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7 results on '"Simpson diversity"'

1. Seasonal patterns of functional alpha and beta redundancies of macroinvertebrates in a disturbed (sub)tropical river

Author

Lu Wang, Jiaxu Li, Lin Tan, and Bo-Ping Han

Subjects
Functional diversity, Seasonality, Macroinvertebrate, Simpson diversity, Bray–Curtis’s dissimilarity, Disturbances, Ecology, QH540-549.5
Abstract

Functional redundancy is an essential component of ecological insurance and indicates the properties of community assembly, maintenance of ecosystem functions, and stability under disturbance. It can be measured as alpha redundancy within a local community and beta redundancy between pairs of local communities. Although functional redundancy has been measured and discussed widely, its spatial and temporal patterns remain unclear. We hypothesized that high functional alpha redundancy accumulates within local communities under low environmental disturbance and limited interspecific competition, while high functional beta redundancy can occur under small environmental distances due to trait similarity between local communities. To test these hypotheses, we surveyed macroinvertebrates in a (sub)tropical medium river subjected to multiple anthropogenic stressors in two hydrologically different disturbance regimes: wet and dry seasons. Following the framework of Ricotta and co-workers, functional alpha (beta) redundancy was defined as the fraction of species diversity (dissimilarity) that was not expressed by functional diversity (dissimilarity). Functional alpha redundancy reduced significantly under high hydrological disturbance during the wet season. That is, the functional alpha redundancy accumulated in the dry season enhanced community resilience and provided insurance to maintain the stability of community functional diversity during the flooding period. Taxonomic and functional beta diversities decreased synchronously from the dry to wet seasons. There were no significant seasonal changes in functional beta redundancy. Our study provides a case for quantitatively measuring functional alpha and beta redundancies in macroinvertebrates and their seasonal changes in (sub) tropical disturbed rivers.

Published
2023
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2. Ants and plants as indicators of biodiversity, ecosystem services, and conservation value in constructed grasslands.

Author

Peters, Valerie, Campbell, Kaitlin, Dienno, Garrett, García, Mayrolin, Leak, Emaly, Loyke, Christina, Ogle, Megan, Steinly, Bruce, and Crist, Thomas

Subjects
BIODIVERSITY, ECOSYSTEM services, ECOLOGY, GRASSLANDS, WILDLIFE conservation, SOIL conservation, SPECIES diversity
Abstract

Grasslands are constructed for soil and wildlife conservation in agricultural landscapes across Europe and North America. Constructed grasslands may mitigate habitat loss for grassland-dependent animals and enhance ecosystem services that are important to agriculture. The responses of animal species richness and abundance to grassland habitat quality are often highly variable, however, and monitoring of multiple taxa is often not feasible. We evaluated whether multiple animal taxa responded to variation in constructed grassland habitats of southwest Ohio, USA, in ways that could be predicted from indicators based on quality assessment indices, Simpson diversity, and the species richness of ants and plants. The quality assessment indices included a widely used Floristic Quality Assessment (FQA) index, and a new Ant Quality Assessment (AntQA) index, both based on habitat specificity and species traits. The ant and plant indicators were used as predictor variables in separate general linear models of four target taxa-bees, beetles, butterflies and birds-with response variables of overall species richness and abundance, and subsets of taxa that included the abundance of ecosystem-service providers and grassland-associated species. Plant Simpson diversity was the best-fitting predictor variable in models of overall bee and beetle abundance, and the abundance of bees classified as ecosystem-service (ES) providers. FQA and plant richness were the best predictors of overall butterfly species richness and abundance. Ant species richness was the best predictor of overall bird species richness and abundance as well as the abundance of ES birds, while the AntQA index was the best predictor for the abundance of grassland bird and butterfly species. Thus, plant Simpson diversity and ant species richness were the most effective indicators for complementary components of grassland animal communities, whereas quality assessment indices were less robust as indicators and require more knowledge on the habitat specificity of individual ant and plant species. [ABSTRACT FROM AUTHOR]

Published
2016
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3. Analyzing snapshot diversity patterns with the Neutral Theory can show functional groups’ effects on community assembly

