cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.0rxwdbrv7
title: Through the taste buds of a large herbivore: foodscape modeling contributes to an understanding of forage selection processes

description: How large herbivores track resource quantity and quality through time has
 formed the core of an abundance of literature on migratory populations in
 recent decades. Yet, relating foraging processes and habitat selection
 patterns in resident populations, where spatial heterogeneity of food
 resources is fine‐grained and/or where the portion of edible plants (i.e.
 the foodscape) is low, is challenging. We addressed this issue in a
 mountain population of chamois Rupicapra rupicapra, an intermediate
 feeder, whose individuals do not migrate. We relied on a rare combination
 of data on habitat use of 50 GPS‐collared females and data on the quantity
 (biomass) and quality (phenology) of edible resources in their landscape,
 derived from field sampling of vegetation, remote sensing, and diet (DNA
 barcoding). The foodscape of the chamois was composed of a low proportion
 of the available biomass (&lt;17%), including relatively high‐quality
 plants, with low spatial covariation between plant phenology and biomass.
 Chamois avoided areas with a low edible biomass (where the intake rate may
 be too low) and focused on areas with plants at approximately the
 flowering stage, whatever the average plant phenological stage available.
 Due to this constant preference for flowering plants, home range selection
 ratios therefore shifted during the summer from a selection of more
 advanced plants in June to their avoidance in August. When the phenology
 scores of all plants available, rather than edible plants only, were
 considered, areas with relatively more advanced plants were selected all
 summer long. This exemplifies that, when traits from edible plants are
 different from those of all plants available, it is crucial to consider
 the actual foodscape to decipher forage and habitat selection processes.
 By integrating species‐specific dimensions of resources in habitat
 selection studies, we believe understanding of the foraging processes will
 be improved.
DOI: 10.5061/dryad.q573n5tdv
title: The guide sRNA sequence determines the activity level of Box C/D RNPs

description: 2’-O-rRNA methylation, which is essential in eukaryotes and archaea, is
 catalysed by the Box C/D RNP complex in an RNA-guided manner. Despite the
 conservation of the methylation sites, the abundance of site-specific
 modifications shows variability across species and tissues, suggesting
 that rRNA methylation may provide a means of controlling gene expression.
 As all Box C/D RNPs are thought to adopt a similar structure, it remains
 unclear how the methylation efficiency is regulated. Here, we provide the
 first structural evidence that, in the context of the Box C/D RNP, the
 affinity of the catalytic module fibrillarin for the substrate–guide helix
 is dependent on the RNA sequence outside the methylation site, thus
 providing a mechanism by which both the substrate and guide RNA sequences
 determine the degree of methylation. To reach this result, we develop an
 iterative structure calculation protocol that exploits the power of
 integrative structural biology to characterize conformational ensembles.
  
description: The dataset is linked to the following manuscript:
   The dataset contains models and data
 underlying all figures and analysis in the manuscript.
   The associated SASDB entries are:
 SASDGV2,
 SASDGW2, SASDGX2, SASDGY2, SASDGZ2,
 SASDG23, SASDG33, SASDG43, SASDG53, SASDG63, SASDG73, SASDG83, SASDG93, SASDGA3
description: the Distance_restraints directory includes the binned distance
 restraints used for structure calculation with Aria/CNS2.1
 the Representative_structures directory includes ensemble
 centroid models after Cartesian refinement and selection by consensus
 NMR/SAS.   .in files are AMBER input
 files with parameters of analysis of MD trajectories
 .fit files are fits to experimental scattering curves to be
 opened with the ATSAS suite. <br>
DOI: 10.13012/j8pn93h8
title: New York City Taxi Trip Data (2010-2013)

description: This dataset contains records of four years of taxi operations in New York City and includes 697,622,444 trips. Each trip records the pickup and drop-off dates, times, and coordinates, as well as the metered distance reported by the taximeter. The trip data also includes fields such as the taxi medallion number, fare amount, and tip amount. The dataset was obtained through a Freedom of Information Law request from the New York City Taxi and Limousine Commission.

