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Soong, J.L.; Marañon-Jimenez, S.; Cotrufo, M.F.; Boeckx, P.; Bodé, S.; Guenet, B.; Peñuelas, J.; Richter, A.; Stahl, C.; Verbruggen, E.; Janssens, I.A. |
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Title |
Soil microbial CNP and respiration responses to organic matter and nutrient additions: Evidence from a tropical soil incubation |
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Journal Article |
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Year |
2018 |
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Soil Biology and Biochemistry |
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122 |
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141-149 |
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13c; Cnp; Microbial stoichiometry; Priming; Soil respiration; Tropics |
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Soil nutrient availability has a strong influence on the fate of soil carbon (C) during microbial decomposition, contributing to Earth's C balance. While nutrient availability itself can impact microbial physiology and C partitioning between biomass and respiration during soil organic matter decomposition, the availability of labile C inputs may mediate the response of microorganisms to nutrient additions. As soil organic matter is decomposed, microorganisms retain or release C, nitrogen (N) or phosphorus (P) to maintain a stoichiometric balance. Although the concept of a microbial stoichiometric homeostasis has previously been proposed, microbial biomass CNP ratios are not static, and this may have very relevant implications for microbial physiological activities. Here, we tested the hypothesis that N, P and potassium (K) nutrient additions impact C cycling in a tropical soil due to microbial stoichiometric constraints to growth and respiration, and that the availability of energy-rich labile organic matter in the soil (i.e. leaf litter) mediates the response to nutrient addition. We incubated tropical soil from French Guiana with a 13C labeled leaf litter addition and with mineral nutrient additions of +K, +N, +NK, +PK and +NPK for 30 days. We found that litter additions led to a ten-fold increase in microbial respiration and a doubling of microbial biomass C, along with greater microbial N and P content. We found some evidence that P additions increased soil CO2 fluxes. Additionally, we found microbial biomass CP and NP ratios varied more widely than CN in response to nutrient and organic matter additions, with important implications for the role of microorganisms in C cycling. The addition of litter did not prime soil organic matter decomposition, except in combination with +NK fertilization, indicating possible P-mining of soil organic matter in this P-poor tropical soil. Together, these results point toward an ultimate labile organic substrate limitation of soil microorganisms in this tropical soil, but also indicate a complex interaction between C, N, P and K availability. This highlights the difference between microbial C cycling responses to N, P, or K additions in the tropics and explains why coupled C, N and P cycle modeling efforts cannot rely on strict microbial stoichiometric homeostasis as an underlying assumption. |
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INRA, UMR Ecology of Guiana Forests (Ecofog), AgroParisTech, Cirad, CNRS, Université de Guyane, Université des Antilles, Kourou, France |
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Export Date: 16 May 2018 |
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EcoFoG @ webmaster @ |
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804 |
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Soong, J.L.; Janssens, I.A.; Grau, O.; Margalef, O.; Stahl, C.; Van Langenhove, L.; Urbina, I.; Chave, J.; Dourdain, A.; Ferry, B.; Freycon, V.; Herault, B.; Sardans, J.; Peñuelas, J.; Verbruggen, E. |
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Title |
Soil properties explain tree growth and mortality, but not biomass, across phosphorus-depleted tropical forests |
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Journal Article |
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Year |
2020 |
Publication |
Scientific reports |
Abbreviated Journal |
Sci Rep |
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10 |
Issue |
2302 |
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We observed strong positive relationships between soil properties and forest dynamics of growth and mortality across twelve primary lowland tropical forests in a phosphorus-poor region of the Guiana Shield. Average tree growth (diameter at breast height) increased from 0.81 to 2.1 mm yr-1 along a soil texture gradient from 0 to 67% clay, and increasing metal-oxide content. Soil organic carbon stocks in the top 30 cm ranged from 30 to 118 tons C ha-1, phosphorus content ranged from 7 to 600 mg kg-1 soil, and the relative abundance of arbuscular mycorrhizal fungi ranged from 0 to 50%, all positively correlating with soil clay, and iron and aluminum oxide and hydroxide content. In contrast, already low extractable phosphorus (Bray P) content decreased from 4.4 to <0.02 mg kg-1 in soil with increasing clay content. A greater prevalence of arbuscular mycorrhizal fungi in more clayey forests that had higher tree growth and mortality, but not biomass, indicates that despite the greater investment in nutrient uptake required, soils with higher clay content may actually serve to sustain high tree growth in tropical forests by avoiding phosphorus losses from the ecosystem. Our study demonstrates how variation in soil properties that retain carbon and nutrients can help to explain variation in tropical forest growth and mortality, but not biomass, by requiring niche specialization and contributing to biogeochemical diversification across this region. |
