Community structure, abundance, and morphology

. 2000. Community structure, abundance, and morphology. -Oikos 88: 48 -56. The role of interspecific competition in structuring communities has been a highly debated issue for the last two decades. The nonrandom nature of morphological patterns within communities has been at the center of this controversy. Null models addressing community-wide dispersions in morphology have produced equivocal results and may be based on assumptions that are too restrictive (e.g., competitive exclusion or displacement). If morphological distinctiveness allows species to escape competitive pressures and exhibit higher densities, then a positive relationship should exist between morphological dissimilarity and abundance. We develop a suite of models that evaluates patterns in abundance that are associated with the morphological proximity of a species to other competitors. We evaluated the relationship between morphological distance and abundance from a variety of morphological perspectives, from those representing strictly diffuse interactions to those representing only interactions between a species and its nearest neighbor in morphological space. These models were sufficiently powerful to detect positive associations between abundance and morphological differences in a nocturnal desert rodent guild for which the effects of competition on structure are well established. Models such as these may be more useful than traditional models evaluating morphological dispersions for many reasons. They do not require that communities reach equilibrium before competitive interactions give rise to deterministic structure. They do not suffer from limitations of potentially inaccurate faunal pools or from phylogenetic constraints. Lastly, they may be used as a diagnostic tool in comparative studies to determine the degree to which competitive interactions structure communities

Body size and resource competition in New World bats: a test of spatial scaling laws

Assembly rules based on body size characterize processes that determine community composition and structure. One prominent model proposes a spatial scaling law (SSL) that links body size with foraging behavior and predicts the minimum difference in body size that is necessary for species coexistence. Although this SSL is cited frequently, robust tests of its predictions are few, and its performance in these tests has been mixed. We used data on 34 well sampled bat assemblages from throughout the New World to test predictions of the SSL for 5 feeding guilds: aerial insectivores, frugivores, high-flying insectivores, gleaning animalivores, and nectarivores. Contrary to the model\u27s predictions, body-size ratios of species of adjacent size did not decrease with increasing body size, the frequency distribution of sizes within a guild was not left-skewed, and the relationship between species richness and productivity was not modal with a long tail to the right. Body size alone appears insufficient to describe niche differentiation and species coexistence in New World bats, calling into question the broad applicability of this model of spatial scaling. Future studies of the SSL should identify the characteristics that predispose a community to be characterized well by such a model, rather than assuming it is a robust descriptor of communities regardless of taxon and other conditions

Predictive Accuracy of the Veterans Aging Cohort Study Index for Mortality With HIV Infection

BackgroundBy supplementing an index composed of HIV biomarkers and age (restricted index) with measures of organ injury, the Veterans Aging Cohort Study (VACS) index more completely reflects risk of mortality. We compare the accuracy of the VACS and restricted indices (1) among subjects outside the Veterans Affairs Healthcare System, (2) more than 1-5 years of prior exposure to antiretroviral therapy (ART), and (3) within important patient subgroups.MethodsWe used data from 13 cohorts in the North American AIDS Cohort Collaboration (n = 10, 835) limiting analyses to HIV-infected subjects with at least 12 months exposure to ART. Variables included demographic, laboratory (CD4 count, HIV-1 RNA, hemoglobin, platelets, aspartate and alanine transaminase, creatinine, and hepatitis C status), and survival. We used C-statistics and net reclassification improvement (NRI) to test discrimination varying prior ART exposure from 1 to 5 years. We then combined Veterans Affairs Healthcare System (n = 5066) and North American AIDS Cohort Collaboration data, fit a parametric survival model, and compared predicted to observed mortality by cohort, gender, age, race, and HIV-1 RNA level.ResultsMean follow-up was 3.3 years (655 deaths). Compared with the restricted index, the VACS index showed greater discrimination (C-statistics: 0.77 vs. 0.74; NRI: 12%; P < 0.0001). NRI was highest among those with HIV-1 RNA <500 copies per milliliter (25%) and age ≥50 years (20%). Predictions were similar to observed mortality among all subgroups.ConclusionsVACS index scores discriminate risk and translate into accurate mortality estimates over 1-5 years of exposure to ART and for diverse patient subgroups from North American