The files in this dataset are optimized for use with the ‘decompress.py’ script included in this dataset. This file has additional documentation and contact information that may be of help if you run into trouble accessing the content of the zip files.
DOI: 10.5061/dryad.443m08h
title: Data from: Exponential model for analysis of heart rate responses and autonomic cardiac modulation during different intensities of physical exercise

description: The aim of this study was to compare the heart rate (HR) dynamics and
 variability before and after high-intensity interval training (HIIT) and
 moderate-intensity continuous training (MICT) protocols with workloads
 based on treadmill´s workload at which maximal oxygen uptake was achieved
 (WLV ̇O_2max). Twelve participants performed a cadiopulmonary exercise
 testing (CPET) to obtain oxygen uptake (WLV ̇O_2max). All training
 protocols were performed in a treadmill, with 0% grade, and had similar
 total distance. The MICT was composed by 21 minutes at 70% of WLV ̇O_2max
 , the first HIIT protocol (HIIT-30:30) was composed by 29 repetitions of
 30 seconds at 100% of sV ̇O_2max, and the second HIIT protocol (HIIT-4:3)
 was composed by 3 repetitions of 4 minutes at 90% of WLV ̇O_2max . Before,
 during and after each training protocol, HR dynamics and variability (HRV)
 were analyzed by standard kinetics and linear (time and frequency
 domains). The repeated measures analysis of variance indicated that the HR
 dynamics, that characterizes the speed of HR during the rest to exercise
 transition, was statistically (p&lt;0.05) slower during MICT in
 comparison to both HIIT protocols. The HRV analysis, that characterizes
 the cardiac autonomic modulation during the exercise recovery, was
 statistically higher in HIIT-4:3 in comparison to MICT and HIIT-30:30
 protocols (p&lt;0.005 and p=0.012, respectively), suggesting that the
 HIIT-4:3 induced higher sympathetic and lower parasympathetic modulation
 during exercise in comparison to the other training protocols. In
 conclusion, HIIT-4:3 demonstrated post-exercise sympathetic hyperactivity
 and a higher HRpeak, while the HIIT-30: 30 and MICT resulted in better HRV
 and HR in the exercise-recovery transition. The cardiac autonomic balance
 increased in HIIT-30:30 while HIIT-4:3 induced sympathetic hyperactivity
 and cardiac overload.
description: DATAS_MANUSCRIPT_ENGLISH_CORRECTEDVERSION
DOI: 10.5061/dryad.msbcc2ftg
title: Bird communities across varying landcover types in a Neotropical city

description: Urbanization poses a serious threat to local biodiversity, yet towns and
 cities with abundant natural features may harbor important species
 populations and communities.While the contribution of urban greenspaces to
 conservation has been demonstrated by numerous studies within temperate
 regions, few consider the bird communities associated with different
 landcovers in Neotropical cities. To begin to fill this knowledge gap, we
 examined how the avifauna of a wetland city in northern Amazonia
 (Georgetown, Guyana) varied across six urban landcover types (coastal
 bluespace; urban bluespace; managed greenspace; unmanaged greenspace;
 dense urban; sparse urban). We measured detections, species richness and a
 series of ground cover variables that characterized the heterogeneity of
 each landcover, at 114 locations across the city. We recorded &gt;10%
 (98) of Guyana’s bird species in Georgetown, including taxa of
 conservation interest. Avian detections, richness, and community
 composition differed with landcover type. Indicator species analysis
 identified 29 species from across dietary guilds, which could be driving
 community composition. Comparing landcovers, species richness was highest
 in managed greenspaces and lowest in dense urban areas. The canal network
 had comparable levels of species richness to greenspaces. The waterways
 are likely to play a key role in enhancing habitat connectivity as they
 traverse densely urbanized areas. Both species and landcover information
 should be integrated into urban land-use planning in the rapidly
 urbanizing Neotropics to maximize the conservation value of cities. This
 is imperative in the tropics, where anthropogenic pressures on species are
 growing significantly, and action needs to be taken to prevent
 biodiversity collapse.
DOI: 10.60905/i22nsn
title: Acciones Comunitarias del Movimiento Barrial Zona 2

