Find research datasets worth reusing

opencc-by-4.0Apr 2009View details →

Figure 6. Diagram showing Kimura 2 in Cryptic speciation at organic-rich marine habitats: a new bacteriovore annelid from whale-fall and fish farms in the North-East Atlantic

Figure 6. Diagram showing Kimura 2 Parameter (K2P)-distances between congeneric species in four chrysopetalid genera, for two nuclear genes (18S, 28S) and two mitochondrial genes (16S, cytochrome c oxidase subunit I (COI)).

opencc-by-4.0Sep 2021View details →

Influence of European beech (Fagus sylvatica) rot hole habitat characteristics on invertebrate community structure and diversity - Dataset

The data and R scripts pertinent to the Journal of Insect Science manuscript titled "Influence of European beech (Fagus sylvatica) rot hole habitat characteristics on invertebrate community structure and diversity". Environmental variables are given in "Rot Hole and Site Data", whilst community data are given as counts in "Rot Hole Community Data - counts" and as relative  abundance in "Rot Hole Community Data - relative abundances".

opencc-zeroOct 2021View details →

Habitat specialization by wildlife reduces pathogen spread in urbanizing landscapes

Urban areas are expanding globally, with far-reaching ecological consequences, including for wildlife-pathogen interactions. Wildlife show tremendous variation in their responses to urbanization; even within a single population, some individuals can specialize on urban or natural habitat types. This specialization could alter pathogen impacts on host populations via changes to wildlife movement and aggregation. Here, we build a mechanistic model to explore how habitat specialization in urban landscapes affects interactions between a mobile host population and a density-dependent specialist pathogen that confers no immunity. We model movement on a network of resource-stable urban sites and resource-fluctuating natural sites, where hosts are either urban specialists, natural specialists, or generalists that use both patch types. We find that, for generalists, natural and partially urban landscapes produce the highest infection prevalence and mortality, driven by high movement rates at natural sites and high densities at urban sites. However, habitat specialization protects hosts from these negative effects of partially urban landscapes by limiting movement between patch types. These findings suggest that habitat specialization can benefit populations by reducing infectious disease transmission, but by reducing movement between habitat types could also carry the cost of reducing other movement-related ecosystem functions such as seed dispersal and pollination.

opencc-zeroOct 2021View details →

Airflow modelling predicts seabird breeding habitat across islands

Wind is fundamentally related to shelter and flight performance: two factors that are critical for birds at their nest sites. Despite this, airflows have never been fully integrated into models of breeding habitat selection, even for well-studied seabirds. Here we use computational fluid dynamics to provide the first assessment of whether flow characteristics (including wind speed and turbulence) predict the distribution of seabird colonies, taking common guillemots (Uria aalge) breeding on Skomer island as our study system. This demonstrates that occupancy is driven by the need to shelter from both wind and rain/ wave action, rather than airflow characteristics alone. Models of airflows and cliff orientation both performed well in predicting high quality habitat in our study site, identifying 80% of colonies and 93% of avoided sites, as well as 73% of the largest colonies on a neighbouring island. This suggests generality in the mechanisms driving breeding distributions, and provides an approach for identifying habitat for seabird reintroductions considering current and projected wind speeds and directions.

opencc-by-4.0Aug 2024View details →

Expert opinion survey on habitat-threat parameters for the PEM-Sul ocean zoning project

This is an ongoing dataset.

Fig. 1. Sampling sites along the Costa Rica margin and exemplary habitat pictures. A in Cutting the ribbon: bathyal Nemertea from seeps along the Costa Rica margin, with descriptions of 2 new genera and 9 new species

Fig. 1. Sampling sites along the Costa Rica margin and exemplary habitat pictures. A. Map of the seven sampling sites along the Costa Rica margin: Cocos Canyon (CC), Jaco Scar (JS), Mound 11 (M11), Mound 12 (M12), Mound Jaguar (MJ), Parrita Seep (PS), and Quepos Plateau (QP). B. Aggregation of the vestamentiferan Escarpia spicata Jones, 1985. C. Nemerteans of the species Chernyshevia escarpiaphila sp. nov. (arrows) found on Escarpia spicata. Photo credit: ROV SuBastian/Schmidt Ocean Institute.

opencc-zeroDec 2021View details →

Data for: Dynamic coastal pelagic habitat drives rapid changes in growth and condition of juvenile sockeye salmon (Oncorhynchus nerka) during early marine migration

