Filtering by Subject: Biodiversity

fundiversity: a modular R package to compute functional diversity indices

Matthias Grenié, Hugo Gruson

Published: 2022-07-18
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences, Other Ecology and Evolutionary Biology, Research Methods in Life Sciences

1. Functional diversity is widely used and widespread. However, the main package used to compute functional diversity indices FD is not flexible and not adapted to the volume of data used in modern ecological analyses. 2. We here present fundiversity, an R package that eases the computation of classical functional diversity indices. It leverages parallelization and memoization (caching results [...]

The role of genomics in the future of Endangered Species Act decision-making

Brenna Forester, Tanya Lama

Published: 2022-07-14
Subjects: Biodiversity, Ecology and Evolutionary Biology, Genetics and Genomics, Life Sciences

The U.S. Endangered Species Act (ESA) provides a framework for the protection and recovery of threatened and endangered species and their habitats in the face of anthropogenic threats. Genetic information has played a role in decision-making under the ESA for decades, most commonly informing taxonomy and the designation of distinct population segments, though detection of inbreeding also played [...]

High tolerance to zinc but no evidence for local adaptation in the aquatic plant Lemna minor

Sofia Vamos, Cheng Li, Aboubakr Moradi, et al.

Published: 2022-07-05
Subjects: Biodiversity, Botany, Life Sciences, Plant Sciences

Duckweeds are a widely distributed and economically important aquatic plant family that have high potential for phytoremediation of polluted water bodies. We collected four ecotypes of the common duckweed (Lemna minor) from the four corners of Switzerland and assessed how their home vs. away environments influenced their growth. Additionally, we investigated their response to a metal pollutant [...]

The coevolutionary mosaic of bat betacoronavirus emergence risk

Norma Forero, Renata L. Muylaert, Stephanie N. Seifert, et al.

Published: 2022-07-01
Subjects: Biodiversity, Bioinformatics, Biology, Biotechnology, Cell and Developmental Biology, Ecology and Evolutionary Biology, Immunology and Infectious Disease, Life Sciences, Other Ecology and Evolutionary Biology, Other Life Sciences

Pathogen evolution is one of the least predictable components of disease emergence, particularly in nature. Here, building on principles established by the geographic mosaic theory of coevolution, we develop a quantitative, spatially-explicit framework for mapping the evolutionary risk of viral emergence. Driven by interest in diseases like SARS, MERS, and COVID-19, we examine the global [...]

An operational workflow for producing periodic estimates of species occupancy at large scales

Rob James Boyd, Tom August, Robert Cooke, et al.

Published: 2022-06-23
Subjects: Biodiversity, Bioinformatics, Ecology and Evolutionary Biology, Life Sciences

Policy makers require high-level summaries of biodiversity change. However, deriving such summaries from raw biodiversity data is a complex process involving several intermediary stages. In this paper, we describe a workflow for generating annual estimates of species’ occupancy at national scales from raw species occurrence data, which can be used to construct a range of policy-relevant [...]

The dark web trades wildlife, but mostly for use as drugs

Oliver C. Stringham, Jacob Maher, Charlotte Lassaline, et al.

Published: 2022-06-16
Subjects: Biodiversity, Life Sciences

Contemporary wildlife trade is massively facilitated by the Internet. By design, the dark web is one layer of the Internet that is difficult to monitor and lacks thorough investigation. Here, we accessed a comprehensive database of dark web marketplaces to search across c. 2 million dark web advertisements over 5 years using c. 7k wildlife trade-related search terms. We found 153 species traded [...]

Uneven biodiversity sampling across redlined urban areas in the United States

Diego Ellis-Soto, Melissa Chapman, Dexter H Locke

Published: 2022-06-09
Subjects: Biodiversity, Demography, Population, and Ecology, Environmental Monitoring, Environmental Sciences, Inequality and Stratification, Life Sciences, Physical Sciences and Mathematics, Social and Behavioral Sciences, Sociology, Urban Studies and Planning

Citizen science data has rapidly gained influence in urban ecology and conservation planning, but with limited understanding of how such data reflects social, economic, and political conditions and legacies. Understanding patterns of sampling bias across socioeconomic gradients is critical to accurately map and understand biodiversity patterns, and to generating representative and just [...]

Temporal variability declines with increasing trophic levels and spatial scales in freshwater ecosystems

Tadeu Siqueira, Charles Hawkins, Julian Olden, et al.

