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Taureau, F.; Robin, M.; Proisy, C.; Fromard, F.; Imbert, D.; Debaine, F. |
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Mapping the mangrove forest canopy using spectral unmixing of very high spatial resolution satellite images |
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Journal Article |
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Year |
2019 |
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Remote Sensing |
Abbreviated Journal |
Remote Sens. |
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11 |
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3 |
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367 |
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Forest structure; Guadeloupe; Hemispherical photographs; Mangrove; Mayotte; New Caledonia; Remote sensing; Image resolution; Photography; Photomapping; Pixels; Remote sensing; Satellites; Vegetation; Forest structure; Guadeloupe; Hemispherical photographs; Mangrove; Mayotte; New Caledonia; Forestry |
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Abstract |
Despite the lowtree diversity and scarcity of the understory vegetation, the high morphological plasticity of mangrove trees induces, at the stand level, a very large variability of forest structures that need to be mapped for assessing the functioning of such complex ecosystems. Fully constrained linear spectral unmixing (FCLSU) of very high spatial resolution (VHSR) multispectral images was tested to fine-scale map mangrove zonations in terms of horizontal variation of forest structure. The study was carried out on three Pleiades-1A satellite images covering French island territories located in the Atlantic, Indian, and Pacific Oceans, namely Guadeloupe, Mayotte, and New Caledonia archipelagos. In each image, FCLSU was trained from the delineation of areas exclusively related to four components including either pure vegetation, soil (ferns included), water, or shadows. It was then applied to the whole mangrove cover imaged for each island and yielded the respective contributions of those four components for each image pixel. On the forest stand scale, the results interestingly indicated a close correlation between FCLSU-derived vegetation fractions and canopy closure estimated from hemispherical photographs R 2 = 0.95) and a weak relation with the Normalized Difference Vegetation Index (R 2 = 0.29). Classification of these fractions also offered the opportunity to detect and map horizontal patterns of mangrove structure in a given site. K-means classifications of fraction indeed showed a global view of mangrove structure organization in the three sites, complementary to the outputs obtained from spectral data analysis. Our findings suggest that the pixel intensity decomposition applied to VHSR multispectral satellite images can be a simple but valuable approach for (i) mangrove canopy monitoring and (ii) mangrove forest structure analysis in the perspective of assessing mangrove dynamics and productivity. As with Lidar-based surveys, these potential new mapping capabilities deserve further physically based interpretation of sunlight scattering mechanisms within forest canopy. © 2019 by the authors. |
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UMR Ecologie des Forêts de Guyane (EcoFoG), INRA, CNRS, Cirad, AgroParisTech, Université des Antilles, Université de Guyane, Kourou, French Guiana, 97310, France |
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Export Date: 25 February 2019; Correspondence Address: Taureau, F.; Université de Nantes, UMR CNRS 6554 Littoral Environnement Télédétection Géomatique, Campus TertreFrance; email: florent.taureau@univ-nantes.fr; Funding details: Université de Nantes; Funding text 1: Funding: A part of this study was funded by the French Coastal Conservancy Institute. It was conducted as part of the PhD work of Florent Taureau supported by the University of Nantes.; References: Duke, N.C., Mangrove Coast (2014) Encyclopedia of Marine Geosciences, pp. 1-17. , Harff, J., Meschede, M., Petersen, S., Thiede, J., Eds.; Springer: Berlin, Germany; Feller, I.C., Lovelock, C.E., Berger, U., McKee, K.L., Joye, S.B., Ball, M.C., Biocomplexity in Mangrove Ecosystems (2010) Annu. Rev. Mar. Sci, 2, pp. 395-417; Krauss, K.W., Lovelock, C.E., McKee, K.L., López-Hoffman, L., Ewe, S.M., Sousa, W.P., Environmental drivers in mangrove establishment and early development: A review (2008) Aquat. 