Migrating marine taxa encounter diverse habitats that differ environmentally and in foraging conditions over a range of spatial scales. We examined body (RNA/DNA, length-weight residuals) and nutritional (fatty acid composition) condition of juvenile sockeye salmon (Oncorhynchus nerka) in British Columbia while migrating through oceanographically variable waters. Fish were sampled in the stratified northern Strait of Georgia (NSoG); the highly mixed Johnstone Strait (JS); and the transitional zone of Queen Charlotte Strait (QCS). In 2015, body and nutritional condition were high in the NSoG but rapidly declined to reach the lowest levels in JS where prey availability was low, before showing signs of compensatory growth in QCS. In 2016, juvenile salmon had a significantly lower condition in the NSoG than in 2015, although zooplankton biomass was similar, condition remained low in JS, and no compensatory growth was observed in QCS. We provide evidence that differences in juvenile salmon condition between the two years were due to changes in the food quality available to juvenile fish. We propose that existing hypotheses about fish survival need to be extended to incorporate food quality in addition to quantity to understand changes in fish condition and survival between years.

opencc-by-4.0Nov 2022View details →

Supplementary material to "Habitat detection, habitat choice copying, or mating benefits: what drives conspecific attraction in a nomadic songbird?"

Abstract <ol> <li>Conspecific attraction during habitat selection is common among animals, but the ultimate (i.e., fitness-related) reasons for this behavior often remain enigmatic.</li> <li>We aimed to evaluate the following three hypotheses for conspecific attraction during the breeding season in male Wood Warblers (Phylloscopus sibilatrix): the habitat detection hypothesis, the habitat choice copying hypothesis, and the female preference hypothesis. These hypotheses make different predictions with respect to the relative importance of social and non-social information during habitat assessment, and whether benefits accrue as a consequence of aggregation.</li> <li>We tested the above hypotheses using a combination of a two-year playback experiment, spatial statistics and mate choice models.</li> <li>The habitat detection hypothesis was the most likely explanation for conspecific attraction and aggregation in male Wood Warblers, based on the following results: 1) males were attracted to conspecific song playbacks, but fine-scale habitat heterogeneity was the better predictor of spatial patterns in the density of settling males; 2) male pairing success did not increase, but instead slightly decreased, as connectivity with other males (i.e., the number and proximity of neighboring males) increased.</li> <li>Our study highlights how consideration of the process by which animals detect and assess habitat, together with the potential fitness consequences of resulting aggregations, are important for understanding conspecific attraction and spatially clustered distributions.</li> </ol>

opencc-by-4.0Nov 2022View details →

Data from: "Influence of natal habitat preference on habitat selection during extra-home range movements in a large ungulate"

Secondary dataset used for analysis in "Influence of natal habitat preference on habitat selection during extra-home range movements in a large ungulate". Raw GPS relocation data are not publicly available due to potential ethical implications but are available from the corresponding author (Nathan Hooven, nathan.d.hooven@gmail.com) upon reasonable request. Files include: deer_data_6.csv: Sampled covariate values for each used and available location used in SSF analysis Metadata: Metadata information for deer_data_6.csv

Fig. 2 in Larval Development And Habitat Usage Of Stream-Breeding Fire Salamanders In An Urban Environment

Fig. 2. Changes in the number of salamander larvae and rainfall. The bold black continuous line shows the mean number of salamander larvae detected during the surveys in the three 10 day intervals of months in Hűvös-ér stream, 2011–2014. The bar graph shows the mean amount (and SD) of precipitation (mm) during the three 10-day intervals of months

Fig. 3 in Larval Development And Habitat Usage Of Stream-Breeding Fire Salamanders In An Urban Environment

Fig. 3. Mean density of salamander larvae (number of larvae/m2) detected in the 16 segments during surveys every 10 days in "Hűvös-ér" stream, 2011–2014 (2011: thin line, 2012:

Fig. 5 in Larval Development And Habitat Usage Of Stream-Breeding Fire Salamanders In An Urban Environment

Fig. 5. Mean number of salamander larvae detected per a year in the "releasing" 2–6 upper segments (continuous bold line), in the "strong collector" middle segments: 7–9 (dashed line) and the "weak collector" lower segments: 10–13 (dotted line) during surveys every 10 days in "Hűvös-ér" stream between 2011–2014. Data from segment 1 have not been plotted because larvae were present at only one time point

opencc-by-4.0Dec 2022View details →

Raw data for: Habitat edges affect tree diversity more than biomass regeneration in a reforested wet neotropical timber plantation

Raw data for: Habitat edges affect tree diversity more than biomass regeneration in a reforested wet neotropical timber plantation. Code hosted on GitHub/Zenodo.

opencc-zeroDec 2022View details →

Data for: Predicting habitat suitability for Townsend's big-eared bats across California in relation to climate change

