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Bode M, Wilson KA, Brooks TM, Mittermeier RA, Turner WR, McBride F, Underwood EC, Possingham HP.  2008.  Robustness of resource allocation among biodiversity hotspots. Proceedings of the National Academy of Sciences. 105:6498-6501.
Burgess N, Hales JD’A, Underwood EC, Dinerstein E.  2004.  Terrestrial Ecoregions of Africa and Madagascar. :644.
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Chan KMA, Shaw RM, Cameron DR, Underwood EC, Daily GC.  2006.  Conservation planning for ecosystem services. PLoS Biology. 4(11) Abstract
Cox RL, Underwood EC.  2011.  The importance of conserving biodiversity outside of protected areas in mediterranean systems. PLoS One. 6(1)
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Dinerstein E, Powell G, Olson DM, Wikramanayake E, Abell R, Loucks CJ, Underwood EC, Allnut T, Wettengel W, Ricketts TH et al..  2000.  A workbook for conducting biological assessments and developing biodiversity visions for ecoregion-based conservation: Part I, Terrestrial Ecoregions..
DiPietro D, Ustin SL, Underwood EC.  2002.  Mapping the invasive riparian weed Arundo donax and associated riparian vegetation using AVIRIS. Proceedings of the Eleventh JPL Airborne Earth Science Workshop.
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Klinger RC, Underwood EC, Moore PE.  2006.  The role of environmental gradients in non-native plant invasion into burned areas in Yosemite National Park, California. Diversity and Distributions . 12:139-156. Abstract
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North M, Boynton RM, Stine PA, Shipley KF, Underwood EC, Roth NE, Viers JH, Quinn JF.  2012.  Chapter 10. Geographic Information System Landscape Analysis Using GTR 220 Concepts. In Managing Sierra Nevada Forests..
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Olson DM, Dinerstein E, Wikramanayake E, Burgess N, Powell G, Underwood EC, D’Amico J, Itoua I, Strand H, Morrison J et al..  2001.  Terrestrial ecoregions of the world: a new map of life on earth. BioScience. 51(11):933-938.
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Primm SP, Underwood EC, Ricketts TH, Dinerstein E, Olson DM, Loucks CJ, Eichbaum W, DellaSala D, Kavanagh K, Hedao P et al..  1996.  Reconnecting grizzly bear populations in fragmented landscapes. Terrestrial ecoregions of North America: a conservation assessment.
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Reiner R, Underwood EC, O’Niles J, Standiford RB, McCreary D. Purcell KL.  2002.  Monitoring conservation success in a large oak woodland landscape. Proceedings of the Fifth Symposium on Oak Woodlands: Oak Woodlands in California's Changing Landscape. :639-650.
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Underwood EC, Aguiar F, Brandu G.  2005.  Developing predictive models of invasive plants. Invasive plants in Mediterranean type regions of the world.
Underwood EC, Ustin SL, Strand H, Höft R, Strittholt J, Miles L, Horning N, Fosnight E.  2007.  Trends in Invasive Alien Species. Sourcebook on Remote Sensing and Biodiversity Indicators. :201.
Underwood EC, Hollander AD, Quinn JF.  2013.  Geospatial Tools for Identifying and Managing Invasive Plants, Invasive Plant Species. Invasive Plant Ecology. :133-151.
Underwood EC, Viers JH, Quinn JF, North M.  2010.  Using topography to meet wildlife and fuels treatment objectives in fire-suppressed landscapes. Environmental Management. 46:809-819.
Underwood EC, Fisher BL.  2006.  The role of ants in conservation monitoring: If, when and how. Biological Conservation. 132:166-182. Abstract
Underwood EC, Christian CE.  2009.  Consequences of Prescribed Fire and Grazing on Grassland Ant Communities. Environmental Entomology. 38:325-332.
Underwood EC, Shaw MR, Wilson KA, Kareiva P, Klausmeyer KA, McBride MF, Bode M, Morrison SA, Hoekstra JM, Possingham HP.  2008.  Protecting Biodiversity When Money Matters: Maximizing Return on Investment.. PLoS One. 3 Abstract
Underwood EC, Ustin S, DiPietro D.  2003.  Mapping nonnative plants using hyperspectral imagery. REMOTE SENSING OF ENVIRONMENT. 86:150--161. Abstract
Underwood EC, Mulitsch MJ, Greenberg JA, Whiting ML, Ustin SL, Kefauver SC.  2006.  Mapping invasive aquatic vegetation in the Sacramento-San Joaquin Delta using hyperspectral imagery. Environmental Monitoring and Assessment. 121(1-3):47-64. Abstract
Underwood EC, Klausmeyer KR, Cox RL, Busby SM, Morrison SA, Shaw MR.  2009.  Expanding the global protected areas network to save the imperiled mediterranean biome. Conservation Biology. 23:43-52.
Underwood EC, Klinger RC, Moore PE.  2004.  Predicting patterns of non-native plant invasions in Yosemite National Park, California. Diversity and Distributions. 10:447-459. Abstract
Underwood EC.  2009.  Evaluating conservation spending for species return: A retrospective analysis in California. Conservation Letters. :130-137.
Underwood EC, Ustin SL, Ramirez CM.  2007.  A comparison of spatial and spectral image resolution for mapping invasive plants in coastal California. Journal of Environmental Management . 39(1):63-83. Abstract
Underwood EC, Viers JH, Klausmeyer KR, Cox RL, Shaw MR.  2009.  Threats and biodiversity in the mediterranean biome. Diversity and Distributions. 15:188-197.