Pantropical modelling of canopy functional traits using Sentinel-2 remote sensing data

Abstract Tropical forest ecosystems are undergoing rapid transformation as a result of changing environmental conditions and direct human impacts. However, we cannot adequately understand, monitor or simulate tropical ecosystem responses to environmental changes without capturing the high diversity of plant functional characteristics in the species-rich tropics. Failure to do so can oversimplify our understanding of ecosystems responses to environmental disturbances. Innovative methods and data products are needed to track changes in functional trait composition in tropical forest ecosystems through time and space. This study aimed to track key functional traits by coupling Sentinel-2 derived variables with a unique data set of precisely located in-situ measurements of canopy functional traits collected from 2434 individual trees across the tropics using a standardised methodology. The functional traits and vegetation censuses were collected from 47 field plots in the countries of Australia, Brazil, Peru, Gabon, Ghana, and Malaysia, which span the four tropical continents. The spatial positions of individual trees above 10 cm diameter at breast height (DBH) were mapped and their canopy size and shape recorded. Using geo-located tree canopy size and shape data, community-level trait values were estimated at the same spatial resolution as Sentinel-2 imagery (i.e. 10 m pixels). We then used the Geographic Random Forest (GRF) to model and predict functional traits across our plots. We demonstrate that key plant functional traits can be accurately predicted across the tropicsusing the high spatial and spectral resolution of Sentinel-2 imagery in conjunction with climatic and soil information. Image textural parameters were found to be key components of remote sensing information for predicting functional traits across tropical forests and woody savannas. Leaf thickness (R2 = 0.52) obtained the highest prediction accuracy among the morphological and structural traits and leaf carbon content (R2 = 0.70) and maximum rates of photosynthesis (R2 = 0.67) obtained the highest prediction accuracy for leaf chemistry and photosynthesis related traits, respectively. Overall, the highest prediction accuracy was obtained for leaf chemistry and photosynthetic traits in comparison to morphological and structural traits. Our approach offers new opportunities for mapping, monitoring and understanding biodiversity and ecosystem change in the most species-rich ecosystems on Earth.

Roberta E. Martin | Gregory P. Asner | Yadvinder Malhi | Alexander Shenkin | Lisa Patrick Bentley | Simon L. Lewis | David A. Coomes | Yit Arn Teh | Kathryn J. Jeffery | Robert M. Ewers | Miles Silman | W. Daniel Kissling | Oliver L. Phillips | Katharine Abernethy | Brian J. Enquist | Sabine Both | William Farfan-Rios | Carlos A. Joly | Jos Barlow | Imma Oliveras | Stephen Adu-Bredu | Lucas A. Cernusak | Carlos A. Quesada | T. Riutta | B. Enquist | O. Phillips | D. Burslem | G. Asner | J. Aguirre‐Gutiérrez | J. Barlow | Y. Malhi | E. Berenguer | D. Coomes | S. Lewis | I. Oliveras | L. White | M. Silman | N. Salinas | C. Quesada | C. Girardin | J. Ferreira | K. Jeffery | C. Joly | L. Cernusak | R. Ewers | W. Farfán-Ríos | L. Bentley | S. Rifai | K. Abernethy | A. Shenkin | B. H. Marimon‐Junior | G. Dargie | P. Morandi | Martin Svátek | S. M. Reis | Beatriz Schwantes Marimon | S. Both | Erika Berenguer | Sam Moore | Terhi Riutta | Ben Hur Marimon-Junior | S. Moore | Norma Salinas | Y. Teh | Vianet Mihindou | Joice Ferreira | D. Bauman | Greta C. Dargie | Martin Svátek | Cécile A.J. Girardin | Jesús Aguirre-Gutiérrez | Sami Rifai | David Bauman | Nicolas Raab | Axa Emanuelle Simões Figueiredo | Simone Matias Reis | Josué Edzang Ndong | Fidèle Evouna Ondo | Natacha N'ssi Bengone | Marina Maria Moraes de Seixas | David F.R.P. Burslem | Paulo S. Morandi | Beatriz Schwantes Marimon | Lee J.T. White | N. Raab | V. Mihindou | Axa Figueiredo | S. Adu‐Bredu | W. Kissling | Natacha N'ssi Bengone | R. Martin

[1]  Kim S. Ely,et al.  Spectroscopy can predict key leaf traits associated with source–sink balance and carbon–nitrogen status , 2019, Journal of experimental botany.

[2]  R. Betts,et al.  Climate Change, Deforestation, and the Fate of the Amazon , 2008, Science.