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Urban Plan, 182, pp. 44-54; Dronova, I., Object-Based Image Analysis inWetland Research: A Review (2015) Remote Sens, 7, pp. 6380-6413; Fei, S.X., Shan, C.H., Hua, G.Z., Remote Sensing of Mangrove Wetlands Identification (2011) Procedia Environ. Sci, 10, pp. 2287-2293; Heumann, B.W., Satellite remote sensing of mangrove forests: Recent advances and future opportunities (2011) Prog. Phys. Geogr, 35, pp. 87-108; Proisy, C., Couteron, P., Fromard, F., Predicting and mapping mangrove biomass from canopy grain analysis using Fourier-based textural ordination of IKONOS images (2007) Remote Sens. Environ, 109, pp. 379-392; Imbert, D., Labbé, P., Rousteau, A., Hurricane damage and forest structure in Guadeloupe, French West Indies (1996) J. Trop. Ecol, 12, pp. 663-680; Herteman, M., Fromard, F., Lambs, L., Effects of pretreated domestic wastewater supplies on leaf pigment content, photosynthesis rate and growth of mangrove trees: A field study from Mayotte Island, SW Indian Ocean (2011) Ecol. Eng, 37, pp. 1283-1291; Cremades, C., (2010) Cartographie des Habitats Naturels des Mangroves de Mayotte, , Direction de l'Agriculture et de la Forêt Service Environnement et Forêt: Mamoudzou, Mayotte; Jeanson, M., (2009) Morphodynamique du Littoral de Mayotte: des Processus au Réseau de Surveillance, , Université du Littoral Côte d'Opale: Dunkerque, France; Marchand, C., Dumas, P., (2007) Typologies et Biodiversité des Mangroves de Nouvelle-Calédonie, , IRD: Nouméa, Nouvelle-Calédonie; Glatthorn, J., Beckschäfer, P., Standardizing the Protocol for Hemispherical Photographs: Accuracy Assessment of Binarization Algorithms (2014) PLoS ONE, 9; Betbeder, J., Nabucet, J., Pottier, E., Baudry, J., Corgne, S., Hubert-Moy, L., Detection and Characterization of Hedgerows Using TerraSAR-X Imagery (2014) Remote Sens, 6, pp. 3752-3769; Betbeder, J., Hubert-Moy, L., Burel, F., Corgne, S., Baudry, J., Assessing ecological habitat structure from local to landscape scales using synthetic aperture radar (2015) Ecol. Indic, 52, pp. 545-557; Betbeder, J., Rapinel, S., Corgne, S., Pottier, E., Hubert-Moy, L., TerraSAR-X dual-pol time-series for mapping of wetland vegetation (2015) ISPRS J. Photogramm. Remote Sens, 107, pp. 90-98; (2013), Reference Book, eCognition Developer 8.9'; Trimble: Sunnyvale, CA, USA; Lobell, D.B., Asner, G.P., Law, B.E., Treuhaft, R.N., View angle effects on canopy reflectance and spectral mixture analysis of coniferous forests using AVIRIS (2002) Int. J. Remote Sens, 23, pp. 2247-2262; Viennois, G., Proisy, C., Feret, J.B., Prosperi, J., Sidik, F., Suhardjono; Rahmania, R., Longépé, N., Gaspar, P., Multitemporal Analysis of High-Spatial-Resolution Optical Satellite Imagery for Mangrove Species Mapping in Bali, Indonesia (2016) IEEE J. Sel. Top. Appl. Earth Obs. Remote Sens, 9, pp. 3680-3686; Adler-Golden, S.M., Matthew, M.W., Bernstein, L.S., Levine, R.Y., Berk, A., Richtsmeier, S.C., Acharya, P.K., Hoke, M.L., Atmospheric Correction for Short-wave Spectral Imagery Based on MODTRAN4 (1999) Soc. Photo-Opt. Instrum. Eng, 3753, pp. 61-70; Adeline, K.R.M., Chen, M., Briottet, X., Pang, S.K., Paparoditis, N., Shadow detection in very high spatial resolution aerial images: A comparative study (2013) ISPRS J. Photogramm. Remote Sens, 80, pp. 21-38; Heinz, D.C., Fully constrained least squares linear spectral mixture analysis method for material quantification in hyperspectral imagery (2001) IEEE Trans. Geosci. Remote Sens, 39, pp. 529-545; Caliński, T., Harabasz, J., A dendrite method for cluster analysis (1974) Commun. Stat, 3, pp. 1-27; Asner, G.P., Warner, A.S., Canopy shadow in IKONOS satellite observations of tropical forests and savannas (2003) Remote Sens. Environ, 87, pp. 521-533; Dennison, P.E., Halligan, K.Q., Roberts, D.A., A comparison of error metrics and constraints for multiple endmember spectral mixture analysis and spectral angle mapper (2004) Remote Sens. Environ, 93, pp. 359-367; Kuusk, A., The Hot Spot Effect in Plant Canopy Reflectance (1991) Photon-Vegetation Interactions: Applications in Optical Remote Sensing and Plant Ecology, pp. 139-159. , Myneni, R.B., Ross, J., Eds.; Springer: Berlin/Heidelberg, Germany; Barbier, N., Proisy, C., Véga, C., Sabatier, D., Couteron, P., Bidirectional texture function of high resolution optical images of tropical forest: An approach using LiDAR hillshade simulations (2011) Remote Sens. Environ, 115, pp. 167-179; Fromard, F., Vega, C., Proisy, C., Half a century of dynamic coastal change affecting mangrove shorelines of French Guiana (2004) A case study based on remote sensing data analyses and field surveys. Mar. Geol, 208, pp. 265-280; Ozdemir, I., Linear transformation to minimize the effects of variability in understory to estimate percent tree canopy cover using RapidEye data (2014) GIS Remote Sens, 51, pp. 288-300; Proisy, C., Féret, J.B., Lauret, N., Gastellu-Etchegorry, J.P., Mangrove Forest Dynamics Using Very High Spatial Resolution Optical Remote Sensing A2-Baghdadi, Nicolas (2016) Land Surface Remote Sensing in Urban and Coastal Areas, pp. 269-295. , Zribi, M., Ed.; Elsevier: Amsterdam, The Netherlands |
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EcoFoG @ webmaster @ |
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861 |
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Barassé, V.; Touchard, A.; Téné, N.; Tindo, M.; Kenne, M.; Klopp, C.; Dejean, A.; Bonnafé, E.; Treilhou, M. |