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Institut National Polytechnique Félix Houphouët-Boigny, Ivory CoastYamoussoukro, Cote d'Ivoire |
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NLM (Medline) |
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20452322 (Issn) |
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EcoFoG @ webmaster @ |
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916 |
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Sommeria-Klein, G.; Zinger, L.; Coissac, E.; Iribar, A.; Schimann, H.; Taberlet, P.; Chave, J. |
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Title |
Latent Dirichlet Allocation reveals spatial and taxonomic structure in a DNA-based census of soil biodiversity from a tropical forest |
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Journal Article |
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Year |
2020 |
Publication |
Molecular Ecology Resources |
Abbreviated Journal |
Mol. Ecol. Resour. |
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20 |
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2 |
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371-386 |
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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 |
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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 |
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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 |
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Blackwell Publishing Ltd |
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1755098x (Issn) |
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EcoFoG @ webmaster @ |
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981 |
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Solander, K.C.; Newman, B.D.; Carioca De Araujo, A.; Barnard, H.R.; Berry, Z.C.; Bonal, D.; Bretfeld, M.; Burban, B.; Candido, L.A.; Célleri, R.; Chambers, J.Q.; Christoffersen, B.O.; Detto, M.; Dorigo, W.A.; Ewers, B.E.; Ferreira, S.J.F.; Knohl, A.; Leung, L.R.; McDowell, N.G.; Miller, G.R.; Monteiro, M.T.F.; Moore, G.W.; Negron-Juarez, R.; Saleska, S.R.; Stiegler, C.; Tomasella, J.; Xu, C. |
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Title |
The pantropical response of soil moisture to El Niño |
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Journal Article |
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Year |
2020 |
Publication |
Hydrology and Earth System Sciences |
Abbreviated Journal |
Hydrol. Earth Syst. Sci. |
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24 |
Issue |
5 |
Pages |
2303-2322 |
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Keywords |
Cluster analysis; Oceanography; Soil moisture; Surface waters; Tropics; Climate anomalies; Clustered datum; Hydrologic changes; Land data assimilation systems; Sea surface temperature anomalies; Situ soil moistures; Tropical hydrologies; Tropical Pacific ocean; Soil surveys |
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The 2015–2016 El Niño event ranks as one of the most severe on record in terms of the magnitude and extent of sea surface temperature (SST) anomalies generated in the tropical Pacific Ocean. Corresponding global impacts on the climate were expected to rival, or even surpass, those of the 1997–1998 severe El Niño event, which had SST anomalies that were similar in size. However, the 2015–2016 event failed to meet expectations for hydrologic change in many areas, including those expected to receive well above normal precipitation. To better understand how climate anomalies during an El Niño event impact soil moisture, we investigate changes in soil moisture in the humid tropics (between ±25∘) during the three most recent super El Niño events of 1982–1983, 1997–1998 and 2015–2016, using data from the Global Land Data Assimilation System (GLDAS). First, we use in situ soil moisture observations obtained from 16 sites across five continents to validate and bias-correct estimates from GLDAS (r2=0.54). Next, we apply a k-means cluster analysis to the soil moisture estimates during the El Niño mature phase, resulting in four groups of clustered data. The strongest and most consistent decreases in soil moisture occur in the Amazon basin and maritime southeastern Asia, while the most consistent increases occur over eastern Africa. In addition, we compare changes in soil moisture to both precipitation and evapotranspiration, which showed a lack of agreement in the direction of change between these variables and soil moisture most prominently in the southern Amazon basin, the Sahel and mainland southeastern Asia. Our results can be used to improve estimates of spatiotemporal differences in El Niño impacts on soil moisture in tropical hydrology and ecosystem models at multiple scales. |
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Coordination of Research and Development, National Centre for Monitoring and Early Warning of Natural Disasters, Cachoeira Paulista, Brazil |
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Copernicus GmbH |
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10275606 (Issn) |
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Export Date: 29 May 2020; Correspondence Address: Solander, K.C.; Earth and Environmental Sciences, Los Alamos National LaboratoryUnited States; email: ksolander@lanl.gov |
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EcoFoG @ webmaster @ |
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934 |
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Sobotnik, J.; Sillam-Dusses, D.; Weyda, F.; Dejean, A.; Roisin, Y.; Hanus, R.; Bourguignon, T. |