[3]  Sean C. Thomas,et al.  The worldwide leaf economics spectrum , 2004, Nature.

[4]  A. Skidmore,et al.  Retrieval of Specific Leaf Area From Landsat-8 Surface Reflectance Data Using Statistical and Physical Models , 2017, IEEE Journal of Selected Topics in Applied Earth Observations and Remote Sensing.

[5]  D. Edwards,et al.  Increasing human dominance of tropical forests , 2015, Science.

[6]  C. Webb,et al.  Scaling from Traits to Ecosystems: Developing a General Trait Driver Theory via Integrating Trait-Based and Metabolic Scaling Theories , 2015, 1502.06629.

[7]  B. Enquist,et al.  Covariance of Sun and Shade Leaf Traits Along a Tropical Forest Elevation Gradient , 2020, Frontiers in Plant Science.

[8]  A. Huete,et al.  A Modified Soil Adjusted Vegetation Index , 1994 .

[9]  Susan L Ustin,et al.  Remote sensing of plant functional types. , 2010, The New phytologist.

[10]  I. Myers-Smith,et al.  Trait covariance: the functional warp of plant diversity? , 2017, The New phytologist.

[11]  Unai Pascual,et al.  Summary for policymakers of the global assessment report on biodiversity and ecosystem services of the Intergovernmental Science-Policy Platform on Biodiversity and Ecosystem Services-ADVANCE UNEDITED VERSION , 2019 .

[12]  B. Enquist,et al.  The Influence of Ecosystem and Phylogeny on Tropical Tree Crown Size and Shape , 2019, bioRxiv.

[13]  Brett R. Scheffers,et al.  Assessing species' vulnerability to climate change , 2015 .

[14]  Matthew L. Clark,et al.  Comparison of simulated hyperspectral HyspIRI and multispectral Landsat 8 and Sentinel-2 imagery for multi-seasonal, regional land-cover mapping , 2017 .

[15]  D. Ratkowsky,et al.  Leaf Fresh Weight Versus Dry Weight: Which is Better for Describing the Scaling Relationship between Leaf Biomass and Leaf Area for Broad-Leaved Plants? , 2019, Forests.

[16]  Kelly K. Caylor,et al.  Photosynthetic seasonality of global tropical forests constrained by hydroclimate , 2015 .

[17]  C. Lortie,et al.  Rethinking plant community theory , 2004 .

[18]  F. Woodward,et al.  Terrestrial Gross Carbon Dioxide Uptake: Global Distribution and Covariation with Climate , 2010, Science.

[19]  A. Huth,et al.  Inferring plant functional diversity from space: the potential of Sentinel-2 , 2019, Remote Sensing of Environment.

[20]  L. Gautier,et al.  The odd man out? Might climate explain the lower tree α‐diversity of African rain forests relative to Amazonian rain forests? , 2007 .

[21]  Trevor Hastie,et al.  The Elements of Statistical Learning , 2001 .

[22]  Sean C. Thomas,et al.  Diversity and carbon storage across the tropical forest biome , 2017, Scientific Reports.

[23]  Roberta E. Martin,et al.  Quantifying forest canopy traits: Imaging spectroscopy versus field survey , 2015 .

[24]  Jan Lepš,et al.  Traits Without Borders: Integrating Functional Diversity Across Scales. , 2016, Trends in ecology & evolution.

[25]  Campbell O. Webb,et al.  Regional and phylogenetic variation of wood density across 2456 Neotropical tree species. , 2006, Ecological applications : a publication of the Ecological Society of America.

[26]  Peter B Reich,et al.  Key canopy traits drive forest productivity , 2012, Proceedings of the Royal Society B: Biological Sciences.

[27]  A. Huth,et al.  Global patterns of tropical forest fragmentation , 2018, Nature.

[28]  J. C. Price How unique are spectral signatures , 1994 .

[29]  Grégoire Laurent Vincent Leaf photosynthetic capacity and nitrogen content adjustment to canopy openness in tropical forest tree seedlings , 2001, Journal of Tropical Ecology.

[30]  W. E. Larson,et al.  Coincident detection of crop water stress, nitrogen status and canopy density using ground-based multispectral data. , 2000 .

[31]  Roberta E. Martin,et al.  Assessing trait‐based scaling theory in tropical forests spanning a broad temperature gradient , 2017 .

[32]  Kelly A. Carscadden,et al.  Beyond species: functional diversity and the maintenance of ecological processes and services , 2011 .

[33]  Robert M. Haralick,et al.  Textural Features for Image Classification , 1973, IEEE Trans. Syst. Man Cybern..