Author

Adrien Taudière, Fabien Laroche, François Munoz, Cyrille Violle, Ecosystèmes forestiers (UR EFNO), Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Centre d’Ecologie Fonctionnelle et Evolutive (CEFE), Université Paul-Valéry - Montpellier 3 (UPVM)-Centre international d'études supérieures en sciences agronomiques (Montpellier SupAgro)-École pratique des hautes études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE), Laboratoire d'Ecologie Alpine (LECA ), Université Savoie Mont Blanc (USMB [Université de Savoie] [Université de Chambéry])-Centre National de la Recherche Scientifique (CNRS)-Université Grenoble Alpes (UGA), Institut Français de Pondichéry (IFP), Ministère de l'Europe et des Affaires étrangères (MEAE)-Centre National de la Recherche Scientifique (CNRS), European Research Council (ERC) Starting Grant Project 'Ecophysiological and biophysical constraints on domestication of crop plants' : ERC-StG-2014-639706-CONSTRAINTSFrench Foundation for Research on Biodiversity (FRB), ANR-18-CE02-0025,GAMBAS,Nouvelles avancées dans la modélisation de la biodiversité et des services écosystémiques : améliorations statistiques et pertinences écologiques des modèles de distribution multi-espèces(2018), European Project: 639706,H2020,ERC-2014-STG,CONSTRAINTS(2015), Université Paul-Valéry - Montpellier 3 (UPVM)-École Pratique des Hautes Études (EPHE), Université Paris sciences et lettres (PSL)-Université Paris sciences et lettres (PSL)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Institut National de Recherche pour l’Agriculture, l’Alimentation et l’Environnement (INRAE)-Institut Agro - Montpellier SupAgro, and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)

Subjects
0106 biological sciences, tropical forest, neutral theory, species coexistence, Simpson diversity, 010603 evolutionary biology, 01 natural sciences, Trees, functional groups, beta-diversity index, Statistics, Ecology, Evolution, Behavior and Systematics, Mathematics, Community, Ecology, 010604 marine biology & hydrobiology, spatially implicit, Species diversity, Interspecific competition, Biodiversity, 15. Life on land, Deciduous, Density dependence, Phenotype, Snapshot (computer storage), [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Null hypothesis, Neutral theory of molecular evolution, community ecology
Abstract

International audience; A central question of community ecology is to understand how the interplay between processes of the Neutral Theory (e.g., immigration and ecological drift) and niche-based processes (e.g., environmental filtering, intra- and interspecific density dependence) shape species diversity in competitive communities. The articulation between these two categories of mechanisms can be studied through the lens of the intermediate organizational level of "functional groups" (FGs), defined as clusters of species with similar traits. Indeed, FGs stress ecological differences among species and are thus likely to unravel non-neutral interactions within communities. Here we presented a novel approach to explore how FGs affect species coexistence by comparing species and functional diversity patterns. Our framework considers the Neutral Theory as a mechanistic null hypothesis. It assesses how much the functional diversity deviates from species diversity in communities, and compares this deviation, called the "average functional deviation," to a neutral baseline. We showed that the average functional deviation can indicate reduced negative density dependence or environmental filtering among FGs. We validated our framework using simulations illustrating the two situations. We further analyzed tropical tree communities in Western Ghats, India. Our analysis of the average functional deviation revealed environmental filtering between deciduous and evergreen FGs along a broad rainfall gradient. By contrast, we did not find clear evidence for reduced density dependence among FGs. We predict that applying our approach to new case studies where environmental gradients are milder and FGs are more clearly associated to resource partitioning should reveal the missing pattern of reduced density dependence among FGs.

Published
2020
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4. Reduction of avian diversity in created versus natural and restored wetlands

Author

Andy J. Green and Esther Sebastián-González

Subjects
Habitat creation, 0106 biological sciences, geography, geography.geographical_feature_category, Ecology, Simpson diversity, 010604 marine biology & hydrobiology, Phylogenetic relatedness, Wetland, Biology, 010603 evolutionary biology, 01 natural sciences, Natural (archaeology), Waterbird, Threatened species, Reduction (complexity), Avian diversity, Restoration, Alpha diversity, Species richness, Ecology, Evolution, Behavior and Systematics
Abstract

