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      Operational Tree Species Mapping in a Diverse Tropical Forest with Airborne Imaging Spectroscopy

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          Abstract

          Remote identification and mapping of canopy tree species can contribute valuable information towards our understanding of ecosystem biodiversity and function over large spatial scales. However, the extreme challenges posed by highly diverse, closed-canopy tropical forests have prevented automated remote species mapping of non-flowering tree crowns in these ecosystems. We set out to identify individuals of three focal canopy tree species amongst a diverse background of tree and liana species on Barro Colorado Island, Panama, using airborne imaging spectroscopy data. First, we compared two leading single-class classification methods—binary support vector machine (SVM) and biased SVM—for their performance in identifying pixels of a single focal species. From this comparison we determined that biased SVM was more precise and created a multi-species classification model by combining the three biased SVM models. This model was applied to the imagery to identify pixels belonging to the three focal species and the prediction results were then processed to create a map of focal species crown objects. Crown-level cross-validation of the training data indicated that the multi-species classification model had pixel-level producer’s accuracies of 94–97% for the three focal species, and field validation of the predicted crown objects indicated that these had user’s accuracies of 94–100%. Our results demonstrate the ability of high spatial and spectral resolution remote sensing to accurately detect non-flowering crowns of focal species within a diverse tropical forest. We attribute the success of our model to recent classification and mapping techniques adapted to species detection in diverse closed-canopy forests, which can pave the way for remote species mapping in a wider variety of ecosystems.

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          Canopy phylogenetic, chemical and spectral assembly in a lowland Amazonian forest.

          • Canopy chemistry and spectroscopy offer insight into community assembly and ecosystem processes in high-diversity tropical forests, but phylogenetic and environmental factors controlling chemical traits underpinning spectral signatures remain poorly understood. • We measured 21 leaf chemical traits and spectroscopic signatures of 594 canopy individuals on high-fertility Inceptisols and low-fertility Ultisols in a lowland Amazonian forest. The spectranomics approach, which explicitly connects phylogenetic, chemical and spectral patterns in tropical canopies, provided the basis for analysis. • Intracrown and intraspecific variation in chemical traits varied from 1.4 to 36.7% (median 9.3%), depending upon the chemical constituent. Principal components analysis showed that 14 orthogonal combinations were required to explain 95% of the variation among 21 traits, indicating the high dimensionality of canopy chemical signatures among taxa. Inceptisols and lianas were associated with high leaf nutrient concentrations and low concentrations of defense compounds. Independent of soils or plant habit, an average 70% (maximum 89%) of chemical trait variation was explained by taxonomy. At least 10 traits were quantitatively linked to remotely sensed signatures, which provided highly accurate species classification. • The results suggest that taxa found on fertile soils carry chemical portfolios with a deep evolutionary history, whereas taxa found on low-fertility soils have undergone trait evolution at the species level. Spectranomics provides a new connection between remote sensing and community assembly theory in high-diversity tropical canopies. © 2010 The Authors. New Phytologist © 2010 New Phytologist Trust.
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            Liana Abundance, Diversity, and Distribution on Barro Colorado Island, Panama