[34]  J. Nichol,et al.  Improved forest biomass estimates using ALOS AVNIR-2 texture indices , 2011 .

[35]  Denis Bastianelli,et al.  TRY plant trait database - enhanced coverage and open access. , 2019, Global change biology.

[36]  Y. Malhi,et al.  Rare ground data confirm significant warming and drying in western equatorial Africa , 2020, PeerJ.

[37]  R. Hédl,et al.  A new technique for inventory of permanent plots in tropical forests: a case study from lowland dipterocarp forest in Kuala Belalong, Brunei Darussalam , 2009 .

[38]  S. Wright,et al.  The global spectrum of plant form and function , 2015, Nature.

[39]  Benjamin L Turner,et al.  Soils and rainfall drive landscape‐scale changes in the diversity and functional composition of tree communities in premontane tropical forest , 2017 .

[40]  Enrique Alonso García,et al.  Towards global data products of Essential Biodiversity Variables on species traits , 2018, Nature Ecology & Evolution.

[41]  G. Asner,et al.  Airborne laser-guided imaging spectroscopy to map forest trait diversity and guide conservation , 2017, Science.

[42]  Jane R. Foster,et al.  Application of imaging spectroscopy to mapping canopy nitrogen in the forests of the central Appalachian Mountains using Hyperion and AVIRIS , 2003, IEEE Trans. Geosci. Remote. Sens..

[43]  Leaf Area and Water Content Changes after Permanent and Temporary Storage , 2012, PloS one.

[44]  Frans Bongers,et al.  Functional traits and environmental filtering drive community assembly in a species-rich tropical system. , 2010, Ecology.

[45]  Jörg Bendix,et al.  Modeling tropical montane forest biomass, productivity and canopy traits with multispectral remote sensing data , 2019, Remote Sensing of Environment.

[46]  Yadvinder Malhi,et al.  Leaf-level photosynthetic capacity dynamics in relation to soil and foliar nutrients along forest–savanna boundaries in Ghana and Brazil , 2018, Tree physiology.

[47]  Walter Jetz,et al.  Monitoring biodiversity change through effective global coordination , 2017 .

[48]  M. Schaepman,et al.  Mapping functional diversity from remotely sensed morphological and physiological forest traits , 2017, Nature Communications.

[49]  C. Nock,et al.  Continental mapping of forest ecosystem functions reveals a high but unrealised potential for forest multifunctionality. , 2017, Ecology letters.

[50]  D. Coomes,et al.  On the challenges of using field spectroscopy to measure the impact of soil type on leaf traits , 2017 .

[51]  Nadejda A. Soudzilovskaia,et al.  Functional traits predict relationship between plant abundance dynamic and long-term climate warming , 2013, Proceedings of the National Academy of Sciences.

[52]  K. Ogle,et al.  Refinement of a theoretical trait space for North American trees via environmental filtering. , 2018 .

[53]  J. P. Grime,et al.  Benefits of plant diversity to ecosystems: immediate, filter and founder effects , 1998 .

[54]  Yadvinder Malhi,et al.  Drivers and mechanisms of tree mortality in moist tropical forests. , 2018, The New phytologist.

[55]  Thomas Mueller,et al.  Human Land-Use Practices Lead to Global Long-Term Increases in Photosynthetic Capacity , 2014, Remote. Sens..

[56]  A. Skidmore,et al.  Nitrogen detection with hyperspectral normalized ratio indices across multiple plant species , 2005 .

[57]  P. Adler,et al.  Survival rates indicate that correlations between community-weighted mean traits and environments can be unreliable estimates of the adaptive value of traits. , 2018, Ecology letters.

[58]  S. Ollinger,et al.  A generalizable method for remote sensing of canopy nitrogen across a wide range of forest ecosystems , 2008 .

[59]  L. Aragão,et al.  New insights into the variability of the tropical land carbon cycle from the El Niño of 2015/2016 , 2018, Philosophical Transactions of the Royal Society B: Biological Sciences.

[60]  R. Valentini,et al.  Discrimination of tropical forest types, dominant species, and mapping of functional guilds by hyperspectral and simulated multispectral Sentinel-2 data , 2016 .

[61]  Yadvinder Malhi,et al.  Logging and soil nutrients independently explain plant trait expression in tropical forests. , 2018, The New phytologist.

[62]  F. Woodward,et al.  The relationship of leaf photosynthetic traits – Vcmax and Jmax – to leaf nitrogen, leaf phosphorus, and specific leaf area: a meta-analysis and modeling study , 2014, Ecology and evolution.