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The peptide venom composition of the fierce stinging ant tetraponera aethiops (formicidae: Pseudomyrmecinae) |
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Journal Article |
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2019 |
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Toxins |
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Toxins |
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11 |
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12 |
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732 |
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Defensive venom; Dimeric peptides; Peptidome; Tetraponera aethiops |
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In the mutualisms involving certain pseudomyrmicine ants and different myrmecophytes (i.e., plants sheltering colonies of specialized “plant-ant” species in hollow structures), the ant venom contributes to the host plant biotic defenses by inducing the rapid paralysis of defoliating insects and causing intense pain to browsing mammals. Using integrated transcriptomic and proteomic approaches, we identified the venom peptidome of the plant-ant Tetraponera aethiops (Pseudomyrmecinae). The transcriptomic analysis of its venom glands revealed that 40% of the expressed contigs encoded only seven peptide precursors related to the ant venom peptides from the A-superfamily. Among the 12 peptide masses detected by liquid chromatography-mass spectrometry (LC-MS), nine mature peptide sequences were characterized and confirmed through proteomic analysis. These venom peptides, called pseudomyrmecitoxins (PSDTX), share amino acid sequence identities with myrmeciitoxins known for their dual offensive and defensive functions on both insects and mammals. Furthermore, we demonstrated through reduction/alkylation of the crude venom that four PSDTXs were homo- and heterodimeric. Thus, we provide the first insights into the defensive venom composition of the ant genus Tetraponera indicative of a streamlined peptidome. |
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CNRS, UMR EcoFoG, AgroParisTech, Cirad, INRA, Université des Antilles, Université de Guyane, Kourou, 97310, France |
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20726651 (Issn) |
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EcoFoG @ webmaster @ |
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902 |
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Honorio Coronado, E.N.; Blanc-Jolivet, C.; Mader, M.; García-Dávila, C.R.; Sebbenn, A.M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Tysklind, N.; Troispoux, V.; Massot, M.; Degen, B. |
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Development of nuclear and plastid SNP markers for genetic studies of Dipteryx tree species in Amazonia |
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2019 |
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Conservation Genetics Resources |
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Conserv. Genet. Res. |
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11 |
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3 |
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333-336 |
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We developed nuclear and plastid single nucleotide polymorphism (SNP) and insertion/deletion (INDEL) markers for Dipteryx species using a combination of restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing. Of the total 315 loci genotyped using a MassARRAY platform, 292 loci were variable and polymorphic among the 73 sampled individuals from French Guiana, Brasil, Peru, and Bolivia. A final set of 56 nuclear SNPs, 26 chloroplast SNPs, 2 chloroplast INDELs, and 32 mitochondrial SNPs identifying significant population structure was developed. This set of loci will be useful for studies on population genetics of Dipteryx species in Amazonia. |
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EcoFoG @ webmaster @ Honorio Coronado2019 |
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906 |
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Sebbenn, A.M.; Blanc-Jolivet, C.; Mader, M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Honorio Coronado, E.N.; García-Dávila, C.; Tysklind, N.; Troispoux, V.; Delcamp, A.; Degen, B. |
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Nuclear and plastidial SNP and INDEL markers for genetic tracking studies of Jacaranda copaia |
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2019 |
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Conservation Genetics Resources |
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Conserv. Gen. Res. |
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11 |
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3 |
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341-343 |
