Amazon-to-Andes Elevation Gradient. Frontiers in Ecology and Evolution 9.

Huaraca Huasco, W., T. Riutta, C. A. J. Girardin, F. Hancco Pacha, …M. Silman, R. M. Ewers, P. Meir, and Y. Malhi. 2021. Fine root dynamics across pantropical rainforest ecosystems. Global Change Biology 27:3657–3680.

Lefebvre, D., A. G. Williams, G. J. D. Kirk, Paul, J. Burgess, J. Meersmans, M. R. Silman, F. Román-Dañobeytia, J. Farfan, and P. Smith. 2021. Assessing the carbon capture potential of a reforestation project. Scientific Reports 2021 11:1 11:1–10.

Linan, A. G., J. A. Myers, C. E. Edwards, A. E. Zanne, S. A. Smith, G. Arellano, L. Cayola, W. Farfan-Ríos, A. F. Fuentes, K. García-Cabrera, S. González-Caro, M. I. Loza, M. J. Macía, Y. Malhi, B. Nieto-Ariza, N. Salinas, M. R. Silman, and J. S. Tello. 2021b. The evolutionary assembly of forest communities along environmental gradients: recent diversification or sorting of pre-adapted clades? New Phytologist 232:2506–2519

Pos, E., L. de S. Coelho, D. de A. L. Filho, R. P. Salomão, I. L. Amaral, F. D. de A. Matos, C. v. Castilho, O. L. Phillips, …M. R. Silman, J. S. Tello, J. Chave, F. C. Valverde, A. di Fiore, R. R. Hilário, J. F. Phillips…L. Poorter, and H. ter Steege. 2021. The Maximum Entropy Formalism of statistical mechanics in a biological application: a quantitative analysis of tropical forest ecology. bioRxiv:2021.03.31.437717.

Qiu, T., M. C. Aravena, R. Andrus, D. Ascoli, Y. Bergeron, R. Berretti, M. Bogdziewicz, T. Boivin, R. Bonal, T. Caignard, R. Calama, J. J. Camarero, C. J. Clark, B. Courbaud, S. Delzon, S. D. Calderon, W. Farfan-Rios, C. A. Gehring, G. S. Gilbert, C. H. Greenberg, Q. Guo, J. H. R. Lambers, K. Hoshizaki, I. Ibanez, V. Journé, C. L. Kilner, R. K. Kobe, W. D. Koenig, G. Kunstler, J. M. LaMontagne, M. Ledwon, J. A. Lutz, R. Motta, J. A. Myers, T. A. Nagel, C. L. Nuñez, I. S. Pearse, Ł. Piechnik, J. R. Poulsen, R. Poulton-Kamakura, M. D. Redmond, C. D. Reid, K. C. Rodman, C. L. Scher, H. S. van Marle, B. Seget, S. Sharma, M. R. Silman, J. J. Swenson, M. Swift, M. Uriarte, G. Vacchiano, T. T. Veblen, A. v. Whipple, T. G. Whitham, A. P. Wion, S. J. Wright, K. Zhu, J. K. Zimmerman, M. Zywiec, and J. S. Clark. 2021. Is there tree senescence? The fecundity evidence. Proceedings of the National Academy of Sciences of the United States of America 118.

Román-Dañobeytia, F., F. Cabanillas, D. Lefebvre, J. Farfan, J. Alferez, F. Polo-Villanueva, J. Llacsahuanga, C. M. Vega, M. Velasquez, R. Corvera, E. Condori, C. Ascorra, L. E. Fernandez, and M. R. Silman. 2021. Survival and early growth of 51 tropical tree species in areas degraded by artisanal gold mining in the Peruvian Amazon. Ecological Engineering 159.

Salinas, N., E. G. Cosio, M. R. Silman, P. Meir, A. T. Nottingham, R. M. Roman-Cuesta, and Y. Malhi. 2021. Editorial: Tropical Montane Forests in a Changing Environment. Frontiers in Plant Science 12. van der Sande, M. T., M. B. Bush, D. H. Urrego, M. R. Silman, W. Farfan-Rios, K. García Cabrera, A. Shenkin, Y. Malhi, C. H. McMichael, and W. Gosling. 2021. Modern pollen rain predicts shifts in plant trait composition but not plant diversity along the Andes–Amazon elevational gradient. Journal of Vegetation Science 32:e12925.