Natural wetland ecosystems continue to suffer widespread destruction and degradation. Many recent studies argue that artificial or restored wetlands compensate for wetland loss and are valuable for waterbird conservation. However, detailed comparisons of the value of natural, artificial and restored wetlands are lacking. Our aim was to assess if the restoration or creation of wetlands can fully compensate for the loss of natural wetlands for waterbirds. We compared the waterbird communities in a set of 20 natural, restored and artificial wetlands, all of which are considered important for waterbirds and are located within the same protected area (Donana Natural Space, south-west Spain). We used different measures of diversity, including phylogenetic relatedness, and the proportion of threatened species at national, European and international levels. We found that artificial wetlands have consistently lower value than restored and natural wetlands, with little difference between the latter two. Natural wetlands are essential for conserving diversity across the tree of life and for threatened species, but restored wetlands can be of similar value and can assure maintenance of key ecological processes. Thus, when economic costs per unit area are similar, resources for wetland conservation are better invested in restoration projects than in wetland creation, and caution is required when suggesting that artificial wetlands compensate for the loss of natural wetlands

Published
2016
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5. Species Diversity Associated with Foundation Species in Temperate and Tropical Forests

Author

James A. Lutz, Hannah L. Buckley, Alvaro Duque, Jonathan Myers, Dairon Cárdenas, Aaron M. Ellison, Jess K. Zimmerman, David A. Orwig, Bradley S. Case, and MDPI

Subjects
0106 biological sciences, spatial analysis, 010504 meteorology & atmospheric sciences, Simpson diversity, Ecology and Evolutionary Biology, Biodiversity, Beta diversity, 010603 evolutionary biology, 01 natural sciences, species richness, 0105 earth and related environmental sciences, abundance, codispersion analysis, Forest dynamics, Ecology, Species diversity, Forestry, lcsh:QK900-989, Bray-Curtis, Smithsonian ForestGEO, Geography, lcsh:Plant ecology, Foundation species, Alpha diversity, Species richness, Shannon diversity, Temperate rainforest
Abstract

Foundation species define and structure ecological communities but are difficult to identify before they are declining. Yet, their defining role in ecosystems suggests they should be a high priority for protection and management while they are still common and abundant. We used comparative analyses of six large forest dynamics plots spanning a temperate-to-tropical gradient in the Western Hemisphere to identify statistical &ldquo, fingerprints&rdquo, of potential foundation species based on their size-frequency and abundance-diameter distributions, and their spatial association with five measures of diversity of associated woody plant species. Potential foundation species are outliers from the common &ldquo, reverse-J&rdquo, size-frequency distribution, and have negative effects on alpha diversity and positive effects on beta diversity at most spatial lags and directions. Potential foundation species also are more likely in temperate forests, but foundational species groups may occur in tropical forests. As foundation species (or species groups) decline, associated landscape-scale (beta) diversity is likely to decline along with them. Preservation of this component of biodiversity may be the most important consequence of protecting foundation species while they are still common.

Published
2019
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6. Only Simpson diversity can be estimated accurately from microbial community fingerprints

Author

Jean Jacques Godon, Bart Haegeman, Biswarup Sen, Jérôme Hamelin, Station d’Ecologie Expérimentale du CNRS à Moulis (SEEM), Centre National de la Recherche Scientifique (CNRS)-Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Department of Environmental Engineering and Science, Feng Chia University, Laboratoire de Biotechnologie de l'Environnement [Narbonne] (LBE), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de la Recherche Agronomique (INRA), SYSCOMM project DISCO (ANR-09-SYSC-003) and TULIP Laboratory of Excellence (ANR-10-LABX-41), ANR-09-SYSC-0003,DISCO,Modélisation multi-échelles du COuplage bioDIversité Structure dans les biofilms(2009), ANR-11-IDEX-0002,UNITI,Université Fédérale de Toulouse(2011), Centre for Biodiversity Theory and Modelling, Centre National de la Recherche Scientifique (CNRS), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA), Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), and Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)

Subjects
Phylotype, Ecology, Range (biology), Estimation Range, [SDV]Life Sciences [q-bio], Fingerprint (computing), Microbial Consortia, Terminal Restriction Fragment Length Polymorphism, Soil Science, Biodiversity, Biology, DNA Fingerprinting, Abundance Distribution, Terminal restriction fragment length polymorphism, Microbial ecology, Abundance (ecology), Simpson Diversity, Species richness, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Diversity Metrics, Ecology, Evolution, Behavior and Systematics, Diversity (business)
Abstract

International audience; Lalande et al. (Microb. Ecol. 66(3):647–658, 2013) introduced a promising approach to quantify microbial diversity from fingerprinting profiles. Their analysis is based on extrapolating the abundance of the phylotypes detectable in a fingerprint towards the rare phylotypes of the community. By considering a set of reconstructed communities, Lalande et al. obtained a range of estimates for phylotype richness, Shannon diversity and Simpson diversity. They reported narrow ranges indicating accurate estimation, especially for Shannon and Simpson diversities. Here, we show that a much larger set of reconstructed communities than the one considered by Lalande et al. is consistent with the fingerprint. We find that the estimates for phylotype richness and Shannon diversity vary over orders of magnitude, but that the estimates for Simpson diversity are restricted to a narrow range (around 10 %). We conclude that only Simpson diversity can be estimated accurately from fingerprints.

