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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..
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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, Viers JH, Klausmeyer KR, Cox RL, Shaw MR.  2009.  Threats and biodiversity in the mediterranean biome. Diversity and Distributions. 15:188-197.
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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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
Underwood, EC, Fisher BL.  2006.  The role of ants in conservation monitoring: If, when and how. Biological Conservation. 132:166-182. Abstract
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.
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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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, Klinger RC, Moore PE.  2004.  Predicting patterns of non-native plant invasions in Yosemite National Park, California. Diversity and Distributions. 10:447-459. Abstract
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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.
Wilson, KA, Underwood EC, Morrison SA, Klausmeyer KR, Murdoch WW, Reyers B, Wardell-Johnson G, Marquet PA, Rundel PW, McBride MF et al..  2007.  Maximising the Conservation of the World's Biodiversity: What to do, Where and When. PLoS Biology. 5:e233. Abstract
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.
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
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Ustin, SL, DiPietro D, Olmstead K, Underwood EC, Scheer G.  2002.  Hyperspectral remote sensing for invasive species detection and mapping. International Geoscience and Remote Sensing Symposium: 24th Canadian Symposium on Remote Sensing.
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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.
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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.
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Underwood, EC, Cox RL, Shaw MR, Klausmeyer KR, Morrison SA.  2008.  A conservation assessment of the Mediterranean Biome: threats, trends and gaps. Medecos XI The International Mediterranean Ecosystems Conference.
Underwood, EC, Christian CE.  2009.  Consequences of Prescribed Fire and Grazing on Grassland Ant Communities. Environmental Entomology. 38:325-332.
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