Velásquez Ramírez, M. G., C. M. Vega Ruiz, R. C. Gomringer, M. Pillaca, E. Thomas, P. M. Stewart, L. A. Gamarra Miranda, F. R. Dañobeytia, J. A. Guerrero Barrantes, M. C. Gushiken, J. V. Bardales, M. R. Silman, L. Fernandez, C. Ascorra, and D. del C. Torres. 2021. Mercury in soils impacted by alluvial gold mining in the Peruvian Amazon. Journal of Environmental Management 288:112364.

Zapata-Ríos G, Andreazzi CS, Carnaval AC, Doria CRC, Duponchelle F, Flecker A, Guayasamín JM, Heilpern S, Jenkins CN, Maldonado C, Meneghelli D, Miranda G, Moraes R M, Silman M. R., Silveira MAPA, Tabet G, Trujillo F, Ulloa Ulloa C, Arieira J. 2021. Chapter 3: Biological Diversity and Ecological Networks in the Amazon. In: Nobre C, Encalada A, et al. (Eds). Amazon Assessment Report 2021. United Nations Sustainable Development Solutions Network, New York, USA. Available from https://www.theamazonwewant.org/spa-reports/

Moraes R M, Correa SB, Doria CRC, Duponchelle F, Miranda G, Montoya M, Phillips OL, Salinas N, Silman M. R., Ulloa Ulloa C, Zapata-Ríos G, Arieira J, ter Steege H. 2021. Chapter 4: Biodiversity and Ecological Functioning in the Amazon. In: Nobre C, Encalada A, et al. (Eds). Amazon Assessment Report 2021. United Nations Sustainable Development Solutions Network, New York, USA. Available from https://www.theamazonwewant.org/spa-reports/

Beaver, J.T., Baldwin, R.W., Messinger, M., Newbolt, C.H., Ditchkoff, S.S. and Silman, M.R., 2020. Evaluating the Use of Drones Equipped with Thermal Sensors as an Effective Method for Estimating Wildlife. Wildlife Society Bulletin. doi.org/10.1002/wsb.1090

Linan, A. G., J. A. Myers, C. E. Edwards, A. E. Zanne, S. A. Smith, G. Arellano, L. Cayola, W. Farfan-Ríos, A. F. Fuentes, K. Garcia-Cabrera, S. Gonzales-Caro, M. I. Loza, M. J. Macía, Y. Malhi, B. Nieto-Ariza, N. S. Revilla, M. R. Silman, and J. S. Tello. 2020. The evolutionary assembly of forest communities along environmental gradients: recent diversification or sorting of pre-adapted clades? bioRxiv:2020.12.22.424032.

Malizia, A., C. Blundo, J. Carilla, O. O. Acosta, F. Cuesta, A. Duque, N. Aguirre, Z. Aguirre, M. Ataroff, S. Baez, M. Calderón-Loor, L. Cayola, L. Cayuela, S. Ceballos, H. Cedillo, W. F. Ríos, K. J. Feeley, A. F. Fuentes, L. E. Gámez Álvarez, R. Grau, J. Homeier, O. Jadan, L. D. Llambi, M. I. L. Rivera, M. J. Macía, Y. Malhi, L. Malizia, M. Peralvo, E. Pinto, S. Tello, M. R. Silman, and K. R. Young. 2020. Elevation and latitude drives structure and tree species composition in Andean forests: Results from a large-scale plot network. PLOS ONE 15:e0231553.

Shenkin, A., L. P. Bentley, I. Oliveras, N. Salinas, S. Adu-Bredu, B. H. Marimon-Junior, B. S. Marimon, T. Peprah, E. L. Choque, L. Trujillo Rodriguez, E. R. Clemente Arenas, C. Adonteng, J. Seidu, F. B. Passos, S. M. Reis, B. Blonder, M. R. Silman, B. J. Enquist, G. P. Asner, and Y. Malhi. 2020. The Influence of Ecosystem and Phylogeny on Tropical Tree Crown Size and Shape. Frontiers in Forests and Global Change 3:109.

ter Steege, H., P. I. Prado, R. A. F. de Lima, E. Pos, L. de Souza Coelho, D. de Andrade Lima Filho, R. P. Salomão, I. L. Amaral, F. D. de Almeida Matos…M. R. Silman, A. di Fiore, P….and G. Pickavance. 2020. Biased-corrected richness estimates for the Amazonian tree flora. Scientific Reports. 10 (1):1-13 2023

Horwath, A.B., Royles, J., Tito, R., Gudiño, J.A., Salazar Allen, N., Farfan-Rios, W., Rapp, J.M., Silman, M.R., Malhi, Y., Swamy, V. and Latorre Farfan, J.P., 2019. Bryophyte stable isotope composition, diversity and biomass define tropical montane cloud forest extent. Proceedings of the Royal Society B, 286(1895), p.20182284.

