| |
Records |
Links |
|
Author |
Faustin, M.; Maciuk, A.; Salvin, P.; Roos, C.; Lebrini, M. |
|
| |
Title |
Corrosion inhibition of C38 steel by alkaloids extract of Geissospermum laeve in 1M hydrochloric acid: Electrochemical and phytochemical studies |
Type |
Journal Article |
| |
Year |
2015 |
Publication |
Corrosion Science |
Abbreviated Journal |
Corrosion Science |
|
| |
Volume |
92 |
Issue |
|
Pages |
287-300 |
|
| |
Keywords |
A. C38 steel; B. Eis; B. Sem; C. Acid corrosion; C. Anodic protection; C. Cathodic protection |
|
| |
Abstract |
Corrosion inhibition by alkaloids extract (AE) from Geissospermum laeve on C38 steel in 1. M HCl is investigated with electrochemical studies. Inhibition efficiency of 92% is reached with 100. mg/L of AE at 25. °C. Potentiodynamic polarization showed that the extract behaves as mixed-type inhibitors. The Nyquist plots showed that increasing AE concentration, charge-transfer resistance increased and double-layer capacitance decreased, involving increased inhibition efficiency. Adsorption of the inhibitor molecules corresponds to Langmuir adsorption isotherm. Immersion time and temperature effects were investigated using EIS and potentiodynamic polarization. SEM and EDX supported the adsorption conclusions. The active compound responsible for the corrosion inhibition is geissospermine. |
|
| |
Address  |
Laboratoire de Pharmacognosie-Chimie des Substances Naturelles et Chimiotherapies Antiparasitaires, BioCIS, Université Paris-SudChâtenay-Malabry, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
|
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 6 February 2015 |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
584 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Ghislain, B.; Alméras, T.; Prunier, J.; Clair, B. |
|
| |
Title |
Contributions of bark and tension wood and role of the G-layer lignification in the gravitropic movements of 21 tropical tree species |
Type |
Journal Article |
| |
Year |
2019 |
Publication |
Annals of Forest Science |
Abbreviated Journal |
Ann. Forest Sci. |
|
| |
Volume |
76 |
Issue |
4 |
Pages |
107 |
|
| |
Keywords |
Bark; Biomechanics; G-layer; Lignification; Tension wood; Tropical rainforest; Magnoliophyta |
|
| |
Abstract |
Key message: Gravitropic movements in angiosperm woody stems are achieved through the action of bark and/or wood motor, depending on the bark and wood fibre anatomy (with trellis structure or not; with G-layers or not). Bark motor is as efficient as wood motor to recover from tilting in young trees of 21 tropical species. Context: Angiosperm trees produce tension wood to control their orientation through changes in stem curvature. Tension wood is classified into 3 anatomical groups: with unlignified G-layer, with lignified G-layer and without G-layer. Aims: This study aimed at assessing whether this anatomical diversity reflects a diversity in efficiency of gravitropic movement. Methods: The study was conducted on tropical seedling from the three anatomical groups. Seedlings were staked and grown tilted. At the end of the experiment, changes in curvature when releasing the stem from the stake and when removing bark were measured. Three parameters were computed to compare the global efficiency of gravitropism (stem gravitropic efficiency) and the specific efficiency of motor mechanism based on wood (maturation strain of tension wood) and bark (standardized debarking curvature). Results: The maturation strain of tension wood was similar between species with unlignified and lignified G-layer. Species without G-layer exhibited low maturation strain and large debarking curvature, showing they rely on bark for gravitropism. Bark and wood achieved similar motor efficiency. Conclusion: Lignin does not affect the generation of tensile stress in the G-layer. Bark can be as efficient as wood as a motor of gravitropic movements. © 2019, The Author(s). |
|
| |
Address |
Laboratoire de Mécanique et Génie Civil (LMGC), Université de Montpellier, CNRS, Montpellier, 34095, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
Springer |
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