Published: 2022-05-30
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences, Terrestrial and Aquatic Ecology

The temporal variability of ecological properties tends to decrease with spatial scale and levels of biological organization, but how does it propagate across trophic levels? We compiled metacommunity time-series datasets spanning basal resources to top predators from 355 freshwater sites across three continents. Temporal variability in abundance decreased from producers to tertiary consumers [...]

Evolution and impact of socially transferred materials

Sanja Maria Hakala, Haruna Fujioka, Ornela De Gasperin, et al.

Published: 2022-05-27
Subjects: Animal Sciences, Biodiversity, Bioinformatics, Cell and Developmental Biology, Ecology and Evolutionary Biology, Genetics and Genomics, Life Sciences, Physiology, Systems Biology

Since the dawn of life, transfers of metabolized material between individuals have led to great innovations of evolution. When metabolized material is transferred from one individual’s body to another (as with sperm, eggs, milk, symbionts), secondary manipulative molecules that induce a physiological response in the receiver are often transferred along with the primary cargo. The bioactive and [...]

GridDER: Grid Detection and Evaluation in R

Xiao Feng, Tainá Rocha, Hanna T Thammavong, et al.

Published: 2022-05-23
Subjects: Biodiversity, Ecology and Evolutionary Biology, Environmental Sciences, Life Sciences, Physical Sciences and Mathematics

Observations and collections of organisms form the basis of our understanding of Earth’s biodiversity and are an indispensable resource for global change studies. Geographic information is key, serving as the link between organisms and the environments they reside in. However, the geographic information associated with these records is often inaccurate, thus limiting their efficacy for research. [...]

Animating the carbon cycle through trophic rewilding could provide highly effective natural climate solutions

Oswald J. Schmitz, Magnus Sylven, Trisha Atwood, et al.

Published: 2022-05-11
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences, Marine Biology

Natural climate solutions are being advanced as cost-effective and safe ways to achieve net-zero emissions by protecting and enhancing carbon capture and storage in plants, and in soils and sediments in terrestrial and marine ecosystems. Current thinking holds that these solutions have the added benefit of protecting habitats and landscapes to restore and conserve animal species diversity. [...]

Macroecological processes drive spiritual ecosystem services obtained from giant trees

Ryosuke Nakadai

Published: 2022-05-07
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences, Other Ecology and Evolutionary Biology, Social and Behavioral Sciences, Sociology, Sociology of Religion

Giant trees that have come to have their own unique identities are often named by local people and can inspire a sense of awe and become objects of faith. Although these giant trees provide various kinds of spiritual ecosystem services that are beneficial to the spiritual well-being of the human society, the drivers of these services remain unclear. Using structural equation modeling with 38,994 [...]

Fine-scale spatial distribution of biodiversity citizen science in a natural area depends on area accessibility and differs from other recreational area use

Caitlin Mandeville, Erlend Birkeland Nilsen, Anders Gravbrøt Finstad

Published: 2022-05-05
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences

1. Opportunistic citizen science produces large amounts of primary biodiversity data but is underutilized in the conservation and management of protected areas despite these areas’ status as citizen science hotspots. Application of these data may be limited by the challenge of understanding sampling patterns associated with opportunistic data at a scale relevant to local area management. An [...]

Integrating presence-only and presence-absence data to model changes in species geographic ranges: An example of yaguarundí in Latin America

Florencia Grattarola, Diana Bowler, Petr Keil

Published: 2022-04-29
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences

Anthropogenic changes such as land use and climate change affect species’ geographic ranges, causing range shifts, contractions, or expansions. However, data on range dynamics are insufficient, heterogeneous, and spatially and temporally biased in most regions. Integrated species distribution models (IDMs) offer a solution as they can complement good quality presence-absence data with [...]

High compositional dissimilarity among small communities is decoupled from environmental variation

Cristina Mariana Jacobi, Tadeu Siqueira

Published: 2022-04-29
Subjects: Biodiversity, Ecology and Evolutionary Biology, Life Sciences

Communities composed of small populations are predicted to be strongly influenced by stochastic demographic events and, thus, less affected by environmental selection than those composed of large populations. However, this prediction has only been tested with computer simulations, simplified controlled experiments, and limited observational data. Here, using multiple datasets on fish abundance in [...]


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