Lefebvre, D., Román-Dañobeytia, F., Soete, J., Cabanillas, F., Corvera, R., Ascorra, C., … Silman, M. (2019). Biochar effects on two tropical tree species and its potential as a tool for reforestation. Forests, 10(8), 678.

Li, J., Knapp, D.E., Schill, S.R., Roelfsema, C., Phinn, S., Silman, M. R., Mascaro, J. and Asner, G.P., 2019. Adaptive bathymetry estimation for shallow coastal waters using Planet Dove satellites. Remote Sensing of Environment, 232, p.111302.

Ter Steege, H., Henkel, T. W., Helal, N., Marimon, B. S., Marimon-Junior, B. H., Huth, A., Silman, M.,… others. 2019. Rarity of monodominance in hyperdiverse Amazonian forests. Scientific Reports, 9(1), 1–15.

Shenkin, A., Bentley, L. P., Oliveras, I., Salinas, N., Adu-Bredu, S., Marimon, B. H., Silman, M.,… others. 2019. The Influence of Ecosystem and Phylogeny on Tropical Tree Crown Size and Shape. BioRxiv, 789255.

Durán, S. M., Martin, R. E., D\’\iaz, S., Maitner, B. S., Malhi, Y., Salinas, N., Silman, M., … others. 2019. Informing trait-based ecology by assessing remotely sensed functional diversity across a broad tropical temperature gradient. Science Advances, 5(12), eaaw8114.

Liu, X., Shi, P., Alqahtani, S., Pauca, V. P., & Silman, M. 2019. Robustness-Driven Exploration with Probabilistic Metric Temporal Logic. ArXiv Preprint ArXiv:1912.01704.

Nottingham, A. T., Fierer, N., Turner, B. L., Whitaker, J., Ostle, N. J., McNamara, N. P., M. R. Silman & Kruuk, L. (2018). Microbes follow Humboldt: temperature drives plant and soil microbial diversity patterns from the Amazon to the Andes. Ecology.

Gomes, V. H., IJff, S. D., Raes, N., Amaral, I. L., Salomão, R. P., Coelho, L. S., M. R. Silman,... & Guevara, J. E. 2018. Species Distribution Modelling: Contrasting presence-only models with plot abundance data. Scientific Reports 8(1): 1003. Caballero

Espejo, J., Messinger, M., Román-Dañobeytia, F., Ascorra, C., Fernandez, L. and Silman, M. R., 2018. Deforestation and Forest Degradation Due to Gold Mining in the Peruvian Amazon: A 34-Year Perspective. Remote Sensing, 10(12), p.1903.

Fadrique, B., Báez, S., Duque, Á., Malizia, A., Blundo, C., Carilla, J., Osinaga-Acosta, O., Malizia, L., Silman, M., Farfán-Ríos, W., Malhi, Y and. Feeley, K. 2018. Widespread but heterogeneous responses of Andean forests to climate change. Nature, 564(7735), p.207.

Enquist, B. J., L. P. Bentley, A. Shenkin, B. Maitner, V. Savage, S. Michaletz, B. Blonder, V. Buzzard, T. E. B. Espinoza, W. Farfan-Rios, M. R. Silman, and others. 2017. Assessing trait-based scaling theory in tropical forests spanning a broad temperature gradient. Global Ecology and Biogeography 26:1357–1373.

Fyllas, N. M., L. P. Bentley, A. Shenkin, G. P. Asner, O. K. Atkin, S. Díaz, B. J. Enquist, W. Farfan-Rios, E. Gloor, R. Guerrieri, M. R. Silman, and others. 2017. Solar radiation and functional traits explain the decline of forest primary productivity along a tropical elevation gradient. Ecology Letters 20:730–740.

Levis, C., F. R. Costa, F. Bongers, M. Peña-Claros, C. R. Clement, A. B. Junqueira, E. G. Neves, E. K. Tamanaha, F. O. Figueiredo, R. P. Salomão, M. R. Silman, and others. 2017. Persistent effects of pre-Columbian plant domestication on Amazonian forest composition. Science 355:925–931.

Malhi, Y., C. A. Girardin, G. R. Goldsmith, C. E. Doughty, N. Salinas, D. B. Metcalfe, W. Huaraca Huasco, J. E. Silva-Espejo, J. Aguilla-Pasquell, F. Farfán Amézquita, M. R. Silman, and others. 2017. The variation of productivity and its allocation along a tropical elevation gradient: a whole carbon budget perspective. New Phytologist 214:1019–1032.