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The frontal gland in workers of Neotropical soldierless termites |
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Journal Article |
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2010 |
Publication |
Naturwissenschaften |
Abbreviated Journal |
Naturwissenschaften |
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97 |
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5 |
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495-503 |
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Frontal gland; Workers; Soldierless termites; Apicotermitinae; Anoplotermes; Aparatermes |
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The presence of the frontal gland is well established in termite soldiers of Rhinotermitidae, Serritermitidae, and Termitidae. It is one of their main defensive adaptations or even an exclusive weapon. The gland was also occasionally reported in alate imagoes, but never in the worker caste. Here, we report the first observation of a frontal gland in workers of several Neotropical and one African species of Apicotermitinae. The ultrastructure of Aparatermes cingulatus and Anoplotermes nr. subterraneus is described in detail. In these two species, the gland is well-developed, functional and consists of class 1 secretory cells. The presence of envelope cells, wrapping the gland, is an unusual feature, as well as the presence of several zonulae adherens, connecting neighbouring glandular cells. The frontal gland of workers is homologous to this organ in soldiers and imagoes, as evidenced by the same position in the head and its connection to the same muscle. However, the defensive role of the frontal gland in workers remains to be confirmed. |
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[Sobotnik, Jan; Sillam-Dusses, David; Hanus, Robert] Acad Sci Czech Republic, Inst Organ Chem & Biochem, Res Team Infochem, CR-16610 Prague 6, Czech Republic, Email: robert@uochb.cas.cz |
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SPRINGER |
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0028-1042 |
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ISI:000277318800007 |
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no |
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EcoFoG @ webmaster @ |
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285 |
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Sist, P.; Sheil, D.; Kartawinata, K.; Priyadi, H. |
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Reduced-impact logging in Indonesian Borneo: some results confirming the need for new silvicultural prescriptions |
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Journal Article |
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2003 |
Publication |
Forest Ecology and Management |
Abbreviated Journal |
For. Ecol. Manage. |
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179 |
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1-3 |
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415-427 |
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Reduced-impact logging (RIL) and conventional techniques (CNV) were compared in a mixed dipterocarp hill forest in East Kalimantan in three blocks of about 100 ha each. Damage was evaluated using pre- and post-harvesting assessments in 24 one-hectare sample plots. RIL techniques nearly halved the number of trees destroyed (36 vs 60 trees/ha). RIL's main benefit was in the reduction of skidding damage (9.5% of the original tree population in RIL vs 25% in CNV). Before logging, mean canopy openness in CNV (three plots only) and RIL (9 plots) was similar (3.6 and 3.1%) and not significantly different (x(2) = 2.73, P = 0.254). After logging, the mean canopy openness was 19.2% in CNV (n = 9 plots) and 13.3% in RIL (n = 8 plots), and the distributions of the canopy class in RIL and CNV significantly different x(2) = 43.56, P < 0.001). CNV plots showed a higher proportion of measurements in the most open class greater than or equal to30% than in RIL. At a larger scale, the area of skidtrail per unit timber volume extracted was halved in the RIL compartment (15 m(2) vs 27 m(2) m(-3) for CNV). However, under high felling intensity (>8 trees/ha), both stand damage and canopy disturbance in RIL approached those recorded in CNV under low or moderate felling regime. Over this felling intensity threshold the effectiveness of RIL in reducing tree damage is limited. In mixed dipterocarp forest where harvestable timber density generally exceeds 10 trees/ha, a minimum diameter felling limit is clearly insufficient to keep extraction rates below 8 trees/ha. Based on these new results and previous studies in Borneo, we suggest three silvicultural rules: (1) to keep a minimum distance between stumps of ca. 40 m, (2) to ensure only single tree gaps using directional felling, (3) to harvest only stems with 60-100 cm dbh. Foresters, policy makers and certifiers should consider these as criteria for sustainable forest management. We emphasise the need to expand harvesting studies to look at impacts and trade-offs across larger forest landscapes, to expand RIL beyond silvicultural concepts and to include the maintenance of other forest goods and services. (C) 2002 Elsevier Science B.V. All rights reserved. |
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0378-1127 |
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WOS:000183836300033 |
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EcoFoG @ webmaster @ |
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311 |
