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| Author |
Fu, T.; Houel, E.; Amusant, N.; Touboul, D.; Genta-Jouve, G.; Della-Negra, S.; Fisher, G.L.; Brunelle, A.; Duplais, C. |
| Title |
Biosynthetic investigation of γ-lactones in Sextonia rubra wood using in situ TOF-SIMS MS/MS imaging to localize and characterize biosynthetic intermediates |
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Journal Article |
| Year |
2019 |
Publication |
Scientific Reports |
Abbreviated Journal |
Sci. Rep. |
| Volume |
9 |
Issue |
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Pages |
1928 |
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Molecular analysis by parallel tandem mass spectrometry (MS/MS) imaging contributes to the in situ characterization of biosynthetic intermediates which is crucial for deciphering the metabolic pathways in living organisms. We report the first use of TOF-SIMS MS/MS imaging for the cellular localization and characterization of biosynthetic intermediates of bioactive γ-lactones rubrynolide and rubrenolide in the Amazonian tree Sextonia rubra (Lauraceae). Five γ-lactones, including previously reported rubrynolide and rubrenolide, were isolated using a conventional approach and their structural characterization and localization at a lateral resolution of ~400 nm was later achieved using TOF-SIMS MS/MS imaging analysis. 2D/3D MS imaging at subcellular level reveals that putative biosynthetic γ-lactones intermediates are localized in the same cell types (ray parenchyma cells and oil cells) as rubrynolide and rubrenolide. Consequently, a revised metabolic pathway of rubrynolide was proposed, which involves the reaction between 2-hydroxysuccinic acid and 3-oxotetradecanoic acid, contrary to previous studies suggesting a single polyketide precursor. Our results provide insights into plant metabolite production in wood tissues and, overall, demonstrate that combining high spatial resolution TOF-SIMS imaging and MS/MS structural characterization offers new opportunities for studying molecular and cellular biochemistry in plants. © 2019, The Author(s). |
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Physical Electronics, Chanhassen, MN 55317, United States |
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Nature Publishing Group |
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20452322 (Issn) |
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EcoFoG @ webmaster @ |
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866 |
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Meyer-Sand, B.R.V.; Blanc-Jolivet, C.; Mader, M.; Paredes-Villanueva, K.; Tysklind, N.; Sebbenn, A.M.; Guichoux, E.; Degen, B. |
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Development of a set of SNP markers for population genetics studies of Ipe (Handroanthus sp.), a valuable tree genus from Latin America |
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Journal Article |
| Year |
2018 |
Publication |
Conservation Genetics Resources |
Abbreviated Journal |
Conserv. Gen. Res. |
| Volume |
10 |
Issue |
4 |
Pages |
779-781 |
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Handroanthus sp; MassARRAY; Single nucleotide polymorphism |
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A combination of restriction associated DNA sequencing (RADSeq) and low coverage MiSeq genome sequencing was used for the development of single nucleotide polymorphisms (SNP) and INDEL (insertion/deletions) genetic markers for Ipe (Handroanthus sp.). Of the 402 putative loci identified, 389 SNPs and INDELs (315 nuclear SPNs, six chloroplast INDELs, 15 chloroplast SNPs, 12 mitochondrial INDELs and 41 mitochondrial SNPs) were successfully genotyped at 93 individuals from Brazil, Bolivia and French Guiana using a MassARRAY® iPLEX™ platform. This set of markers will be invaluable for population genetics, phylogeography and DNA fingerprinting studies. © 2017, Springer Science+Business Media B.V., part of Springer Nature. |
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Plateforme Génome Transcriptome de Bordeaux, INRA Pierroton, Bâtiment Artiga, 69 route d’Arcachon, Cestas, 33610, France |
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Springer Netherlands |
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18777252 (Issn) |