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DNA fingerprints; Geographical origin; Jacaranda copaia; MassARRAY; MiSeq; RADSeq; Tropical timber |
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Nuclear and plastidial single nucleotide polymorphism (SNP) and INDEL markers were developed using restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing for population genetics and timber tracking purposes in the Neotropical timber species Jacaranda copaia. We used 407 nuclear SNPs, 29 chloroplast, and 31 mitochondrial loci to genotype 92 individuals from Brazil, Bolivia, French Guiana, and Peru. Based on high amplification rates and genetic differentiation among populations, 113 nuclear SNPs, 11 chloroplast, and 4 mitochondrial loci were selected, and their use validated for genetic tracking of timber origin. |
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BIOGECO, INRA, Univ. Bordeaux, Cestas, 33610, France |
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Springer Netherlands |
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18777252 (Issn) |
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EcoFoG @ webmaster @ |
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907 |
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Chaves, C.L.; Blanc-Jolivet, C.; Sebbenn, A.M.; Mader, M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Honorio Coronado, E.N.; Garcia-Davila, C.; Tysklind, N.; Troispoux, V.; Massot, M.; Degen, B. |
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Nuclear and chloroplastic SNP markers for genetic studies of timber origin for Hymenaea trees |
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Journal Article |
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2019 |
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Conservation Genetics Resources |
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Conserv. Gen. Res. |
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11 |
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3 |
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329-331 |
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DNA fingerprints; Geographical origin; MiSeq; RADSeq |
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We developed nuclear and chloroplastic single nucleotide polymorphism (SNP) and INDEL (insertion/deletion) markers using restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing to set up a genetic tracking method of the geographical origin of Hymenaea sp. From two initial sets of 358 and 32 loci used to genotype at least 94 individuals, a final set of 75 nSNPs, 50 cpSNPs and 6 INDELs identifying significant population structure was developed. © 2018, Springer Nature B.V. |
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Departamento de Fitotecnia, Faculdade de Engenharia de Ilha Solteira, Universidade Estadual Paulista, Ilha Solteira, SP, Brazil |
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EcoFoG @ webmaster @ |
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908 |
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Tysklind, N.; Blanc-Jolivet, C.; Mader, M.; Meyer-Sand, B.R.V.; Paredes-Villanueva, K.; Honorio Coronado, E.N.; García-Dávila, C.R.; Sebbenn, A.M.; Caron, H.; Troispoux, V.; Guichoux, E.; Degen, B. |
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Development of nuclear and plastid SNP and INDEL markers for population genetic studies and timber traceability of Carapa species |
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Journal Article |
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2019 |
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Conservation Genetics Resources |
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Conserv. Gen. Res. |
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11 |
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337-339 |
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Carapa guianensis; Carapa surinamensis; DNA-fingerprints; Geographical origin; MassARRAY; MiSeq; RADSeq; Tropical timber |
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Low coverage MiSeq genome sequencing and restriction associated DNA sequencing (RADseq) were used to identify nuclear and plastid SNP and INDEL genetic markers in Carapa guianensis. 261 genetic markers including 237 nuclear SNPs, 22 plastid SNPs, and 2 plastid INDELs are described based on 96 genotyped individuals from French Guiana, Brazil, Peru, and Bolivia. The best 117 SNPs for identifying population structure and performing individual assignment are assembled into four multiplexes for MassARRAY genotyping. |
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BIOGECO, INRA, University Bordeaux, Cestas, 33610, France |
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Springer Netherlands |
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EcoFoG @ webmaster @ |