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Sist, P.; Rutishauser, E.; Peña-Claros, M.; Shenkin, A.; Herault, B.; Blanc, L.; Baraloto, C.; Baya, F.; Benedet, F.; da Silva, K.E.; Descroix, L.; Ferreira, J.N.; Gourlet-Fleury, S.; Guedes, M.C.; Bin Harun, I.; Jalonen, R.; Kanashiro, M.; Krisnawati, H.; Kshatriya, M.; Lincoln, P.; Mazzei, L.; Medjibé, V.; Nasi, R.; d'Oliveira, M.V.N.; de Oliveira, L.C.; Picard, N.; Pietsch, S.; Pinard, M.; Priyadi, H.; Putz, F.E.; Rodney, K.; Rossi, V.; Roopsind, A.; Ruschel, A.R.; Shari, N.H.Z.; Rodrigues de Souza, C.; Susanty, F.H.; Sotta, E.D.; Toledo, M.; Vidal, E.; West, T.A.P.; Wortel, V.; Yamada, T. |
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The Tropical managed forests Observatory: A research network addressing the future of tropical logged forests |
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Journal Article |
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2015 |
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Applied Vegetation Science |
Abbreviated Journal |
Appl. Veg. Sci. |
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18 |
Issue |
1 |
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171-174 |
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Biodiversity; Carbon cycle; Climate change; Ecosystem resilience; Logging; Silviculture; Tropical forests; Tropical managed forests Observatory |
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While attention on logging in the tropics has been increasing, studies on the long-term effects of silviculture on forest dynamics and ecology remain scare and spatially limited. Indeed, most of our knowledge on tropical forests arises from studies carried out in undisturbed tropical forests. This bias is problematic given that logged and disturbed tropical forests are now covering a larger area than the so-called primary forests. A new network of permanent sample plots in logged forests, the Tropical managed Forests Observatory (TmFO), aims to fill this gap by providing unprecedented opportunities to examine long-term data on the resilience of logged tropical forests at regional and global scales. TmFO currently includes 24 experimental sites distributed across three tropical regions, with a total of 490 permanent plots and 921 ha of forest inventories. To improve our knowledge of the resilience of tropical logged forests, 20 research institutes are now collaborating on studies on the effects of logging on forest structure, productivity, biodiversity and carbon fluxes at large spatial and temporal scales. These studies are carried out in the Tropical managed Forests Observatory (TmFO), an international network including 24 sites and 490 permanent sample plots across South America, Africa and South East Asia. |
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Duke University's Nicholas School of the EnvironmentNorth Carolina, United States |
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Wiley-Blackwell |
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14022001 (Issn) |
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Export Date: 12 December 2014; Coden: Avscf; Correspondence Address: Sist, P.; Cirad, UR 105 TA/10CFrance |
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EcoFoG @ webmaster @ |
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571 |
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Sist, P.; Picard, N.; Gourlet-Fleury, S. |
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Sustainable cutting cycle and yields in a lowland mixed dipterocarp forest of Borneo |
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Journal Article |
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2003 |
Publication |
Annals of Forest Science |
Abbreviated Journal |
Ann. For. Sci. |
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60 |
Issue |
8 |
Pages |
803-814 |
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Based on a 6 year monitoring of the dynamics of a mixed dipterocarp forest in East Borneo (1990-1996), we built a matrix model to predict the sustainable cutting cycle in relation with the extraction and damage rates. Plots were ordered according to three main groups of damage and logging intensity. The first group G1 gathered slightly damaged plots with a remaining basal area greater than or equal to80% of the original (mean logging intensity = 6 trees ha(-1)). Plots belonging to G2, had a remaining basal area varying between 70 and 79% of the original one (mean logging intensity = 8 trees ha(-1)). Finally, G3 gathers highly damaged plots with a remaining basal area < 70% of the original one and a high logging intensity (mean = 14 trees ha(-1)). The mean sustainable cutting cycles predicted in the three groups were significantly different and equal 27, 41 and 89 years in G1, G2 and G3 respectively. However, the respective mean annual extracted volumes were similar: 1.6, 1.8 and 1.4 m(3) ha(-1) year(-1), respectively in G1, G2 and G3. The model suggests that a 40 year cycle, extracting 8 trees ha(-1) (60 m(3) ha(-1)) and an annual volume of 1.5 m(3) ha(-1) year(-1) is the best option to preserve ecological integrity of the forest, to ensure yield sustainability and, according to existing cost analysis, economic profitability. This result is also consistent with other studies which already demonstrated that logging damage reduction using RIL techniques could be only significant with a moderate felling intensity not exceeding 8 trees ha(-1). This felling intensity threshold can be easily achieved by applying simple harvesting rules. |
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1286-4560 |
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WOS:000221039000007 |
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no |
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EcoFoG @ webmaster @ |
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310 |