Schiferl, J. D., M. B. Bush, M. R. Silman, and D. H. Urrego. 2017. Vegetation responses to late Holocene climate changes in an Andean forest. Quaternary Research:1–15.

Clark, K., A. West, R. Hilton, G. Asner, C. Quesada, M. Silman, S. Saatchi, W. Farfan-Rios, R. Martin, and A. Horwath. 2016. Storm-triggered landslides in the Peruvian Andes and implications for topography, carbon cycles, and biodiversity. Earth Surface Dynamics 4:47.

Feeley, K. J., and M. R. Silman. 2016. Disappearing climates will limit the efficacy of Amazonian protected areas. Diversity and Distributions 22:1081-1084.

Malhi, Y., C. Girardin, G. Goldsmith, C. Doughty, N. Salinas, D. Metcalfe, W. Huaraca Huasco, J. Silva-Especjo, J. del Aguilla-Pasquell, M. R. Silman and F. Farfan Amezquita. 2016. The variation of productivity and its allocation along a tropical elevation gradient: a whole carbon budget perspective. New Phytologist.

Messinger, M., G. P. Asner, and M. Silman. 2016. Rapid Assessments of Amazon Forest Structure and Biomass Using Small Unmanned Aerial Systems. Remote Sensing 8:615.

Messinger, M., and M. Silman. 2016. Unmanned aerial vehicles for the assessment and monitoring of environmental contamination: An example from coal ash spills. Environmental Pollution 218:889-894.

Nottingham, A., N. Fierer, B. Turner, J. Whitaker, N. Ostle, N. McNamara, R. Bardgett, J. Leff, N. Salinas, M. Silman and A. Ccahuana. 2016. Temperature drives plant and soil microbial diversity patterns across an elevation gradient from the Andes to the Amazon. bioRxiv:079996.

Báez, S., A. Malizia, J. Carilla, C. Blundo, M. Aguilar, N. Aguirre, Z. Aquirre, E. Álvarez, F. Cuesta, Á. Duque…M Silman, K. Feeley. 2015. Large-Scale Patterns of Turnover and Basal Area Change in Andean Forests. PLoS ONE DOI: 10.1371/journal.pone.0126594

Bush, M. B., A. M. Alfonso-Reynolds, D. H. Urrego, B. G. Valencia, Y. A. Correa-Metrio, M. Zimmermann, and M. R. Silman. 2015. Fire and climate: contrasting pressures on tropical Andean timberline species. Journal of Biogeography 42:938-950.

Bush, M. B., C. H. McMichael, D. R. Piperno, M. R. Silman, J. Barlow, C. A. Peres, M. Power, and M. W. Palace. 2015. Anthropogenic influence on Amazonian forests in pre-history: An ecological perspective. Journal of Biogeography 42:2277-2288.

Clark, K., A. West, R. Hilton, G. Asner, C. Quesada, M. Silman, S. Saatchi, W. Farfan-Rios, R. Martin, and A. Horwath. 2015. Storm-triggered landslides in the Peruvian Andes and implications for topography, carbon cycles, and biodiversity. Earth Surface Dynamics Discussions 3:631-688.

Farfan-Rios, W., K. Garcia-Cabrera, N. Salinas, M. N. Raurau-Quisiyupanqui, and M. R. Silman. 2015. Lista anotada de árboles y afines en los bosques montanos del sureste peruano: la importancia de seguir recolectando. Revista Peruana de Biología 22:145-174.

Feeley, K. J., M. R. Silman, and A. Duque. 2015. Where are the tropical plants? A call for better inclusion of tropical plants in studies investigating and predicting the effects of climate change. Frontiers of Biogeography 7.

Honorio Coronado, E. N., K. G. Dexter, R. T. Pennington, J. Chave, S. L. Lewis, M. N. Alexiades, E. Alvarez, A. Alves de Oliveira, I. L. Amaral, and A. Araujo-Murakami…M. Silman 2015. Phylogenetic diversity of Amazonian tree communities. Diversity and Distributions 21:1295-1307.

Ter Steege, H., N. C. Pitman, T. J. Killeen, W. F. Laurance, C. A. Peres, J. E. Guevara, R. P. Salomão, C. V. Castilho, I. L. Amaral, et al. 2015. Estimating the global conservation status of more than 15,000 Amazonian tree species. Science Advances 1:e1500936.