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Lehnebach, R.; Bossu, J.; Va, S.; Morel, H.; Amusant, N.; Nicolini, E.; Beauchene, J. |
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Wood density variations of legume trees in French Guiana along the shade tolerance continuum: Heartwood effects on radial patterns and gradients |
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Journal Article |
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2019 |
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Forests |
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Forests |
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10 |
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2 |
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French Guiana; Growth-mortality rate; Heartwood; Heartwood extractives; Legumes; Sapwood; Shade tolerance; Tropical tree species; Wood density variations |
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Increasing or decreasing wood density (WD) from pith to bark is commonly observed in tropical tree species. The different types of WD radial variations, long been considered to depict the diversity of growth and mechanical strategies among forest guilds (heliophilic vs. shade-tolerant), were never analyzed in the light of heartwood (HW) formation. Yet, the additional mass of chemical extractives associated to HW formation increases WD and might affect both WD radial gradient (i.e., the slope of the relation between WD and radial distance) and pattern (i.e., linear or nonlinear variation). We studied 16 legumes species from French Guiana representing a wide diversity of growth strategies and positions on the shade-tolerance continuum. Using WD measurements and available HW extractives content values, we computed WD corrected by the extractive content and analyzed the effect of HW on WD radial gradients and patterns. We also related WD variations to demographic variables, such as sapling growth and mortality rates. Regardless of the position along the shade-tolerance continuum, correcting WD gradients reveals only increasing gradients. We determined three types of corrected WD patterns: (1) the upward curvilinear pattern is a specific feature of heliophilic species, whereas (2) the linear and (3) the downward curvilinear patterns are observed in both mid- and late-successional species. In addition, we found that saplings growth and mortality rates are better correlated with the corrected WD at stem center than with the uncorrected value: taking into account the effect of HW extractives on WD radial variations provides unbiased interpretation of biomass accumulation and tree mechanical strategies. Rather than a specific feature of heliophilic species, the increasing WD gradient is a shared strategy regardless of the shade tolerance habit. Finally, our study stresses to consider the occurrence of HW when using WD. |
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Ecology of Guianan Forests (EcoFoG), AgroParisTech, French Agricultural Research and International Cooperation Organization (CIRAD), French National Centre for Scientific Research (CNRS), French National Institute for Agricultural Research (INRA), Université des Antilles, Université de Guyane, Kourou, French Guiana, 97310, France |
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Export Date: 1 February 2019; Correspondence Address: Lehnebach, R.; Laboratory of Botany and Modeling of Plant Architecture and Vegetation (AMAP), French Agricultural Research and International Cooperation Organization (CIRAD)France; email: romain.lehnebach@cirad.fr; Funding details: Agence Nationale de la Recherche, ANR; Funding details: Federación Española de Enfermedades Raras, FEDER; Funding text 1: The authors thank Grégoire Vincent, Jean-François Molino, and Daniel Sabatier for providing demographical data.). The French Agricultural Research Centre for International Development (CIRAD) funded Romain Lehnebach PhD scholarship. This research project was also funded by the European Regional Development Fund (FEDER, no 31703) and benefits from an 'Investissements d'Avenir' grant managed by the French National Research Agency (CEBA, ref. ANR-10-LABX-25-01).; References: Kollmann, F.F.P., Côté, W.A., (1984) Principles of Wood Science and Technology: I Solid Wood, , Springer: Berlin, Germany; Muller-Landau, H.C., Interspecific and inter-site variation in wood specific gravity of tropical trees (2004) Biotropica, 36, pp. 20-32; Van Gelder, H.A., Poorter, L., Sterck, F.J., Wood mechanics, allometry, and life-history variation in a tropical rain forest tree community (2006) New Phyt, 171, pp. 367-378; Chave, J., Coomes, D., Jansen, S., Lewis, S.L., Swenson, N.G., Zanne, A.E., Towards a worldwide wood economics spectrum (2009) Ecol. Lett, 12, pp. 351-366; Wright, S.J., Kitajima, K., Kraft, N.J.B., Reich, P.B., Wright, I.J., Bunker, D.E., Condit, R., Díaz, S., Functional traits and the growth-mortality trade-off in tropical trees (2010) Ecology, 91, pp. 3664-3674; Niklas, K.J., Influence of tissue density-specific mechanical properties on the scaling of plant height (1993) Ann. 