12864560 (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
|
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
900 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Lebrini, M.; Roos, C.; Vezin, H.; Robert, F. |
|
| |
Title |
Electrochemical and theoretical studies of adsorption of some indole derivates at C38 Steel/Sulfuric acid interface as corrosion inhibitors |
Type |
Journal Article |
| |
Year |
2011 |
Publication |
International Journal of Electrochemical Science |
Abbreviated Journal |
Int.J.Electrochem.Sci. |
|
| |
Volume |
6 |
Issue |
9 |
Pages |
3844-3857 |
|
| |
Keywords |
Acidic media; Adsorption; C38 steel; Corrosion inhibitors; Theoretical calculations |
|
| |
Abstract |
The inhibitive action of 9H-pyrido[3,4-b]indole (norharmane) and 1-Methyl-9H-pyrido[3,4-b]indole (harmane) on corrosion of C38 steel in 0.5 M H2SO4 solution was investigated through electrochemical techniques. The experimental results obtained revealed that these compounds inhibited the steel corrosion in acid solution for all concentrations studied. Polarization measurements indicate that the examined compounds act as a mixed inhibitor and its inhibition efficiency increases with inhibitor concentration. Data obtained from ac impedance technique show a frequency distribution and therefore a modelling element with frequency dispersion behaviour, a constant phase element (CPE), has been used. The adsorption of used compounds on the steel surface obeys Langmuir's isotherm. The ΔG°ads values were calculated and discussed for both inhibitors. Significant correlations are obtained between inhibition efficiency and quantum chemical parameters using quantitative structure-activity relationship (QSAR) method. © 2011 by ESG. |
|
| |
Address |
Laboratoire de Chimie Organique et Macromoléculaire, UMR-CNRS 8009, USTL BâtC4, F-59655 Villeneuve d'Ascq Cedex, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
14523981 (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 21 October 2011; Source: Scopus; Language of Original Document: English; Correspondence Address: Robert, F.; Laboratoire Matériaux et Molécules en Milieu Amazonien, UAG-UMR ECOFOG, Campus Trou Biran, Cayenne 97337, French Guiana; email: florent.robert@guyane.univ-ag.fr |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
347 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Cottet, K.; Genta-Jouve, G.; Fromentin, Y.; Odonne, G.; Duplais, C.; Laprévote, O.; Michel, S.; Lallemand, M.-C. |
|
| |
Title |
Comparative LC-MS-based metabolite profiling of the ancient tropical rainforest tree Symphonia globulifera |
Type |
Journal Article |
| |
Year |
2014 |
Publication |
Phytochemistry |
Abbreviated Journal |
Phytochemistry |
|
| |
Volume |
108 |
Issue |
|
Pages |
102-108 |
|
| |
Keywords |
Kendrick mass defect; Lc-Ms; Plant organs; Symphonia globulifera; Untargeted metabolomics; Symphonia globulifera |
|
| |
Abstract |
In the last few years, several phytochemical studies have been undertaken on the tropical tree Symphonia globulifera leading to the isolation and characterisation of several compounds exhibiting antiparasitic activities against Plasmodium falciparum, Trypanosoma brucei and Leishmania donovani. The comparative LC-MS based metabolite profiling study conducted on the tree led to the identification of compounds originating from specific tissues. The results showed that renewable organs/tissues can be used as the starting material for the production of polycyclic poly-prenylated-acylphloroglucinols, therefore reducing impacts on biodiversity. This study also underlined the lack of knowledge on the secondary metabolites produced by S. globulifera since only a small number of the total detected features were putatively identified using the database of known compounds for the species. |
|
| |
Address |
Laboratoire de Chimie et Toxicologie Analytique et Cellulaire, UMR 8638, Université Paris Descartes Sorbonne Paris Cité, 4 Avenue de l'ObservatoireParis, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
Elsevier Ltd |
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