McMichael, C. H., M. W. Palace, M. B. Bush, B. Braswell, S. Hagen, E. G. Neves, M. R. Silman, E. K. Tamanaha, and C. Czarnecki. 2014. Predicting pre-Columbian anthropogenic soils in Amazonia. Proceedings of the Royal Society B: Biological Sciences 281:20132475.

Girardin, C. A. J., J. E. S. Espejob, C. E. Doughty, W. H. Huasco, D. B. Metcalfe, L. Durand-Baca, T. R. Marthews, L. E. O. C. Aragao, W. Farfan Rios, K. Garcia Cabrera, M. R. Silman, P. Meir, and Y. Malhi. 2014. Productivity and carbon allocation in a tropical montane cloud forest in the Peruvian Andes. Plant Ecology & Diversity: 1-17.

Girardin, C. A. J., W. Farfan Rios, K. Garcia, K. J. Feeley, P. M. Jorgensen, A. A. Murakami, L. Cayola Perez, R. Seidel, N. Paniagua, A. F. Fuentes Claros, and M. R. Silman. 2014. Spatial patterns of above-ground structure, biomass and composition in a network of six Andean elevation transects. Plant Ecology & Diversity: 1-11.

Gurdak, D. J., L. E. O. C. Aragao, A. Rozas-Da¡vila, W. H. Huasco, K. G. Cabrera, C. E. Doughty, W. Farfan-Rios, J. E. Silva-Espejo, D. B. Metcalfe, and M. R. Silman. 2014. Assessing above-ground woody debris dynamics along a gradient of elevation in Amazonian cloud forests in Peru: balancing above-ground inputs and respiration outputs. Plant Ecology & Diversity: 1-18.

Román-Cuesta, R. M., C. Carmona-Moreno, G. Lizcano, M. New, M. Silman, T. Knoke, Y. Malhi, I. Oliveras, H. Asbjornsen, and M. Vuille. 2014. Synchronous fire activity in the tropical high Andes: an indication of regional climate forcing. Global change biology. DOI: 10.1111/gcb.12538

Wyatt, J. L., and M. R. Silman. 2014. Long-Term Effects of Clearcutting in the Southern Appalachians. in F. Gilliam, editor. The Herbaceous Layer in Forests of Eastern North America. 2nd edition. Oxford USA, New York.

Pitman,N.C.A., J.E. Guevara Andino, M. Aulestia, C.E. Cerón, D.A. Neill, W. Palacios, G. Rivas-Torres, M.R. Silman, & J.W. Terborgh. 2014. Distribution and abundance of tree species in swamp forests of Amazonian Ecuador. Ecography 37: 1-14.

Huasco, W. H., C. A. J. Girardin, C. E. Doughty, D. B. Metcalfe, L. D. Baca, J. E. Silva-Espejo, D. G. Cabrera, L. Aragao, A. R. Davila, T. R. Marthews, L. P. Huaraca-Quispe, I. Alzamora-Taype, L. E. Mora, W. Farfan-Rios, K. G. Cabrera, K. Halladay, N. Salinas-Revilla, M. R. Silman, P. Meir, and Y. Malhi. 2014. Seasonal production, allocation and cycling of carbon in two mid-elevation tropical montane forest plots in the Peruvian Andes. Plant Ecology & Diversity 7:125-142.

Asner, G. P., D. E. Knapp, R. E. Martin, R. Tupayachi, C. B. Anderson, J. Mascaro, F. Sinca, K. D. Chadwick, S. Sousan, M. Higgins, W. Farfan, M. R. Silman, W. A. Llactayo, and A. F. Neyra. 2014. The Carbon Geography of Perú. Minuteman Press, Berkeley, CA.

Malhi, Y., Gardener, T.A., Goldsmith, G.R., Silman, M.R., Zelazowski, P. 2014. Tropical forests in the Anthropocene. Annual Review of Environment and Resources 39.

Asner, G. P., D. E. Knapp, R. E. Martin, R. Tupayachi, C. B. Anderson, J. Mascaro, F. Sinca, K. D. Chadwick, S. Sousan, M. Higgins, W. Farfan, W. A. Llactayo, A. F. Neyra, and M. R. Silman. 2014. Proceedings of the National Academy of Sciences USA 111 (47): E5016-E5022

Lutz, D., R. Powell, and M. Silman. 2013. Four decades of Andean timberline migration and implications for biodiversity loss with climate change. PLoS One.

Feeley, K. J., J. Hurtado, S. Saatchi, M. R. Silman, and D. B. Clark. 2013. Compositional shifts in Costa Rican forests due to climate driven species migrations. Global Change Biology 19:3472–3480

Lutz, D. A., R. L. Powell, and M. R. Silman. 2013. Four Decades of Andean Timberline Migration and Implications for Biodiversity Loss with Climate Change. PLoS One 8: e74496.