[63]  Roberta E. Martin,et al.  The Influence of Taxonomy and Environment on Leaf Trait Variation Along Tropical Abiotic Gradients , 2020, Frontiers in Genetics.

[64]  B. Deák,et al.  Assessing the efficiency of multispectral satellite and airborne hyperspectral images for land cover mapping in an aquatic environment with emphasis on the water caltrop (Trapa natans) , 2019, International Journal of Remote Sensing.

[65]  Catherine Linard,et al.  Geographical random forests: a spatial extension of the random forest algorithm to address spatial heterogeneity in remote sensing and population modelling , 2019, Geocarto International.

[66]  Michel Loreau,et al.  Biodiversity, Ecosystem Functioning, and Human Wellbeing: An Ecological and Economic Perspective , 2009 .

[67]  David Kenfack,et al.  Asynchronous carbon sink saturation in African and Amazonian tropical forests , 2020, Nature.

[68]  S. Ollinger Sources of variability in canopy reflectance and the convergent properties of plants. , 2011, The New phytologist.

[69]  J. Abatzoglou,et al.  TerraClimate, a high-resolution global dataset of monthly climate and climatic water balance from 1958–2015 , 2018, Scientific Data.

[70]  M. Schildhauer,et al.  Monitoring plant functional diversity from space , 2016, Nature Plants.

[71]  Craig C. Brelsford,et al.  Changes in leaf functional traits of rainforest canopy trees associated with an El Niño event in Borneo , 2019, Environmental Research Letters.

[72]  David A. Seal,et al.  The Shuttle Radar Topography Mission , 2007 .

[73]  Anatoly A. Gitelson,et al.  Remote estimation of nitrogen and chlorophyll contents in maize at leaf and canopy levels , 2013, Int. J. Appl. Earth Obs. Geoinformation.

[74]  W. D. Hawthorne,et al.  Ecological Profiles of Ghanaian Forest Trees , 1995 .

[75]  J. Terborgh,et al.  Basin-wide variations in Amazon forest structure and function are mediated by both soils and climate , 2012 .

[76]  S. Díaz,et al.  Vive la différence: plant functional diversity matters to ecosystem processes , 2001 .

[77]  Y. Shimabukuro,et al.  Tree species classification in tropical forests using visible to shortwave infrared WorldView-3 images and texture analysis , 2019, ISPRS Journal of Photogrammetry and Remote Sensing.

[78]  Marvin N. Wright,et al.  SoilGrids250m: Global gridded soil information based on machine learning , 2017, PloS one.

[79]  Xiao Feng,et al.  Open Science principles for accelerating trait-based science across the Tree of Life , 2020, Nature Ecology & Evolution.

[80]  Clayton C. Kingdon,et al.  Remotely estimating photosynthetic capacity, and its response to temperature, in vegetation canopies using imaging spectroscopy , 2015 .

[81]  R Core Team,et al.  R: A language and environment for statistical computing. , 2014 .

[82]  Onisimo Mutanga,et al.  Mapping forest aboveground biomass in the reforested Buffelsdraai landfill site using texture combinations computed from SPOT-6 pan-sharpened imagery , 2019, Int. J. Appl. Earth Obs. Geoinformation.

[83]  J. Terborgh,et al.  Compositional response of Amazon forests to climate change , 2018, Global change biology.

[84]  Owen L. Petchey,et al.  Biodiversity and Resilience of Ecosystem Functions. , 2015, Trends in ecology & evolution.

[85]  Philip A. Townsend,et al.  Quantifying the influences of spectral resolution on uncertainty in leaf trait estimates through a Bayesian approach to RTM inversion , 2016 .

[86]  Leo Breiman,et al.  Random Forests , 2001, Machine Learning.

[87]  Michele Dalponte,et al.  Topography shapes the structure, composition and function of tropical forest landscapes , 2018, Ecology letters.

[88]  Gregory Asner,et al.  An Approach for Foliar Trait Retrieval from Airborne Imaging Spectroscopy of Tropical Forests , 2018, Remote. Sens..

[89]  Roberta E. Martin,et al.  Large-scale climatic and geophysical controls on the leaf economics spectrum , 2016, Proceedings of the National Academy of Sciences.

[90]  Nathan J B Kraft,et al.  Drier tropical forests are susceptible to functional changes in response to a long-term drought. , 2019, Ecology letters.

[91]  Moon S. Kim,et al.  Estimating Corn Leaf Chlorophyll Concentration from Leaf and Canopy Reflectance , 2000 .