00319422 (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 2 December 2014; Coden: Pytca; Correspondence Address: Genta-Jouve, G.; Laboratoire de Pharmacognosie, UMR 8638, Université Paris Descartes Sorbonne Paris Cité, 4 Avenue de l'Observatoire, France |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
569 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Imbert, D. |
|
| |
Title |
Hurricane disturbance and forest dynamics in east Caribbean mangroves |
Type |
Journal Article |
| |
Year |
2018 |
Publication |
Ecosphere |
Abbreviated Journal |
|
|
| |
Volume |
9 |
Issue |
7 |
Pages |
e02231 |
|
| |
Keywords |
Caribbean; forest recovery; high-energy storms; mangrove; resilience; resistance; Special Feature: High-Energy Storms |
|
| |
Abstract |
Despite low plant diversity and structural simplicity, mangroves offer various ecosystem services to local human communities, including sheltering coastal social-ecological systems from high-energy storm damage. The expected increasing intensity of hurricanes due to climate change raises questions concerning the capacity of mangroves to resist and recover from such disturbances. Herein, this study contributes to a better understanding of (1) the relation between storm intensity and damage to mangrove vegetation, (2) the contributions of species-specific as well as stand-specific components of mangrove vegetation to ecosystem resistance, and (3) the recovery of pre-hurricane forest structure through time. The first two issues have been addressed using a stand-level approach implemented at two east Caribbean mangrove sites in response to three storm events. The third was addressed through a 23-yr survey of forest recovery following the passage of a high-energy storm across one of the two study sites. Generally, hurricane damage was primarily controlled by wind velocity, followed by the hydro-geomorphic context of mangrove forests and species-specific composition, respectively. The relationship between damage to trees and wind velocity evidenced a sigmoidal trend, with a maximum slope at a wind velocity averaging 130 and 180 km/h for higher vs. lower canopy stands, respectively. The red mangrove, Rhizophora mangle, was significantly less resistant to hurricane damage than was the black mangrove, Avicennia germinans. Unlike the fringe and scrub stands, inner, tall-canopy stands fully recovered by the end of the study (23 yr). These stands were more resilient because of their growth performances. Finally, the time for east Caribbean mangroves to recover from high-energy storms seems to fall within the range of the average return time of such disturbances. This may prevent such ecosystems from ever reaching a steady state. |
|
| |
Address |
Laboratoire de Biologie Végétale, UMR EcoFoG, BP 592, Université des Antilles, Pointe-à-Pitre Cedex, 97159, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
|
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 17 September 2018 |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
819 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Dessert, C.; Clergue, C.; Rousteau, A.; Crispi, O.; Benedetti, M.F. |
|
| |
Title |
Atmospheric contribution to cations cycling in highly weathered catchment, Guadeloupe (Lesser Antilles) |
Type |
Journal Article |
| |
Year |
2020 |
Publication |
Chemical Geology |
Abbreviated Journal |
Chem. Geol. |
|
| |
Volume |
531 |
Issue |
119354 |
Pages |
|
|
| |
Keywords |
Atmospheric deposit; Cation-nutrient recycling; Critical Zone; Saharan dust; Sr and Nd isotopes; Atmospheric chemistry; Biogeochemistry; Catchments; Deposits; Dust; Ecosystems; Forestry; Isotopes; Lakes; Positive ions; Rain; Recycling; Runoff; Soil moisture; Soil surveys; Tropics; Vegetation; Volcanoes; Weathering; Atmospheric deposits; Critical zones; Nutrient recycling; Saharan dust; Sr and Nd isotopes; Nutrients; catchment; cation; dust; isotopic composition; neodymium isotope; regolith; strontium isotope; trace element; water chemistry; water quality; Guadeloupe; Leeward Islands [Lesser Antilles]; Sahara |
|
| |
Abstract |
