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Bayesian hierarchical stock–recruitment models for setting conservation limits for Atlantic salmon stocks in ScotlandNARA Subscribed
Atlantic salmon ( Salmo salar L.) populations in Scotland are subject to active management and conservation practices which require biological reference points (BRPs), specifically conservation limits, defined at the level of the stock. Acquiring the data necessary to independently derive these BRPs for all managed populations in Scotland is prohibitive, motivating the use of Bayesian hierarchical stock–recruitment models. The...
Species distribution models are increasingly used to understand species’ environmental preferences and habitat use as a means to inform management decisions. To identify important areas, mitigate impacts of anthropogenic activities, and forecast potential changes in habitat suitability under future climate conditions, emphasis should be placed on computing accurate and representative models from which reliable predictions can...
Black Death Land Abandonment Drove European Diversity LossesNARA Subscribed
The current prevailing perception is that human impacts on the biological realm have been overwhelmingly negative. Here, we test this narrative by considering the consequences for aspects of floristic diversity of the ‘Black Death era’ (1300–1400 ce ), where one third of Europe's population died within half a decade. Based on evidence from 109 pollen records spanning the Common Era, we find increasing floristic diversity from...
Aim Homogenisation (decreasing beta‐diversity) among biological assemblages is often interpreted as being caused by already‐widespread species increasing. The link between individual species level trends and homogenisation between assemblages, however, has not been fully addressed, with most studies focused solely on either assemblage level or species level changes. Here we aim to test the widely held hypothesis that homogenis...
Aim It is widely reported that aspects of present‐day global biodiversity are declining, with humans largely to blame. However—perhaps paradoxically—in Europe, floristic diversity and human populations have grown in tandem for millennia. Disturbance intensity and habitat heterogeneity potentially explain this phenomenon, though we lack understanding of how human land use intensity affected biodiversity at numerous spatial scal...
The Greatest Extinction Event in 66 Million Years? Contextualising Anthropogenic ExtinctionsNARA Subscribed
Biological communities are changing rapidly in response to human activities, with the high rate of vertebrate species extinction leading many to propose that we are in the midst of a sixth mass extinction event. Five past mass extinction events have commonly been identified across the Phanerozoic, with the last occurring at the end of the Cretaceous, 66 million years ago (Ma). However, life on Earth has always changed and evol...
Motivation Here, we make available a second version of the BioTIME database, which compiles records of abundance estimates for species in sample events of ecological assemblages through time. The updated version expands version 1.0 of the database by doubling the number of studies and includes substantial additional curation to the taxonomic accuracy of the records, as well as the metadata. Moreover, we now provide an R packag...
The challenge of managing aquatic connectivity in a changing climate is exacerbated in the presence of additional anthropogenic stressors, social factors, and economic drivers. Here we discuss these issues in the context of structural and functional connectivity for aquatic biodiversity, specifically fish, in both the freshwater and marine realms. We posit that adaptive management strategies that consider shifting baselines an...
A novel method for identifying coded tags recorded on aquatic acoustic monitoring systemsNARA Subscribed
Aquatic biotelemetry increasingly relies on using acoustic transmitters (‘tags’) that enable passive detection of tagged animals using fixed or mobile receivers. Both tracking methods are resource-limited, restricting the spatial area in which movements of highly mobile animals can be measured using proprietary detection systems. Transmissions from tags are recorded by underwater noise monitoring systems designed for other pur...
Cover ImageNARA Subscribed
Global freshwater biodiversity is declining dramatically, and meeting the challenges of this crisis requires bold goals and the mobilisation of substantial resources. While the reasons are varied, investments in both research and conservation of freshwater biodiversity lag far behind those in the terrestrial and marine realms. Inspired by a global consultation, we identify 15 pressing priority needs, grouped into five research...
Common, low-frequency, rare, and ultra-rare coding variants contribute to COVID-19 severityNARA Subscribed
The combined impact of common and rare exonic variants in COVID-19 host genetics is currently insufficiently understood. Here, common and rare variants from whole-exome sequencing data of about 4000 SARS-CoV-2-positive individuals were used to define an interpretable machine-learning model for predicting COVID-19 severity. First, variants were converted into separate sets of Boolean features, depending on the absence or the pr...