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Sist, P.; Nguyen-The, N. |
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Logging damage and the subsequent dynamics of a dipterocarp forest in East Kalimantan (1990-1996) |
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Journal Article |
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2002 |
Publication |
Forest Ecology and Management |
Abbreviated Journal |
For. Ecol. Manage. |
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Volume |
165 |
Issue |
1-3 |
Pages |
85-103 |
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The effects of logging damage on forest dynamics processes were assessed in a lowland dipterocarp forest of East Kalimantan, Indonesia. From 1990 to 1991, twelve 4 ha plots (200 m x 200 m) each divided into four I ha subplots were set up and all trees with dbh greater than or equal to 10 cm measured and identified at least at the generic level. Logging was carried out from November 1991 to March 1992 in nine plots while three plots served as control. The 48 subplots were grouped according to the proportion Of remaining basal area after harvesting, as follows: group I with more than 80% of the original basal area remaining, group 2 with 70-79%, group 3 with less than 70%, and group 4 as control plots. Remeasurements were carried out just after logging in 1992 and then every 2 years until 1996. Felling intensity varied from I to 17 stems ha(-1) (50-250 m(3) ha(-1)). In primary forest, mean annual mortality remained constant to 1.5% per year throughout the study period while mean annual mortality rate was significantly higher in logged-over forest (2.6% per year). This higher rate resulted from a higher mortality of injured trees (4.9% per year). Four years after logging, mortality rates in logged-over and primary forest were similar. Recruitment remained constant at 8 trees ha(-1) per year in primary forest and varied from 14 to 32 trees ha(-1) per year in logged-over stand in proportion with the amount of damage. In stands with the lowest remaining basal area, the establishment and growth of dipterocarps was strongly limited by the strong regeneration of pioneer species. This study suggests that total basal area removed by logging in primary forest (harvested trees and trees killed during felling and skidding) should not exceed 15% of the original one; reduced-impact logging (RIL) techniques applied with a maximum harvesting intensity of 8 trees ha(-1), can keep logging damage under this threshold. (C) 2002 Elsevier Science B.V. All rights reserved. |
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0378-1127 |
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WOS:000176620100008 |
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EcoFoG @ webmaster @ |
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Sist, P.; Fimbel, R.; Sheil, D.; Nasi, R.; Chevallier, M.H. |
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Towards sustainable management of mixed dipterocarp forests of South-east Asia: moving beyond minimum diameter cutting limits |
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2003 |
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Environmental Conservation |
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30 |
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4 |
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364-374 |
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Selective logging applied in tropical forests is based on one universal criterion: a minimum diameter cutting limit for all commercial timber species. Minimum diameter cutting limits in mixed dipterocarp forests of the Malesia region lead to high felling intensities (10-20+ trees ha(-1)). Such extraction rates create massive stand damage (> 50% of the remaining tree population), which has a negative impact on the regeneration and growth of many harvested dipterocarp, species. As such, the minimum diameter cutting limit approach is seldom compatible with sustainable forest management. Where basic ecological characteristics of the commercial species are considered in timber harvesting prescriptions, mixed dipterocarp, forests appear capable of sustained timber yields, habitat conservation, and providing other goods and services. This paper first presents the main silvicultural systems developed in mixed dipterocarp, forests of Western Malesia and then reviews current knowledge of dipterocarp, biology to finally develop guidelines aimed at improving the ecological sustainability of production forests of Western Malesia. These guidelines, a pragmatic reflection of science and 'best guess' judgement, include: (1) integration of reduced-impact logging practices into normal management operations; (2) cutting of eight trees ha(-1) or less (with a felling cycle of 40-60 years to be determined according to local conditions); (3) defining minimum diameter cutting limits according to the structure, density and diameter at reproduction of target species; (4) avoiding harvesting species with less than one adult tree ha(-1) (diameter at breast height [dbh] greater than or equal to 50 cm over an area of 50-100 ha); (5) minimizing the size and connectivity of gaps (< 600 m(2) whenever possible); (6) refraining from treatments such as understorey clearing; and (7) providing explicit protection for key forest species and the ecological processes they perform. Further refinement is encouraged to allow for local conditions, and for other forest types. |
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WOS:000188812100007 |
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EcoFoG @ webmaster @ |
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309 |
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