McMichael, C. H., M. B. Bush, M. R. Silman, D. R. Piperno, M. Raczka, L. C. Lobato, M. Zimmerman, S. Hagen, and M. Palace. 2013. Historical fire and bamboo dynamics in western Amazonia. Journal of Biogeography 40: 299-309.

Pitman, N. C. A., M. R. Silman, and J. W. Terborgh. 2013. Oligarchies in Amazonian tree communities: a ten year review. Ecography 36: 114-123.

ter Steege, H., N. C. A. Pitman, D. Sabatier, C. Baraloto, R. P. Salomao, J. E. Guevara, O. L. Phillips, C. V. Castilho, W. E. Magnusson, and J.-F. o. Molino, et al. 2013. Hyperdominance in the Amazonian tree flora. Science 342: 1243092.

Feeley, K. J., Y. Malhi, P. Zelazowski, and M. R. Silman. 2012. The relative importance of deforestation, precipitation change, and temperature sensitivity in determining the future distributions and diversity of Amazonian plant species. Global Change Biology.

Jankowski, J. E., C. L. Merkord, W. F. Rios, K. G. Cabrera, N. S. Revilla, and M. R. Silman. 2012. The relationship of tropical bird communities to tree species composition and vegetation structure along an Andean elevational gradient. Journal of Biogeography.

McMichael, C. H., M. B. Bush, D. R. Piperno, M. R. Silman, A. R. Zimmerman, and C. Anderson. 2012. Spatial and temporal scales of pre-Columbian disturbance associated with western Amazonian lakes. The Holocene 22:131-141.

McMichael, C. H., M. B. Bush, M. R. Silman, D. R. Piperno, M. Raczka, L. C. Lobato, M. Zimmerman, S. Hagen, and M. Palace. 2012. Historical fire and bamboo dynamics in western Amazonia. Journal of Biogeography.

McMichael, C. H., D. R. Piperno, M. B. Bush, M. R. Silman, A. R. Zimmerman, M. F. Raczka, and L. C. Lobato. 2012. Sparse Pre-Columbian Human Habitation in Western Amazonia. Science 336:1429-1431.

Rapp, J. M. and M. R. Silman. 2012. Diurnal, seasonal, and altitudinal trends in microclimate across a tropical montane cloud forest. Climate Research 55:17-+.

Rapp, J. M., M. R. Silman, J. S. Clark, C. A. J. Girardin, D. Galiano, and R. Tito. 2012. Intra- and interspecific tree growth across a long altitudinal gradient in the Peruvian Andes. Ecology 93:2061-2072.

Urrego, D. H., M. B. Bush, M. R. Silman, B. A. Niccum, P. La Rosa, C. H. McMichael, S. Hagen, and M. Palace. 2012. Holocene fires, forest stability and human occupation in south-western Amazonia. Journal of Biogeography.

Farfan Rios, W. 2011. Changes in forest dynamics along a 2.5 km elevation gradient on the southeastern flank of the Peruvian Andes. M. Sc. Wake Forest University, Winston-Salem.

Feeley, K. J. and M. R. Silman. 2011. Keep collecting: accurate species distribution modelling requires more collections than previously thought. Diversity and Distributions 17:1132-1140.

Feeley, K. J. and M. R. Silman. 2011. The data void in modeling current and future distributions of tropical species. Global Change Biology 17:626-630.

Feeley, K. J., M. R. Silman, M. B. Bush, W. Farfan, K. G. Cabrera, Y. Malhi, P. Meir, N. S. Revilla, M. N. R. Quisiyupanqui, and S. Saatchi. 2011. Upslope migration of Andean trees. Journal of Biogeography 38:783-791.

Fierer, N., C. M. McCain, P. Meir, M. Zimmermann, J. M. Rapp, M. R. Silman, and R. Knight. 2011. Microbes do not follow the elevational diversity patterns of plants and animals. Ecology 92:797-804.

Garcia, K. C. 2011. Spatial variation in tree species composition in Neotropical montane forest communities. Master's. Wake Forest University, Winston-Salem, NC.

McMichael, C. H., M. B. Bush, D. R. Piperno, M. R. Silman, A. R. Zimmerman, and C. Anderson. 2011. Spatial and temporal scales of pre-Columbian disturbance associated with western Amazonian lakes. The Holocene.