The important fertilizing role of atmospheric dust, and particularly African dust, in tropical rainforests is increasingly recognized but still poorly quantified. To better evaluate dust input into the Caribbean basin, we sampled critical zone compartments of a small forested volcanic catchment in Guadeloupe (soils, parent rock, atmospheric dust, plants, soil solutions, stream and rain waters). The aims of this study are to track sources of cation nutrients (Ca, Mg, K, Sr) developed on highly weathered soil in the rainforest of Guadeloupe, to quantify plant recycling of these nutrients, and to identify constraints on regolith development and its associated nutrient pool. In the Quiock Creek catchment, a large isotopic range of 87Sr/86Sr and eNd values was observed despite the small scale of observation. Sr isotopic composition of the dissolved load varied from 0.7084 in rainfall to 0.7110 in soil solution, whereas it ranges between 0.7068 and 0.7153 for soil samples and between 0.7096 and 0.7102 for plants. The Nd isotopic composition varied between -8.39 in near-surface soil samples to 2.71 in deeper soil. All samples had an intermediate signature between that of the bedrock endmember (87Sr/86Sr = 0.7038; eNd = 4.8) and the atmospheric endmember (sea salt: 87Sr/86Sr = 0.7092 and Saharan dust: 87Sr/86Sr = 0.7187, eNd=-11.5). The regolith was built on pyroclastic deposits, but, because of extreme leaching, the regolith has lost its original bedrock signature and inherited an exogenous atmospheric signature. Our results show that only the chemical weathering of the fresh near-surface minerals can provide nutrients to the ecosystem (first 30 cm). However, this dust weathering is too low to sustain the tropical forest ecosystem on its own. The cationic mass balance at the catchment scale, as well as the Sr isotopic signature, show that cation and Sr fluxes are of atmospheric origin only and that original bedrock no longer participates in nutrient cycles. The vegetation reflects the 87Sr/86Sr of the dissolved pool of atmospheric Sr. At the soil-plant scale, the cation-nutrient fluxes provided by vegetation (litter fall + leaf excretion) are major compared to input and output fluxes. The annual Ca, K, Sr and Mg fluxes within the vegetation are, respectively, 31, 28, 20 and 3 times greater than the exported fluxes at the outlet of the basin. The residence time of nutrients in the vegetation is 16 years for K and close to 45 years for Sr, Ca and Mg. These results emphasize the highly efficient vegetative turnover that dominates the nutrient cycle in the Quiock Creek catchment. This first characterization of biogeochemical cycles in the Guadeloupean rainforest suggests that the forest community of Quiock Creek is sustained by a small near-surface nutrient pool disconnected from the deep volcanic bedrock. We also demonstrated that, even with efficient nutrient recycling, Saharan dust plays a significant role in maintaining ecosystem productivity in Guadeloupe over long-time scales. |
|
| |
Address |
Laboratoire de biologie et de physiologie végétales, UMR EcoFoG, CNRS, Cirad, INRA, Université des Antilles, Université de Guyane, Pointe-à-Pitre, 97159, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
Elsevier B.V. |
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
00092541 (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 18 November 2019; Correspondence Address: Dessert, C.; Université de Paris, Institut de physique du globe de Paris, CNRSFrance; email: dessert@ipgp.fr |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
895 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Touré, S.; Nirma, C.; Falkowski, M.; Dusfour, I.; Boulogne, I.; Jahn-Oyac, A.; Coke, M.; Azam, D.; Girod, R.; Moriou, C.; Odonne, G.; Stien, D.; Houel, E.; Eparvier, V. |
|
| |
Title |
Aedes aegypti Larvicidal Sesquiterpene Alkaloids from Maytenus oblongata |
Type |
Journal Article |
| |
Year |
2017 |
Publication |
Journal of Natural Products |
Abbreviated Journal |
Journal of Natural Products |
|
| |
Volume |
80 |
Issue |
2 |
Pages |
384-390 |
|
| |
Keywords |
|
|
| |
Abstract |