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Export Date: 12 November 2018; Correspondence Address: Blanc-Jolivet, C.; Thünen Institute of Forest Genetics, Sieker Landstrasse 2, Germany; email: celine.blanc-jolivet@thuenen.de; References: Blanc-Jolivet, C., Kersten, B., Bourland, N., Guichoux, E., Delcamp, A., Doucet, J.-L., Degen, B., Development of nuclear SNP markers for the timber tracking of the African tree species Sapelli, Entandrophragma cylindricum (2017) Conserv Genet Resour; Blanc-Jolivet, C., Kersten, B., Daïnou, K., Hardy, O., Guichoux, E., Delcamp, A., Degen, B., Development of nuclear SNP markers for genetic tracking of Iroko, Milicia excelsa and Milicia regia (2017) Conserv Genet Resour; Braga, A.C., Reis, A.M.M., Leoi, L.T., Pereira, R.W., Collevatti, R.G., Development and characterization of microsatellite markers for the tropical tree species Tabebuia aurea (Bignoniaceae) (2007) Mol Ecol Notes, 7, pp. 53-56. , COI: 1:CAS:528:DC%2BD2sXis1Sjuro%3D; Dumolin, S., Demesure, B., Pettit, R., Inheritance of chloroplast and mitochondrial genomes in pedunculate oak investigated with an efficient PCR method (1995) Theor Appl Genet, 91, pp. 1253-1256. , COI: 1:CAS:528:DyaK28XhsFKmsLo%3D; Goudet, J., Fstat (Version 2.9.3.2.): a computer program to calculate F-statistics (2002) J Heredity, 86, pp. 485-486; Grose, S.O., Olmstead, R.G., Evolution of a charismatic neotropical clade: molecular phylogeny of Tabebuia s. L crescentieae, and allied genera (Bignoniaceae) (2007) Syst Bot, 32, pp. 650-659; Jardine, D.I., Blanc-Jolivet, C., Dixon, R.R.M., Dormontt, E.E., Dunker, B., Gerlach, J., Development of SNP markers for Ayous (Triplochiton scleroxylon K. Schum) an economically important tree species from tropical West and Central Africa (2016) Conserv Genet Resour, 8 (2), pp. 129-139; Miller, M.R., Dunham, J.P., Amores, A., Cresko, W.A., Johnson, E.A., Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers (2007) Genome Res, 17, pp. 240-248. , COI: 1:CAS:528:DC%2BD2sXhsFKis7w%3D; Pakull, B., Mader, M., Kersten, B., Ekue, M.R.M., Dipelet, U.G.B., Paulini, M., Development of nuclear, chloroplast and mitochondrial SNP markers for Khaya sp (2016) Conserv Genet Resour, 8 (3), pp. 283-297; Schulze, M., Grogan, J., Uhl, C., Lentini, M., Vidal, E., Evaluating Ipê (Tabebuia, Bignoniaceae) logging in amazonia: Sustainable management or catalyst for forest degradation? (2008) Biol Conserv, 141, pp. 2071-2085; Straub, S.C., Parks, M., Weitemier, K., fishbein, M., Cronn, R.C., Liston, A., Navigating the tip of the genomic iceberg: next-generation sequencing for plant systematics (2012) Am J Bot, 99, pp. 349-364. , COI: 1:CAS:528:DC%2BC38XksValtbo%3D |
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EcoFoG @ webmaster @ |
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832 |
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Devault, D.A.; Lévi, Y.; Karolak, S. |
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Applying sewage epidemiology approach to estimate illicit drug consumption in a tropical context: Bias related to sewage temperature and pH |
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Journal Article |
| Year |
2017 |
Publication |
Science of the Total Environment |
Abbreviated Journal |
Science of the Total Environment |
| Volume |
584-585 |
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252-258 |
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Cannabis; Degradation; H2s; Half-life; Illicit drugs; Wastewater |
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Illicit drug consumption can be estimated from drug target residue (DTR) in wastewater, with the reliability of results being partly linked to DTR stability in the sewage network. However, wastewater temperature and pH drive the stability of molecules and, in this context, tropical conditions must be studied to specify the impact of residence time in the sewage network on DTR degradation. Warmth enhances biotic and abiotic processes such as degradation, leading to a decrease in oxygen content, and consequently, early diagenesis conditions in wastewater. In this study, we conduct laboratory studies under acidic pH and high temperature (30 °C) conditions to determine the degradation half-lives of cocaine (COC), tetrahydrocannabinol, and heroine targets, allowing COC/benzoylecgonine (BZE) ratio variations to be predicted in sewage networks. A rapid COC degradation is observed, as already reported in the literature but without a short-term significant difference between 20 °C and 30 °C. Acidic pH seems to prevent degradation. Thus, theoretically, the use of COC as DTR is only reliable in acidic conditions, with the decrease in COC concentration being 6% at 8 h, but over 40% in other conditions. By contrast, the use of BZE as DTR to estimate COC consumption, which is performed in practice, can be undertaken with the same back-calculation equation as used in temperate countries. However, 11-nor-delta-9-carboxytetrahydrocannabinol stability is more influenced by high temperature: concentration levels after 24 h are 20% lower at 30 °C than at 20 °C, corresponding to a 20% and 40% decrease, respectively. Based on a mean residence time of 8 h, underestimated cannabis consumption is close to 15% in tropical contexts, which is double that of temperate areas. © 2017 Elsevier B.V. |