BioTIME:a database of biodiversity time series for the Anthropocene

Abstract Motivation: The BioTIME database contains raw data on species identities and abundances in ecological assemblages through time. These data enable users to calculate temporal trends in biodiversity within and amongst assemblages using a broad range of metrics. BioTIME is being developed as a community‐led open‐source database of biodiversity time series. Our goal is to accelerate and facilitate quantitative analysis of temporal patterns of biodiversity in the Anthropocene. Main types of variables included: The database contains 8,777,413 species abundance records, from assemblages consistently sampled for a minimum of 2 years, which need not necessarily be consecutive. In addition, the database contains metadata relating to sampling methodology and contextual information about each record. Spatial location and grain: BioTIME is a global database of 547,161 unique sampling locations spanning the marine, freshwater and terrestrial realms. Grain size varies across datasets from 0.0000000158 km² (158 cm²) to 100 km² (1,000,000,000,000 cm²). Time period and grain: BioTIME records span from 1874 to 2016. The minimal temporal grain across all datasets in BioTIME is a year. Major taxa and level of measurement: BioTIME includes data from 44,440 species across the plant and animal kingdoms, ranging from plants, plankton and terrestrial invertebrates to small and large vertebrates. Software format: .csv and .SQL

BioTIME:a database of biodiversity time series for the Anthropocene

Motivation: The BioTIME database contains raw data on species identities and abundances in ecological assemblages through time. These data enable users to calculate temporal trends in biodiversity within and amongst assemblages using a broad range of metrics. BioTIME is being developed as a community led open-source database of biodiversity time series. Our goal is to accelerate and facilitate quantitative analysis of temporal patterns of biodiversity in the Anthropocene.Main types of variables included: The database contains 8,777,413 species abundance records, from assemblages consistently sampled for a minimum of two, which need not necessarily be consecutive. In addition, the database contains metadata relating to sampling methodology andcontextual information about each record.Spatial location and grain: BioTIME is a global database of 547,161 unique sampling locations spanning the marine, freshwater and terrestrial realms. Grain size varies across datasets from 0.0000000158 km2 (158 cm2) to 100 km2 (1 000 000 000 000 cm2).Time period and grain: BioTIME records span from 1874 to 2016. The minimum temporal grain across all datasets in BioTIME is year.Major taxa and level of measurement: BioTIME includes data from 44,440 species across the plant and animal kingdoms, ranging from plants, plankton, and terrestrial invertebrates to small and large vertebrates.Software format: .csv and .SQ

Are rare species useful species? Obstacles to the conservation of tree diversity in the dry forest zone agro-ecosystems of Mesoamerica

Aim To test the potential to conserve rare dry forest tree and shrub species circa situm.Location Oaxaca, Mexico and Southern Honduras.Methods Local uses (timber, posts and firewood) of species were determined principally through semistructured interviews with 20 rural householders in each of four communities in Honduras and four in Oaxaca. Tree and shrub diversity inventories were carried out in a total of 227 forest patches and parcels of farmland in those eight communities. Species’ conservation priorities were determined using the star system of Hawthorne (1996) and IUCN listings.Results Despite a large number of useful species, remarkably few were also conservation priorities. Useful species were found to be substitutable as is illustrated by Bombacopsis quinata, Cordia alliodora, Guaiacum sanctum and G. coulteri.Conclusions In these areas, circa situm conservation is inhibited by the lack of species that are both rare and useful. Usefulness must be interpreted as a function of substitutability. Natural regeneration provides an abundance of diversity, farmers are unlikely to invest in the management of a species when suitable substitutes are freely available. The key to conserving rare species may be in maintaining or enhancing the value of the landscape elements in which they are found