Four new sesquiterpene alkaloids (1-4) with a β-dihydroagrofuran skeleton and a new triterpenoid (5) were isolated from an ethyl acetate extract of Maytenus oblongata stems. Their structures were elucidated using 1D and 2D NMR spectroscopy as well as MS and ECD experiments. The M. oblongata stem EtOAc extract and the pure compounds isolated were tested for larvicidal activity against Aedes aegypti under laboratory conditions, and compounds 2 and 3 were found to be active. © 2017 The American Chemical Society and American Society of Pharmacognosy. |
|
| |
Address |
Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Sorbonne Universités, UPMC Univ. Paris 06, CNRS, Observatoire Océanologique, Banyuls-sur-Mer, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
|
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 13 March 2017 |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
743 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Boulogne, I.; Constantino, R.; Amusant, N.; Falkowski, M.; Rodrigues, A.M.S.; Houel, E. |
|
| |
Title |
Ecology of termites from the genus Nasutitermes (Termitidae: Nasutitermitinae) and potential for science-based development of sustainable pest management programs |
Type |
Journal Article |
| |
Year |
2017 |
Publication |
Journal of Pest Science |
Abbreviated Journal |
Journal of Pest Science |
|
| |
Volume |
90 |
Issue |
1 |
Pages |
19-37 |
|
| |
Keywords |
Antimicrobial and insecticidal botanical extracts; Ipm; Nasutitermes corniger; Sustainable management; Taxonomic history; Termitidae |
|
| |
Abstract |
The genus Nasutitermes is among the most abundant wood-feeding Termitidae and an extremely diverse and heterogeneous group in terms of its biogeography and morphology. Despite the major role of several Nasutitermes species as structural pests, the phylogenetic status of this genus is still unclear, along with a confused taxonomy and species identification remaining difficult. The first aim of this review was thus to gather and discuss studies concerning the taxonomic status of the genus Nasutitermes in order to clarify this crucial point. Then, our goal was to gain new insights into the management of N. corniger, considered to be the most economically detrimental pest of this genus in South America and a Nasutitermes model species, while filtering available information concerning its biology through the prism of termite control, as well as critically examine the existing methods. We indeed strongly believe that increasing our knowledge of this species’ biological strategies is the key to progress in the challenging question of their sustainable management. © 2016, Springer-Verlag Berlin Heidelberg. |
|
| |
Address |
Laboratoire de Biodiversité et Biotechnologies Microbiennes (LBBM), Observatoire Océanologique, Sorbonne Universités, Université Pierre et Marie Curie, CNRS, Banyuls/Mer, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
|
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 17 February 2017 |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
732 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Niamké, F.B.; Amusant, N.; Stien, D.; Chaix, G.; Lozano, Y.; Kadio, A.A.; Lemenager, N.; Goh, D.; Adima, A.A.; Kati-Coulibaly, S.; Jay-Allemand, C. |
|
| |
Title |
4',5'-Dihydroxy-epiisocatalponol, a new naphthoquinone from Tectona grandis L. f. heartwood, and fungicidal activity |
Type |
Journal Article |
| |
Year |
2012 |
Publication |
International Biodeterioration and Biodegradation |
Abbreviated Journal |
Int. Biodeterior. Biodegrad. |
|
| |
Volume |
74 |
Issue |
|
Pages |
93-98 |
|
| |
Keywords |
4',5'-Dihydroxy-epiisocatalponol; Decay resistance; Fungicidal; Heartwood; Naphthoquinone; Tectona grandis |
|
| |
Abstract |
A new naphthoquinone derivative was isolated from the heartwood of the teak stem. The chemical structure of this new compound, 4',5'-dihydroxy-epiisocatalponol, was determined using 1-D and 2-D nuclear magnetic resonance experiments, vibrational circular dichroism, HRMS, and optical rotation. We showed that this new naphthoquinone derivative plays a key role in the variability of decay resistance in teak wood. A high negative correlation was found between its concentration and the mass losses of the wood samples after exposure to the brown rot Antrodia sp., the fungus that is the most virulent against teak (R = -0.9; ρ < 0.0001). In-vitro bioassays allowed us to demonstrate that 4',5'-dihydroxy-epiisocatalponol acted as a fungicide against Trametes versicolor (white rot) at 58 mg ml -1 (0.22 mM). Overall, our results demonstrated that the concentration of 4',5'-dihydroxy-epiisocatalponol could be used as a new tool to evaluate teak wood durability. © 2012 Elsevier Ltd. |