            Lianas are a key component of tropical forests; however, most surveys are too small to accurately quantify liana community composition, diversity, abundance, and spatial distribution – critical components for measuring the contribution of lianas to forest processes. In 2007, we tagged, mapped, measured the diameter, and identified all lianas ≥1 cm rooted in a 50-ha plot on Barro Colorado Island, Panama (BCI). We calculated liana density, basal area, and species richness for both independently rooted lianas and all rooted liana stems (genets plus clones). We compared spatial aggregation patterns of liana and tree species, and among liana species that varied in the amount of clonal reproduction. We also tested whether liana and tree densities have increased on BCI compared to surveys conducted 30-years earlier. This study represents the most comprehensive spatially contiguous sampling of lianas ever conducted and, over the 50 ha area, we found 67,447 rooted liana stems comprising 162 species. Rooted lianas composed nearly 25% of the woody stems (trees and lianas), 35% of woody species richness, and 3% of woody basal area. Lianas were spatially aggregated within the 50-ha plot and the liana species with the highest proportion of clonal stems more spatially aggregated than the least clonal species, possibly indicating clonal stem recruitment following canopy disturbance. Over the past 30 years, liana density increased by 75% for stems ≥1 cm diameter and nearly 140% for stems ≥5 cm diameter, while tree density on BCI decreased 11.5%; a finding consistent with other neotropical forests. Our data confirm that lianas contribute substantially to tropical forest stem density and diversity, they have highly clumped distributions that appear to be driven by clonal stem recruitment into treefall gaps, and they are increasing relative to trees, thus indicating that lianas will play a greater role in the future dynamics of BCI and other neotropical forests.
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              Variability in leaf optical properties of Mesoamerican trees and the potential for species classification.

              Leaf traits and physiological performance govern the amount of light reflected from leaves at visible and infrared wavebands. Information on leaf optical properties of tropical trees is scarce. Here, we examine leaf reflectance of Mesoamerican trees for three applications: (1) to compare the magnitude of within- and between-species variability in leaf reflectance, (2) to determine the potential for species identification based on leaf reflectance, and (3) to test the strength of relationships between leaf traits (chlorophyll content, mesophyll attributes, thickness) and leaf spectral reflectance. Within species, shape and amplitude differences between spectra were compared within single leaves, between leaves of a single tree, and between trees. We also investigated the variation in a species' leaf reflectance across sites and seasons. Using forward feature selection and pattern recognition tools, species classification within a single site and season was successful, while classification between sites or seasons was not. The implications of variability in leaf spectral reflectance were considered in light of potential tree crown classifications from remote airborne or satellite-borne sensors. Species classification is an emerging field with broad applications to tropical biologists and ecologists, including tree demographic studies and habitat diversity assessments.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                PLoS One
                PLoS ONE
                plos
                plosone
                PLoS ONE
                Public Library of Science (San Francisco, CA USA )
                1932-6203
                8 July 2015
                2015
                : 10
                : 7
                : e0118403
                Affiliations
                [1 ]Department of Global Ecology, Carnegie Institution for Science, Stanford, CA, United States of America
                [2 ]Department of Ecology and Evolutionary Biology, Brown University, Providence, RI, United States of America
                [3 ]Smithsonian Tropical Research Institute, Washington, DC, United States of America
                University of New England, AUSTRALIA
                Author notes

                Competing Interests: The authors have declared that no competing interests exist.

                Conceived and designed the experiments: CAB GPA. Performed the experiments: CAB. Analyzed the data: CAB. Contributed reagents/materials/analysis tools: CAB GPA REM CBA DEK JRK SJW. Wrote the paper: CAB GPA REM CBA JRK SJW.

                Article
                PONE-D-14-28424
                10.1371/journal.pone.0118403
                4496029
                26153693
                68a56f8e-0b9e-4add-9a23-dca82fc17f90

                This is an open access article, free of all copyright, and may be freely reproduced, distributed, transmitted, modified, built upon, or otherwise used by anyone for any lawful purpose. The work is made available under the Creative Commons CC0 public domain dedication

                History
                : 30 June 2014
                : 14 January 2015
                Page count
                Figures: 6, Tables: 2, Pages: 21
                Funding
                This study has been supported by the Avatar Alliance Foundation, Gordon and Betty Moore Foundation, John D. and Catherine R. MacArthur Foundation, Grantham Foundation for the Protection of the Environment, W. M. Keck Foundation, Margaret A. Cargill Foundation, Mary Anne Nyburg Baker and G. Leonard Baker Jr., and William R. Hearst III. There are no grant numbers or URLs. The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.
                Categories
                Research Article
                Custom metadata
                The spectral data are owned by The Carnegie Airborne Observatory. Requests to access this data should be directed to Gregory Asner ( gpa@ 123456stanford.edu ).

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