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Public Health and Environnement Laboratory, UMR 8079 Ecologie Systématique Evolution, Univ. Paris-Sud, CNRS, AgroParisTech, Université Paris-Saclay, Orsay, France |
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Export Date: 8 March 2017 |
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EcoFoG @ webmaster @ |
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741 |
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Aubry-Kientz, M.; Rossi, V.; Wagner, F.; Herault, B. |
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Identifying climatic drivers of tropical forest dynamics |
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Journal Article |
| Year |
2015 |
Publication |
Biogeosciences |
Abbreviated Journal |
Biogeosciences |
| Volume |
12 |
Issue |
19 |
Pages |
5583-5596 |
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In the context of climate change, identifying and then predicting the impacts of climatic drivers on tropical forest dynamics is becoming a matter of urgency. To look at these climate impacts, we used a coupled model of tropical tree growth and mortality, calibrated with forest dynamic data from the 20-year study site of Paracou, French Guiana, in order to introduce and test a set of climatic variables. Three major climatic drivers were identified through the variable selection procedure: drought, water saturation and temperature. Drought decreased annual growth and mortality rates, high precipitation increased mortality rates and high temperature decreased growth. Interactions between key functional traits, stature and climatic variables were investigated, showing best resistance to drought for trees with high wood density and for trees with small current diameters. Our results highlighted strong long-term impacts of climate variables on tropical forest dynamics, suggesting potential deep impacts of climate changes during the next century. © Author(s) 2015. |
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Remote Sensing Division, National Institute for Space Research-INPE, São José dos Campos, SP, Brazil |
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Export Date: 16 October 2015 |
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EcoFoG @ webmaster @ |
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631 |
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Rowland, L.; Hill, T.C.; Stahl, C.; Siebicke, L.; Burban, B.; Zaragoza-Castells, J.; Ponton, S.; Bonal, D.; Meir, P.; Williams, M. |
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Evidence for strong seasonality in the carbon storage and carbon use efficiency of an Amazonian forest |
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Journal Article |
| Year |
2014 |
Publication |
Global Change Biology |
Abbreviated Journal |
Global Change Biol. |
| Volume |
20 |
Issue |
3 |
Pages |
979-991 |
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Carbon use efficiency; Dalec; Data assimilation; Ecosystem respiration; French Guiana; Seasonal carbon fluxes; Tropical forest |
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The relative contribution of gross primary production and ecosystem respiration to seasonal changes in the net carbon flux of tropical forests remains poorly quantified by both modelling and field studies. We use data assimilation to combine nine ecological time series from an eastern Amazonian forest, with mass balance constraints from an ecosystem carbon cycle model. The resulting analysis quantifies, with uncertainty estimates, the seasonal changes in the net carbon flux of a tropical rainforest which experiences a pronounced dry season. We show that the carbon accumulation in this forest was four times greater in the dry season than in the wet season and that this was accompanied by a 5% increase in the carbon use efficiency. This seasonal response was caused by a dry season increase in gross primary productivity, in response to radiation and a similar magnitude decrease in heterotrophic respiration, in response to drying soils. The analysis also predicts increased carbon allocation to leaves and wood in the wet season, and greater allocation to fine roots in the dry season. This study demonstrates implementation of seasonal variations in parameters better enables models to simulate observed patterns in data. In particular, we highlight the necessity to simulate the seasonal patterns of heterotrophic respiration to accurately simulate the net carbon flux seasonal tropical forest. © 2013 The Authors Global Change Biology Published by John Wiley & Sons Ltd. |
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Research School of Biology, Division of Plant Sciences, Australian National University, Canberra, ACT, 0200, Australia |