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Ecol, 29, pp. 111-120; Hillis, W.E., Secondary Changes in Wood (1977) In The Structure, Biosynthesis, and Degradation of Wood, 11, pp. 247-309. , Loewus, F., Runeckles, V.C., Eds.; Plenum Press: New York, NY, USA; Hillis, W.E., (1987) Heartwood and Tree Exudates, , Springer-Verlag: Berlin, Germany; Yang, K.C., (1990) The Ageing Process of Sapwood Ray Parenchyma Cells in Four Woody Species, , Ph.D. Thesis, University of British Columbia, Vancouver, BC, Canada; Royer, M., Stien, D., Beauchêne, J., Herbette, G., McLean, J.P., Thibaut, A., Thibaut, B., Extractives of the tropical wood wallaba (Eperua falcata Aubl.) as natural anti-swelling agents (2010) Holzforschung, 64, pp. 211-215; Amusant, N., Moretti, C., Richard, B., Prost, E., Nuzillard, J.M., Thévenon, M.F., Chemical compounds from Eperua falcata and Eperua grandiflora heartwood and their biological activities against wood destroying fungus (Coriolus versicolor) (2006) Holz Roh Werkst, 65, pp. 23-28; Lehnebach, R., (2015) Variabilité Ontogénique du Profil Ligneux chez les Légumineuses de Guyane Française, , Ph.D. Thesis, Université de Montpellier, Montpellier, France; Sabatier, D., Prévost, M.F., Quelques données sur la composition floristique, et la diversite des peuplements forestiers de guyane francaise (1990) Bois For. Trop, 219, pp. 31-55; Ter Steege, H., Pitman, N.C.A., Phillips, O.L., Chave, J., Sabatier, D., Duque, A., Molino, J.-F., Castellanos, H., Continental-scale patterns of canopy tree composition and function across Amazonia (2006) Nature, 443, pp. 444-447; Ter Steege, H., Vaessen, R.W., Cárdenas-López, D., Sabatier, D., Antonelli, A., de Oliveira, S.M., Pitman, N.C.A., Salomão, R.P., The discovery of the Amazonian tree flora with an updated checklist of all known tree taxa (2016) Sci. Rep, 6, p. 29549; Woodcock, D.W., Shier, A.D., Does canopy position affect wood specific gravity in temperate forest trees? (2003) Ann. Bot, 91, pp. 529-537; Osazuwa-Peters, O.L., Wright, S.J., Zanne, A.E., Linking wood traits to vital rates in tropical rainforest trees: Insights from comparing sapling and adult wood (2017) Am. J. Bot, 104, pp. 1464-1473; Favrichon, V., Classification des espèces arborées en groupes fonctionnels en vue de la réalisation d'un modèle de dynamique de peuplement en forêt guyanaise (1994) Rev. Ecol. Terre Vie, 49, pp. 379-403; (2016) R: A Language and Environment for Statistical Computing, , R Foundation for Statistical Computing: Vienna, Austria; Taylor, A.M., Gartner, B.L., Morrell, J.J., Heartwood formation and natural durability-A review (2002) Wood Fiber Sci, 34, pp. 587-611; Molino, J.F., Sabatier, D., Tree diversity in tropical rain forests: A validation of the intermediate disturbance hypothesis (2001) Science, 294, pp. 1702-1704; Vincent, G., Molino, J.-F., Marescot, L., Barkaoui, K., Sabatier, D., Freycon, V., Roelens, J.B., The relative importance of dispersal limitation and habitat preference in shaping spatial distribution of saplings in a tropical moist forest: A case study along a combination of hydromorphic and canopy disturbance gradients (2011) Ann. For. Sci, 68, pp. 357-370; Pinheiro, J., Bates, D., (2000) Mixed-Effects Models in S and S-PLUS, , Springer-Verlag: New York, NY, USA; Hurvich, C.M., Tsai, C.-L., Bias of the corrected AIC criterion for underfitted regression and time series models (1991) Biometrika, 78, pp. 499-509; Mazerolle, M.J., AICcmodavg: Model Selection and Multimodel Inference Based on (Q)AIC(c), , https://cran.r-project.org/package=AICcmodavg, R Package Version 2.1-0. 2016 (accessed on 1 December 2018); Harrel, F.E.J., Hmisc: Harrell Miscellaneous, , https://CRAN.R-project.org/package=Hmisc, R Package Version 3.14-3. 2016 (accessed on 1 December 2018); De Mendiburu, F., (2016) Agricolae: Statistical Procedures for Agricultural Research, , https://CRAN.R-project.org/package=agricolae, (accessed on 1 December 2018). 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Biodegrad, 94, pp. 103-108; Falster, D.S., Westoby, M., Tradeoffs between height growth rate, stem persistence and maximum height among plant species in a post-fire succession (2005) Oikos, 111, pp. 57-66; Panshin, A.J., de Zeeuw, C., (1980) Textbook of Wood Technology: Structure, Identification, Properties, and Uses of the Commercial Woods of the United States and Canada, , McGraw-Hill: New York, NY, USA; Hernández, R.E., Influence of accessory substances, wood density and interlocked grain on the compressive properties of hardwoods (2007) Wood Sci. Tech, 41, pp. 249-265; Gherardi Hein, P.R., Tarcísio Lima, J., Relationships between microfibril angle, modulus of elasticity and compressive strength in Eucalyptus wood (2012) Maderas. Cienc. Tecnol, 14, pp. 267-274; Cave, I.D., Walker, J.C.F., Stiffness