Roman-Cuesta, R. M., N. Salinas, H. Asbjornsen, I. Oliveras, V. Huaman, Y. Gutierrez, L. Puelles, J. Kala, D. Yabar, M. Rojas, R. Astete, D. Y. Jordan, M. Silman, R. Mosandl, M. Weber, B. Stimm, S. Gunter, T. Knoke, and Y. Malhi. 2011. Implications of fires on carbon budgets in Andean cloud montane forest: The importance of peat soils and tree resprouting. Forest Ecology and Management 261:1987-1997.

Salinas, N., Y. Malhi, P. Meir, M. Silman, R. R. Cuesta, J. Huaman, D. Salinas, V. Huaman, A. Gibaja, M. Mamani, and F. Farfan. 2011. The sensitivity of tropical leaf litter decomposition to temperature: results from a large-scale leaf translocation experiment along an elevation gradient in Peruvian forests. New Phytologist 189:967-977.

Silman, M. 2011. Plant species diversity in Amazonian forests. Pages 285-314 Tropical Rainforest Responses to Climatic Change. Springer.

Urrego, D. H., B. A. Niccum, C. F. La Drew, M. R. Silman, and M. B. Bush. 2011. Fire and drought as drivers of early Holocene tree line changes in the Peruvian Andes. Journal of Quaternary Science 26:28-36.

Urrego, D. H., M. R. Silman, A. Correa-Metrio, and M. B. Bush. 2011. Pollen-vegetation relationships along steep climatic gradients in western Amazonia. Journal of Vegetation Science 22:795-806.

Girardin, C.A.L., Gurdak, Daniel; Aragão, Luiz; Rozas-Dávila, Angela; Huasco, Walter; Farfan Rios, William; Girardin, Cécile; Silman, M.R.; Metcalfe, Daniel; Silva-Espejo, J; Salinas Revilla, Norma; Malhi, Yadvinder. 2010. Net primary productivity allocation and cycling of carbon along a tropical forest elevational transect in the Peruvian Andes. Global Change Biology doi: 10.1111/j.1365-2486.2010.02235.x

Gibbon, A. M.R. Silman, Y. Malhi, J.B. Fisher, P. Meir, M. Zimmermann, G.C. Dargie, W. Farfan R., K. Garcia C. In Press. Ecosystem carbon storage across the grassland-forest transition in the high Andes of Manu National Park, Peru. Ecosystems. DOI: 10.1007/s10021-010-9376-8

Urrego, D., M. B. Bush, M. R. Silman. 2010. A long history of cloud and forest migration from Lake Consuelo, Peru. Quaternary Research 73(2):364-373

Valencia, B, D. Urrego, M. R. Silman, and M. Bush. 2010 From ice-age to modern: a record of landscape change in an Andean cloud forest. Journal of Biogeography. 37:1637-1647

Bush, M.B. and Silman, M.R. 2008. Amazonia: A cultural landscape? In "An international Forum on Sustainability", (G. Nelson & I. Hronsky eds.), pp 51-61. Arisztotelész Publishing Co, Budapest.

Silman, M.R. 2006. Plant species diversity in Amazonian forests. ch. 11 in Bush, M. and Flenly, J. eds. Tropical Rain Forest Responses to Climate Change. Praxis Publishing, Springer-Praxis, London.

Bush, M. B., M. R. Silman, and C. M. C. S. Listopad. 2007. Climate change and human occupation in Peruvian Amazonia: a paleoecological perspective. Journal of Biogeography. 34 (8): 1342-1356

Silman, M. R. and C. Krisel. 2006. Getting to the root of tree neighborhoods: hectare-scale root zones of a Neotropical fig. Journal of Tropical Ecology 22: 727-730.

Wright, I. J., D. D. Ackerly, F. Bongers, K. E. Harms, G. Ibarra-Manriquez, M. Martinez-Ramos, S.J. Mazer, H. C. Muller-Landau, H. Paz, N. C. A. Pitman, L. Poorter, M. R. Silman, C.F.. Vriesendorp, C. O. Webb, M. Westoby, and S. J. Wright. 2006. Relationships among ecologically important dimensions of plant trait variation in seven neotropical forests. Annals of Botany. 99 (5): 1003-1015

Silman, M.R., A. Aruajo Murakami, H. Pariamo, M. Bush, D. Urrego. 2006. Changes in tree community structure at the southern limits of Amazonia: Manu and Madidi. Ecologia en Bolivia 40(3) 443-452

Terborgh, J., , K. Feeley, M. R. Silman, P. Núñez and V.B. Balukjian. 2006. Vegetation dynamics of predator-free land-bridge islands. Journal of Ecology 94: 253-263.
(Highlighted in Nature 440, 613-614, News and Views. Ecology: Green and pleasant trials. Moore, P.D.)