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13541013 (Issn) |
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Cited By (since 1996):1; Export Date: 24 February 2014; Source: Scopus; Language of Original Document: English; Correspondence Address: Rowland, L.; School of Geosciences, University of Edinburgh, Edinburgh, EH9 3JN, United Kingdom; email: lucy.rowland@ed.ac.uk; Funding Details: FT110100457, ARC, Australian Research Council; Funding Details: NE/F002149/1, NERC, Natural Environment Research Council; Funding Details: NE/J011002/1, NERC, Natural Environment Research Council |
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EcoFoG @ webmaster @ |
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529 |
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Leba, L.-J.; Popovici, J.; Estevez, Y.; Pelleau, S.; Legrand, E.; Musset, L.; Duplais, C. |
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Antiplasmodial activities of dyes against Plasmodium falciparum asexual and sexual stages: Contrasted uptakes of triarylmethanes Brilliant green, Green S (E142), and Patent Blue V (E131) by erythrocytes |
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Journal Article |
| Year |
2017 |
Publication |
International Journal for Parasitology: Drugs and Drug Resistance |
Abbreviated Journal |
International Journal for Parasitology: Drugs and Drug Resistance |
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7 |
Issue |
3 |
Pages |
314-320 |
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Antimalarial dyes; Brilliant green; Drug uptake; Food dyes; Transmission blocking; Triarylmethanes |
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The search for safe antimalarial compounds acting against asexual symptom-responsible stages and sexual transmission-responsible forms of Plasmodium species is one of the major challenges in malaria elimination programs. So far, among current drugs approved for human use, only primaquine has transmission-blocking activity. The discovery of small molecules targeting different Plasmodium falciparum life stages remains a priority in antimalarial drug research. In this context, several independent studies have recently reported antiplasmodial and transmission-blocking activities of commonly used stains, dyes and fluorescent probes against P. falciparum including chloroquine-resistant isolates. Herein we have studied the antimalarial activities of dyes with different scaffold and we report that the triarylmethane dye (TRAM) Brilliant green inhibits the growth of asexual stages (IC50 ≤ 2 μM) and has exflagellation-blocking activity (IC50 ≤ 800 nM) against P. falciparum reference strains (3D7, 7G8) and chloroquine-resistant clinical isolate (Q206). In a second step we have investigated the antiplasmodial activities of two polysulfonated triarylmethane food dyes. Green S (E142) is weakly active against P. falciparum asexual stage (IC50 ≃ 17 μM) whereas Patent Blue V (E131) is inactive in both antimalarial assays. By applying liquid chromatography techniques for the culture supernatant analysis after cell washings and lysis, we report the detection of Brilliant green in erythrocytes, the selective uptake of Green S (E142) by infected erythrocytes, whereas Patent Blue V (E131) could not be detected within non-infected and 3D7-infected erythrocytes. Overall, our results suggest that two polysulfonated food dyes might display different affinity with transporters or channels on infected RBC membrane. © 2017 The Authors |
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Research Unit of Genetics and Genomics of Insect Vectors Institut Pasteur, Paris, France |
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Export Date: 18 September 2017 |
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EcoFoG @ webmaster @ |
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765 |
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Marcon, E.; Puech, F. |
| Title |
A typology of distance-based measures of spatial concentration |
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Journal Article |
| Year |
2017 |
Publication |
Regional Science and Urban Economics |
Abbreviated Journal |
Regional Science and Urban Economics |
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62 |
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56-67 |
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Agglomeration; Aggregation; Economic geography; Point patterns; Spatial concentration |