of wood in fast-grown plantation softwoods: Theinfluence of microfibril angle (1994) For. Prod. J, 44, pp. 43-48; Bossu, J., Lehnebach, R., Corn, S., Regazzi, A., Beauchêne, J., Clair, B., Interlocked grain and density patterns in Bagassa guianensis: Changes with ontogeny and mechanical consequences for trees (2018) Trees, 32, pp. 1643-1655; Hart, J., Johnson, K., Production of decay-resistant sapwood in response to injury (1970) Wood Sci. Tech, 4, pp. 267-272; Boddy, L., Microenvironmental Aspects of Xylem Defenses to Wood Decay Fungi (1992) Defense Mechanisms of Woody Plants Against Fungi, pp. 96-132. , Blanchette, R.A., Biggs, A.R., Eds.; Springer: Berlin, Germany; Roszaini, K., Hale, M.D., Salmiah, U., In-vitro decay resistance of 12 malaysian broadleaf hardwood trees as a function of wood density and extractives compounds (2016) J. Trop. For. Sci, 28, pp. 533-540; Stamm, A.J., Density of wood substance, adsorption by wood, and permeability of wood (1929) J. Phys. Chem, 33, pp. 398-414 |
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858 |
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Ruiz-González, M.X.; Leroy, C.; Dejean, A.; Gryta, H.; Jargeat, P.; Carrión, A.D.A.; Orivel, J. |
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Do host plant and associated ant species affect microbial communities in myrmecophytes? |
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Journal Article |
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2019 |
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Insects |
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Insects |
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10 |
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11 |
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391 |
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Allomerus decemarticulatus; Allomerus octoarticulatus; Azteca sp; Cf; Cordia nodosa; Depilis; Domatia; Hirtella physophora; Microbial diversity |
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Ant-associated microorganisms can play crucial and often overlooked roles, and given the diversity of interactions that ants have developed, the study of the associated microbiomes is of interest. We focused here on specialist plant-ant species of the genus Allomerus that grow a fungus to build galleries on their host-plant stems. Allomerus-inhabited domatia, thus, might be a rich arena for microbes associated with the ants, the plant, and the fungus. We investigated the microbial communities present in domatia colonised by four arboreal ants: Allomerus decemarticulatus, A. octoarticulatus, A. octoarticulatus var. demerarae, and the non-fungus growing plant-ant Azteca sp. cf. depilis, inhabiting Hirtella physophora or Cordia nodosa in French Guiana. We hypothesized that the microbial community will differ among these species. We isolated microorganisms from five colonies of each species, sequenced the 16S rRNA or Internal TranscribedSpacer (ITS) regions, and described both the alpha and beta diversities. We identified 69 microbial taxa, which belong to five bacterial and two fungal phyla. The most diverse phyla were Proteobacteria and Actinobacteria. The microbial community of Azteca cf. depilis and Allomerus spp. differed in composition and richness. Geographical distance affected microbial communities and richness but plant species did not. Actinobacteria were only associated with Allomerus spp. |
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Biodiversity Genomics Team, Plant Ecophysiology & Evolution Group, Guangxi Key Laboratory of Forest Ecology and Conservation, College of Forestry, Daxuedonglu 100, Nanning, Guangxi 530005, China |
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Export Date: 18 November 2019; Correspondence Address: Ruiz-González, M.X.; Departamento de Ciencias Biológicas, Universidad Técnica Particular de Loja, San Cayetano Alto s/n, Ecuador; email: marioxruizgonzalez@gmail.com |
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Denis, T.; Richard-Hansen, C.; Brunaux, O.; Guitet, S.; Hérault, B. |
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Birds of a feather flock together: Functionally similar vertebrates positively co-occur in Guianan forests |
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Journal Article |
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2019 |
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Ecosphere |
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Ecosphere |
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10 |
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3 |
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e02566 |
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activity matching; birds; Guiana Shield; information exchange; mammals; mixed-species associations; mutualism; terra firme rainforests |