description: &lt;p&gt; Acciones del Movimiento Barrial Zona 2 en articulaci��n con otras organizaciones del territorio e invitaciones a sus integrantes para conversar en medios de otros sectores sociales movilizados en el Paro.&lt;/p&gt;
description: <br>Desescalamiento de la movilizaci��n. 7 de agosto a 28 de diciembre de 2021
DOI: 10.5061/dryad.6m905qfvv
title: Data from: Phylogenetic structure and formation mechanism of shrub communities in arid and semi-arid areas of the Mongolian Plateau

description: The mechanisms of species coexistence within a community have always been
 the focus in ecological research. Community phylogenetic structure
 reflects the relationship of historical processes, regional environments
 and interactions between species,  and studying it is imperative
 to understand the formation and maintenance mechanisms of community
 composition and biodiversity. We studied the phylogenetic structure of the
 shrub communities in arid and semiarid areas of the Mongolian Plateau.
 First, the phylogenetic signals of four plant traits (height, canopy, leaf
 length and leaf width) of shrubs and subshrubs were measured to determine
 the phylogenetic conservation of these traits. Then the net relatedness
 index (NRI) of shrub communities was calculated to characterize their
 phylogenetic structure. Finally, the relationship between the NRI and
 current climate and paleoclimate (since the Last Glacial Maximum, LGM)
 factors was analyzed to understand the formation and maintenance
 mechanisms of these plant communities. We found that desert shrub
 communities showed a trend towards phylogenetic overdispersion, that is,
 limiting similarity was predominant in arid and semi-arid areas of the
 Mongolian Plateau despite the phylogenetic structure and formation
 mechanisms differing across habitats. The typical desert and sandy shrub
 communities showed a significant phylogenetic overdispersion, while the
 steppified desert shrub communities showed a weak phylogenetic clustering.
  It was found that mean winter temperature (i.e. in the driest
 quarter) was the major factor limiting steppified desert shrub phylogeny
 distribution. Both cold and drought (despite having opposite consequences)
 differentiated the typical desert to steppified desert shrub communities.
 The increase in temperature since the LGM is conducive to the invasion of
 shrub plants into steppe grassland, and this process may be intensified by
 global warming.
DOI: 10.5061/dryad.gmsbcc2hp
title: Phenology-dependent cold exposure and thermal performance of Ostrinia nubilalis ecotypes

description: Background: Understanding adaptation involves establishing connections
 between selective agents and beneficial population responses. However,
 relatively little attention has been paid to seasonal adaptation, in part,
 because it requires complex and integrative knowledge about seasonally
 fluctuating environmental factors, the effects of variable phenology on
 exposure to those factors, and evidence for temporal specialization. In
 the European corn borer moth, Ostrinia nubilalis , sympatric pheromone
 strains exploit the same host plant ( Zea mays ) but may genetically
 differ in phenology and be reproductively “isolated by time.” Z strain
 populations in eastern North America have been shown to have a prolonged
 larval diapause and produce one annual mating flight (July), whereas E
 strain populations complete an earlier (June) and a later (August) mating
 flight by shortening diapause duration. Here, we find evidence consistent
 with seasonal “adaptation by time” between these ecotypes. Results: We use
 12 years of field observation of adult seasonal abundance to estimate
 phenology of ecotype life cycles and to quantify life-stage specific
 climatic conditions. We find that the observed reduction of diapause
 duration in the E strain leads their non-diapausing, active life stages to
 experience a ~4˚C colder environment compared to the equivalent life
 stages in the Z strain. For a representative pair of populations under
 controlled laboratory conditions, we compare life-stage specific cold
 tolerance and find non-diapausing, active life stages in the E strain have
 as much as a 60% greater capacity to survive rapid cold shock. Enhanced
 cold hardiness appears unrelated to life-stage specific changes in the
 temperature at which tissues freeze. Conclusions: Our results suggest that
 isolation by time and adaptation by time may both contribute to population
 divergence, and they argue for expanded study in this species of
 allochronic populations in nature experiencing the full spectrum of
 seasonal environments. Cyclical selective pressures are inherent
 properties of seasonal habitats. Diverse fluctuating selective agents
 across each year (temperature, predation, competition, precipitation,
 etc.) may therefore be underappreciated drivers of biological diversity.
DOI: 10.5061/dryad.8kprr4xj1
title: Heterozygosity–fitness correlations reveal inbreeding depression in neonatal body size in a critically endangered rock iguana