|
| |
Address |
Laboratoire de Biochimie et de Physiologie Végétales, UMR 47 DIADE – Equipe Rhizogenèse, Université Montpellier II, Place Eugène Bataillon, 34095 Montpellier Cedex 05, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
|
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
09648305 (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
Export Date: 27 September 2012; Source: Scopus; Coden: Ibbie; doi: 10.1016/j.ibiod.2012.03.010; Language of Original Document: English; Correspondence Address: Amusant, N.; CIRAD, Department Environments and societies, UMR Ecology forests of French Guiana, BP 732, 97310 Kourou cedex, French Guiana; email: nadine.amusant@cirad.fr |
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
435 |
|
| Permanent link to this record |
| |
|
| |
|
Author |
Sommeria-Klein, G.; Zinger, L.; Coissac, E.; Iribar, A.; Schimann, H.; Taberlet, P.; Chave, J. |
|
| |
Title |
Latent Dirichlet Allocation reveals spatial and taxonomic structure in a DNA-based census of soil biodiversity from a tropical forest |
Type |
Journal Article |
| |
Year |
2020 |
Publication |
Molecular Ecology Resources |
Abbreviated Journal |
Mol. Ecol. Resour. |
|
| |
Volume |
20 |
Issue |
2 |
Pages |
371-386 |
|
| |
Keywords |
community ecology; environmental DNA; metabarcoding; OTU presence–absence; soil microbiome; topic modelling; bacterium; biodiversity; biology; classification; eukaryote; fungus; genetics; high throughput sequencing; isolation and purification; microbiology; parasitology; procedures; soil; Bacteria; Biodiversity; Computational Biology; Eukaryota; Fungi; High-Throughput Nucleotide Sequencing; Soil; Soil Microbiology |
|
| |
Abstract |
High-throughput sequencing of amplicons from environmental DNA samples permits rapid, standardized and comprehensive biodiversity assessments. However, retrieving and interpreting the structure of such data sets requires efficient methods for dimensionality reduction. Latent Dirichlet Allocation (LDA) can be used to decompose environmental DNA samples into overlapping assemblages of co-occurring taxa. It is a flexible model-based method adapted to uneven sample sizes and to large and sparse data sets. Here, we compare LDA performance on abundance and occurrence data, and we quantify the robustness of the LDA decomposition by measuring its stability with respect to the algorithm's initialization. We then apply LDA to a survey of 1,131 soil DNA samples that were collected in a 12-ha plot of primary tropical forest and amplified using standard primers for bacteria, protists, fungi and metazoans. The analysis reveals that bacteria, protists and fungi exhibit a strong spatial structure, which matches the topographical features of the plot, while metazoans do not, confirming that microbial diversity is primarily controlled by environmental variation at the studied scale. We conclude that LDA is a sensitive, robust and computationally efficient method to detect and interpret the structure of large DNA-based biodiversity data sets. We finally discuss the possible future applications of this approach for the study of biodiversity. © 2019 John Wiley & Sons Ltd |
|
| |
Address |
Laboratoire d’Ecologie des Forêts de Guyane (EcoFoG, UMR 745), INRA, AgroParisTech, CIRAD, CNRS, University of the French West Indies, University of French Guiana, Kourou, France |
|
| |
Corporate Author |
|
Thesis |
|
|
| |
Publisher |
Blackwell Publishing Ltd |
Place of Publication |
|
Editor |
|
|
| |
Language |
|
Summary Language |
|
Original Title |
|
|
| |
Series Editor |
|
Series Title |
|
Abbreviated Series Title |
|
|
| |
Series Volume |
|
Series Issue |
|
Edition |
|
|
| |
ISSN |
1755098x (Issn) |
ISBN |
|
Medium |
|
|
| |
Area |
|
Expedition |
|
Conference |
|
|
| |
Notes |
|
Approved |
no |
|
| |
Call Number |
EcoFoG @ webmaster @ |
Serial |
981 |
|
| Permanent link to this record |