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Over the last decade, distance-based methods have been introduced and then improved in the field of spatial economics to gauge the geographic concentration of activities. There is a growing literature on this theme including new tools, discussions on their specific properties and various applications. However, there is currently no typology of distance-based methods. This paper fills that gap. The proposed classification helps understand all the properties of distance-based methods and proves that they are variations on the same framework. © 2016 Elsevier B.V. |
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RITM, Univ. Paris-Sud, CREST, Université Paris-Saclay, Sceaux, France |
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Export Date: 17 January 2017 |
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EcoFoG @ webmaster @ |
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704 |
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Lang, G.; Marcon, E.; Puech, F. |
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Distance-based measures of spatial concentration: introducing a relative density function |
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Journal Article |
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2020 |
Publication |
Annals of Regional Science |
Abbreviated Journal |
Ann. Reg. Sci. |
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64 |
Issue |
2 |
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243-265 |
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Agglomeration; Aggregation; Economic geography; Point patterns; Spatial concentration; accuracy assessment; econometrics; economic activity; economic geography; industrial agglomeration; industrial location; location decision; spatial analysis; spatial distribution |
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For more than a decade, distance-based methods have been widely employed and constantly improved in spatial economics. These methods are a very useful tool for accurately evaluating the spatial distribution of economic activity. We introduce a new distance-based statistical measure for evaluating the spatial concentration of industries. The m function is the first relative density function to be proposed in economics. This tool supplements the typology of distance-based methods recently drawn up by Marcon and Puech (J Econ Geogr 3(4):409–428, 2003). By considering several simulated and real examples, we show the advantages and the limits of the m function for detecting spatial structures in economics. © 2019, Springer-Verlag GmbH Germany, part of Springer Nature. |
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RITM, Univ. Paris-Sud, Université Paris-Saclay and CREST, Sceaux, France |
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Springer |
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05701864 (Issn) |
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EcoFoG @ webmaster @ |
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976 |
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Baraloto, C.; Hardy, O.J.; Paine, C.E.T.; Dexter, K.G.; Cruaud, C.; Dunning, L.T.; Gonzalez, M.-A.; Molino, J.-F.; Sabatier, D.; Savolainen, V.; Chave, J. |
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Using functional traits and phylogenetic trees to examine the assembly of tropical tree communities |
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Journal Article |
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2012 |
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Journal of Ecology |
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J. Ecol. |
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100 |
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3 |
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690-701 |
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Competition; Determinants of plant community diversity and structure; Environmental filtering; French Guiana; Functional traits; Limiting similarity; Niche; Phylogenetic signal; Tropical forests |
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Niche theory proposes that species differences underlie both coexistence within communities and the differentiation in species composition among communities via limiting similarity and environmental filtering. However, it has been difficult to extend niche theory to species-rich communities because of the empirical challenge of quantifying niches for many species. This has motivated the development of functional and phylogeny-based approaches in community ecology, which represent two different means of approximating niche attributes. Here, we assess the utility of plant functional traits and phylogenetic relationships in predicting community assembly processes using the largest trait and phylogenetic data base to date for any set of species-rich communities. We measured 17 functional traits for all 4672 individuals of 