Bush, M.B., Hanson, B., Rodbell, D., Seltzer, G.O., Young, K., Leon, B., M.R. Silman, Gosling, W.D. 2005. A 17,000 year history of Andean climatic and vegetation change from Laguna Negra, Peru. Journal of Quaternary Science. 20: 703–714

Johnson, D. M., W. K. Smith and M. R. Silman. 2005. Elevation, CO2, and plant functions characters: comment. Geology.

Wyatt, J. L. and M. R. Silman. 2004. Distance-dependence in two Neotropical palms: effects of spatial and temporal variation in seed predator communities. Oecologia 140:26-35.

*Bush, M.B.,*M. R. Silman, and D. Urrego. 2004. 48,000 years of climate and forest change in a biodiversity hotspot. Science 303:827-829. also, Supporting Online Material.
(*Authors contributed equally to this work)

Weng, C., M. B. Bush, and M. R. Silman. 2004. Elevational characteristics of modern pollen rain recorded in moss-polsters and surface sediments in the Rio Manu watershed, Peru. Journal of Tropical Ecology 20:113-124.

Silman, M. R., E. J. Ancaya, and J. Brinson. 2003. Bamboo forests of western Amazonia. In: Alto Purus: Biodiversity, Conservation, and Management. R. Leite, N. Pitman, P. Alvarez eds. Center for Tropical Conservation Press. (Titles appear in Spanish).

Baker, P., M. B. Bush, S. Fritz, C. Rigsby, G. O. Seltzer and M. R. Silman. 2003. Last Glacial Maximum in an Andean cloud forest environment (Eastern Cordillera, Bolivia): Comment. Geology. Online Forum: e26.

Silman, M. R., J. Terborgh, and R. Kiltie. 2003. Population regulation of a dominant rain forest tree by a major seed predator. Ecology 84(2): 431-438.

Pitman, N. C. A., J. Terborgh, M. R. Silman, P. Núñez V., D. A. Neill, C. E. Cerón, W. A. Palacios, and M. Aulestia. 2002. A Comparison of tree species diversity in two upper Amazonian forests. Ecology 83:3210-3224.

Pitman, N.C.A., J. W. Terborgh, P. Núñez V., and M. R. Silman. 2002. Árboles comunes de la selva baja del departamento de Madre de Diós, Perú. In L. O. Rodríguez, ed. Manu. APECO, Lima.

Terborgh, J., Pitman, N. C. A., M. R. Silman, H. Schlichter, P. Núñez V. 2002. Maintenance of diversity in tropical forests. In D. Levey ed. Frugivory and Seed Dispersal.

Pitman, N. C. A., J. Terborgh, M. R. Silman, P. Núñez V., D. A. Neill, C. E. Cerón, W. A. Palacios, and M. Aulestia. 2001. Dominance and diversity of tree species in upper Amazonian terra firme forests. Ecology, 82(8), 2001, pp. 2101–2117 (W.S. Cooper Award Winner, Ecological Society of America,2002; Lead article in Concepts and Synthesis: Directions for the Future of Ecology)

Pitman, N. C. A., J. Terborgh, M. R. Silman, and P. Nunez. 1999. Tree-species diversity in an upper-Amazonian forest. Ecology 80(8): 2651-2661

(Highlighted by Sugden, A. 2000. Editor’s choice: Highlights of the recent literature. Tropical tree communities. Science 287: 193, and by Ricklefs, R.E. 2000. Rarity and diversity in Amazonian forest trees. Trends in Ecology and Evolution 15: 83-84)

Clark, J., M. R. Silman, R. Kern, E. Macklin, J. HilleRisLambers. 1999. Seed dispersal near and far: Patterns across temperate and tropical forests. Ecology 80(5): 1475–1494.
(Lead article in Concepts and Synthesis: Directions for the Future of Ecology)

Silman, M. R. 1998. Making Arks that won't float? Trends in Plant Science 3(2): 74-75.

Silman, M. R. 1996. Long-term ecological research in Peru. in: Proceedings of the 2nd Latin American International Long-Term Ecological Research Workshop. NSF, Washington.
(Summary available at:http://www.ilternet.edu/meetings/panama96/peru/peru1.html)

Silman, M. R. 1996. Regeneration from seed in a Neotropical rain forest. Ph.D. Dissertation, Duke University, Durham, NC.