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Medium- and large-sized vertebrates play a key role in shaping overall forest functioning. Despite this, vertebrate interactions, from competition to mutualism, remain poorly studied, even though these interactions should be taken into account in our conservation and management strategies. Thus, we tackled the question of vertebrate co-occurrence in tropical rainforests: Are (negative or positive) co-occurrences dependent on forest structure and composition? and Are these co-occurrences linked to functional species similarity? We recorded the occurrence of 21 medium- and large-sized vertebrates in 19 French Guianan locations in which a large set of forest structure and composition descriptors were collected. We used a probabilistic model to look for co-occurrences at different spatial scales, and species pairwise co-occurrences were then compared to those generated solely on the basis of forest structure and composition. We then quantified the co-occurrence strength between pairwise species dyads and determined whether they relied on species functional similarity, controlling for the environmental effects. We found that positive co-occurrences vastly outnumbered negative co-occurrences, were only partly shaped by the local environment, and were closely linked to species functional similarity. Thus, groups of species sharing similar functional traits are more prone to co-occur, highlighting the key role of functional redundancy in structuring species assemblages. We discuss how positive interactions could generate the predominance of positive co-occurrences in oligotrophic terra firme (unflooded) forests when resources are scarce and dispersed in dry season. Finally, we identified functional groups based on co-occurrence strength and suggested that frugivory/granivory and body size are of primary importance in species interactions in Neotropical vertebrate communities. © 2019 The Authors. |
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INPHB, Institut National Polytechnique Félix Houphouët-Boigny, Yamoussoukro, Cote d'Ivoire |
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Export Date: 16 March 2020; Correspondence Address: Denis, T.; Office National de la Chasse et de la Faune Sauvage, UMR EcoFoG (AgroParisTech, Cirad, CNRS, INRA, Université des Antilles, Université de Guyane)France; email: thomas.denis@ecofog.gf |
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EcoFoG @ webmaster @ |
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924 |
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Cantera, I.; Cilleros, K.; Valentini, A.; Cerdan, A.; Dejean, T.; Iribar, A.; Taberlet, P.; Vigouroux, R.; Brosse, S. |
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Optimizing environmental DNA sampling effort for fish inventories in tropical streams and rivers |
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Journal Article |
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2019 |
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Scientific Reports |
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Sci. Rep. |
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9 |
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3085 |
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Environmental DNA (eDNA) metabarcoding is a promising tool to estimate aquatic biodiversity. It is based on the capture of DNA from a water sample. The sampled water volume, a crucial aspect for efficient species detection, has been empirically variable (ranging from few centiliters to tens of liters). This results in a high variability of sampling effort across studies, making comparisons difficult and raising uncertainties about the completeness of eDNA inventories. Our aim was to determine the sampling effort (filtered water volume) needed to get optimal inventories of fish assemblages in species-rich tropical streams and rivers using eDNA. Ten DNA replicates were collected in six Guianese sites (3 streams and 3 rivers), resulting in sampling efforts ranging from 17 to 340 liters of water. We show that sampling 34 liters of water detected more than 64% of the expected fish fauna and permitted to distinguish the fauna between sites and between ecosystem types (stream versus rivers). Above 68 liters, the number of detected species per site increased slightly, with a detection rate higher than 71%. Increasing sampling effort up to 340 liters provided little additional information, testifying that filtering 34 to 68 liters is sufficient to inventory most of the fauna in highly diverse tropical aquatic ecosystems. © 2019, The Author(s). |
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HYDRECO, Laboratoire Environnement de Petit Saut, B.P 823, Kourou Cedex, F-97388, French Guiana |
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Nature Publishing Group |
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20452322 (Issn) |
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