668 tree species co-occurring in nine tropical rain forest plots in French Guiana. Trait variation was summarized into two ordination axes that reflect species niche overlap. We also generated a dated molecular phylogenetic tree based on DNA sequencing of two plastid loci (rbcL and matK) comprising 97% of the individuals and 91% of the species in the plots. We found that, on average, co-occurring species had greater functional and, to a lesser extent, phylogenetic similarity than expected by chance. We also found that functional traits and their ordination loadings showed significant, albeit weak, phylogenetic signal, suggesting that phylogenetic distance provides pertinent information on niche overlap in tropical tree communities. Synthesis. We provide the most comprehensive examination to date of the relative importance of environmental filtering and limiting similarity in structuring tropical tree communities. Our results confirm that environmental filtering is the overriding influence on community assembly in these species-rich systems. © 2012 The Authors. Journal of Ecology © 2012 British Ecological Society. |
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Royal Botanic Gardens, Kew, Richmond TW9 3DS, United Kingdom |
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00220477 (Issn) |
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Export Date: 24 April 2012; Source: Scopus; Coden: Jecoa; doi: 10.1111/j.1365-2745.2012.01966.x; Language of Original Document: English; Correspondence Address: Chave, J.; Université Paul Sabatier, CNRS, UMR 5174 Laboratoire Evolution et Diversité Biologique, 31062 Toulouse, France; email: chave@cict.fr |
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393 |
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Ntawuhiganayo, E.B.; Uwizeye, F.K.; Zibera, E.; Dusenge, M.E.; Ziegler, C.; Ntirugulirwa, B.; Nsabimana, D.; Wallin, G.; Uddling, J. |
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Traits controlling shade tolerance in tropical montane trees |
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Journal Article |
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2020 |
Publication |
Tree physiology |
Abbreviated Journal |
Tree Physiol. |
| Volume |
40 |
Issue |
2 |
Pages |
183-197 |
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biomass allocation; leaf temperature; plant traits; Rwanda; shade intolerance; shade tolerance; tropical montane forest; article; biomass allocation; breathing; canopy; carbon balance; compensation; photosynthesis; plant leaf; plant stem; rain forest; Rwanda; shade tolerance; species difference; sweating |
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Tropical canopies are complex, with multiple canopy layers and pronounced gap dynamics contributing to their high species diversity and productivity. An important reason for this complexity is the large variation in shade tolerance among different tree species. At present, we lack a clear understanding of which plant traits control this variation, e.g., regarding the relative contributions of whole-plant versus leaf traits or structural versus physiological traits. We investigated a broad range of traits in six tropical montane rainforest tree species with different degrees of shade tolerance, grown under three different radiation regimes (under the open sky or beneath sparse or dense canopies). The two distinct shade-tolerant species had higher fractional biomass in leaves and branches while shade-intolerant species invested more into stems, and these differences were greater under low radiation. Leaf respiration and photosynthetic light compensation point did not vary with species shade tolerance, regardless of radiation regime. Leaf temperatures in open plots were markedly higher in shade-tolerant species due to their low transpiration rates and large leaf sizes. Our results suggest that interspecific variation in shade tolerance of tropical montane trees is controlled by species differences in whole-plant biomass allocation strategy rather than by difference in physiological leaf traits determining leaf carbon balance at low radiation. © The Author(s) 2019. Published by Oxford University Press. |
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Rwanda Agriculture and Animal Resources Development, PO Box 5016Kigali, Rwanda |
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NLM (Medline) |
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Series Title |
|
Abbreviated Series Title |
|
| Series Volume |
|
Series Issue |
|
Edition |
|
| ISSN |
17584469 (Issn) |
ISBN |
|
Medium |
|
| Area |
|
Expedition |
|
Conference |
|
| Notes |
Export Date: 16 March 2020 |
Approved |
no |
| Call Number |
EcoFoG @ webmaster @ |
Serial |
922 |
| Permanent link to this record |