Aim: Effective management decisions depend on knowledge of species distribution and habitat use. Maps generated from species distribution models are important in predicting previously unknown occurrences of protected species. However, if populations are seasonally dynamic or locally adapted, failing to consider population level differences could lead to erroneous determinations of occurrence probability and ineffective management. The study goal was to model the distribution of a species of special concern, Townsend's big-eared bats (Corynorhinus townsendii), in California. We incorporate seasonal and spatial differences to estimate the distribution under current and future climate conditions. Methods: We built species distribution models using all records from statewide roost surveys and by subsetting data to seasonal colonies, representing different phenological stages, and to Environmental Protection Agency Level III Ecoregions to understand how environmental needs vary based on these factors. We projected species' distribution for 2061-2080 in response to low and high emissions scenarios and calculated the expected range shifts. Results: The estimated distribution differed between the combined (full dataset) and phenologically-explicit models, while ecoregion-specific models were largely congruent with the combined model. Across the majority of models, precipitation was the most important variable predicting the presence of C. townsendii roosts. Under future climate scnearios, distribution of C. townsendii is expected to contract throughout the state, however suitable areas will expand within some ecoregions. Main conclusion: Comparison of phenologically-explicit models with combined models indicate the combined models better predict the extent of the known range of C. townsendii in California. However, life history-explicit models aid in understanding of different environmental needs and distribution of their major phenological stages. Differences between ecoregion-specific and statewide predictions of habitat contractions highlight the need to consider regional variation when forecasting species' responses to climate change. These models can aid in directing seasonally explicit surveys and predicting regions most vulnerable under future climate conditions.

Fig. 1 in Larval Development And Habitat Usage Of Stream-Breeding Fire Salamanders In An Urban Environment

Fig. 1. Segments of "Hűvös-ér" stream, where Salamandra salamandra larvae were surveyed. (Numbers indicate individual stream segments, bold meandering line = main branch of the stream, thin branch- ing line = tributaries of the stream, straight lines = segment boundaries, four-pointed stars at segment boundaries and in the stream bed = water steps, double line = main road between Budapest and Solymár, P = "Paprikás"-stream)

opencc-zeroJan 2023View details →

Data for: Positive impact of postfire environment on bumble bees not explained by habitat variables in a remote forested ecosystem

Bumble bees are important pollinators in temperate forested regions where fire is a driving force for habitat change, and thus understanding how these insects respond to fire is critical. Previous work has shown bees are often positively affected by the post-fire environment, with burned sites supporting greater bee abundance and diversity, and increased floral resources. The extent to which fire impacts variation in bumble bee site occupancy is not well understood, especially in higher latitude regions with dense, primarily coniferous forests. Occupancy models are powerful tools for biodiversity analyses, as they separately estimate occupancy probability (likelihood that a species is present at a particular location) and detection probability (likelihood of observing a species when it is present). Using these models, we tested whether bumble bee site occupancy is higher in burned locations as a result of the increase in canopy openness, floral species richness, and floral abundance. We quantified the impact of fire, and associated habitat changes, on bumble bee species' occupancy in an area with high wildfire frequency in British Columbia, Canada. The burn status of a site was the only significant predictor for determining bumble bee occurrence (with burned sites having higher occupancy); floral resource availability and canopy openness only impacted detection probability (roughly, sample bias). These findings highlight the importance of controlling for the influence of habitat on species detection in pollinator studies and suggest that fire in this system changes the habitat for bumble bees in positive ways that extend beyond our measurements of differences in floral resources and canopy cover.

Fig. 4. Predicted suitable habitats for S in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation

Fig. 4. Predicted suitable habitats for S. crocodilurus in the period between 2020 to 2080, based on bioclimatic data and elevation. Habitat suitability increases from yellow to dark brown.

Fig. 5 in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation

Fig. 5. Predicted suitable habitats throughout the distribution range of S. crocodilurus in northern Vietnam, using combined vegetation, bioclimatic and elevation data. Red squares indicate recommended priority areas for habitat conservation (bottom left: proposed corridor to link two existing reserves; top right: proposed reserve to be established in the future).

Fig. 3 in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation

Fig. 3. Observed population structure of Vietnamese S. crocodilurus from 2010 to 2015. Photos M. van Schingen.

Fig. 2 in Discovery of a new crocodile lizard population in Vietnam: Population trends, future prognoses and identification of key habitats for conservation

Fig. 2. Population trends of S. crocodilurus in Vietnam from 2010 to 2015. (A) Estimated total population sizes in Vietnam. (B) Observed total subpopulation sizes. (C) Observed effective subpopulation sizes. Arrows indicate trend lines.