Published
2014
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7. Robust estimation of microbial diversity in theory and in practice

Author

Jérôme Hamelin, Peter Neal, Joshua S. Weitz, Bart Haegeman, Jonathan Dushoff, John Moriarty, Station d'écologie théorique et expérimentale (SETE), Université Toulouse III - Paul Sabatier (UT3), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Observatoire Midi-Pyrénées (OMP), Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Université Fédérale Toulouse Midi-Pyrénées-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD)-Météo France-Centre National d'Études Spatiales [Toulouse] (CNES)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD), Laboratoire de Biotechnologie de l'Environnement [Narbonne] (LBE), Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Department of Mathematics [Manchester] (School of Mathematics), University of Manchester [Manchester], Lancaster University, McMaster University [Hamilton, Ontario], Georgia Institute of Technology [Atlanta], French National Research Agency (ANR) [AAP215-SYSCOMM-2009], British Council, French Foreign Affairs Ministry [22732SJ], Burroughs Wellcome Fund, ANR-09-SYSC-0003,DISCO,Modélisation multi-échelles du COuplage bioDIversité Structure dans les biofilms(2009), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut National de la Recherche Agronomique (INRA), Modelling and Optimisation of the Dynamics of Ecosystems with MICro-organisme (MODEMIC), Inria Sophia Antipolis - Méditerranée (CRISAM), Institut National de Recherche en Informatique et en Automatique (Inria)-Institut National de Recherche en Informatique et en Automatique (Inria)-Mathématiques, Informatique et STatistique pour l'Environnement et l'Agronomie (MISTEA), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA), Centre for Biodiversity Theory and Modelling, Centre National de la Recherche Scientifique (CNRS), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA), Department of Mathematics and Statistics, Department of Biology and Institute of Infectious Disease Research, and School of Biology and School of Physics

Subjects
Hill diversities, Gamma diversity, Simpson diversity, Rare species, [INFO.INFO-OH]Computer Science [cs]/Other [cs.OH], Biodiversity, Chao estimator, Biology, Microbiology, 03 medical and health sciences, Computer Simulation, Seawater, Quantitative Biology - Populations and Evolution, Ecology, Evolution, Behavior and Systematics, Relative abundance distribution, Soil Microbiology, 030304 developmental biology, 0303 health sciences, Bacteria, 030306 microbiology, Ecology, Populations and Evolution (q-bio.PE), Species diversity, 15. Life on land, respiratory system, Archaea, Metagenomics, FOS: Biological sciences, metagenomics, Shannon diversity, species abundance distribution, Regression Analysis, Alpha diversity, Original Article, Species richness, human activities
Abstract

Quantifying diversity is of central importance for the study of structure, function and evolution of microbial communities. The estimation of microbial diversity has received renewed attention with the advent of large-scale metagenomic studies. Here, we consider what the diversity observed in a sample tells us about the diversity of the community being sampled. First, we argue that one cannot reliably estimate the absolute and relative number of microbial species present in a community without making unsupported assumptions about species abundance distributions. The reason for this is that sample data do not contain information about the number of rare species in the tail of species abundance distributions. We illustrate the difficulty in comparing species richness estimates by applying Chao's estimator of species richness to a set of in silico communities: they are ranked incorrectly in the presence of large numbers of rare species. Next, we extend our analysis to a general family of diversity metrics ("Hill diversities"), and construct lower and upper estimates of diversity values consistent with the sample data. The theory generalizes Chao's estimator, which we retrieve as the lower estimate of species richness. We show that Shannon and Simpson diversity can be robustly estimated for the in silico communities. We analyze nine metagenomic data sets from a wide range of environments, and show that our findings are relevant for empirically-sampled communities. Hence, we recommend the use of Shannon and Simpson diversity rather than species richness in efforts to quantify and compare microbial diversity., Comment: To be published in The ISME Journal. Main text: 16 pages, 5 figures. Supplement: 16 pages, 4 figures

Published
2013
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