description: Inbreeding depression, though challenging to identify in nature, may play
 an important role in regulating the dynamics of small and isolated
 populations. Conversely, greater expression of genetic load can enhance
 opportunities for natural selection. Conditional expression concentrates
 these opportunities for selection and may lead to failure of detection.
 This study investigates the possibility for age-dependent expression of
 inbreeding depression in a critically endangered population of rock
 iguanas, Cyclura nubila caymanensis. We employ heterozygote-fitness
 correlations to examine the contributions of individual genetic factors to
 body size, a fitness-related trait. Nonsignificant reductions in
 homozygosity (up to 7%) were detected between neonates and individuals
 surviving past their first year, which may reflect natural absorption of
 inbreeding effects by this small, fecund population. The majority of
 variation in neonate body size was attributed to maternal or environmental
 effects (i.e., clutch identity and incubation length); however,
 heterozygosity across 22 microsatellite loci also contributed
 significantly and positively to model predictions. Conversely, effects of
 heterozygosity on fitness were not detectable when adults were examined,
 suggesting that inbreeding depression in body size may be age dependent in
 this taxon. Overall, these findings emphasize the importance of taking
 holistic, cross-generational approaches to genetic monitoring of
 endangered populations.
DOI: 10.5061/dryad.nk98sf7pk
title: Data from: The contribution of host cell-directed vs. parasite-directed immunity to the disease and dynamics of malaria infections

description: Hosts defend themselves against pathogens by mounting an immune
 response.  Fully understanding the immune response as a driver of
 host disease and pathogen evolution requires a quantitative account of its
 impact on parasite population dynamics.  Here, we use a
 data-driven modeling approach to quantify the birth and death
 processes underlying the dynamics of infections of the rodent
 malaria parasite, Plasmodium chabaudi, and the red blood cells
 (RBCs) it targets.  We decompose the immune
 response into 3 components, each with a distinct effect on
 parasite and RBC vital rates, and quantify the relative contribution of
 each component to host disease and parasite density.  Our
 analysis suggest that these components are deployed in a
 coordinated fashion to realize distinct resource-directed defense
 strategies that complement the killing of parasitized cells. 
 Early in the infection, the host deploys a strategy reminiscent
 of siege and scorched-earth tactics, in which it both destroys RBCs and
 restricts their supply.  Late in the infection, a
 “juvenilization” strategy, in which turnover of RBCs is accelerated,
 allows the host to recover from anemia while holding parasite
 proliferation at bay.  By quantifying the impact of
 immunity on both parasite fitness and host disease. we reveal that
 phenomena often interpreted as immunopathology may in fact be beneficial
 to the host.  Finally, we show that, across mice, the
 components of the host response are consistently related to each
 other, even when infections take qualitatively different
 trajectories.  This suggests the existence of simple rules
 that govern the immune system’s deployment.
description: Begin by reading the 'code.html' document.
DOI: 10.15468/dl.jquzjm
title: Occurrence Download

description: A dataset containing 26375 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is Provincial Museum of Alberta, Edmonton, AB, Canada. Birds (Aves)"
 ]
}

 The dataset includes 26375 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001978-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.2547d7wmf
title: A comparison of eDNA to camera trapping for assessment of terrestrial mammal diversity

description: Before environmental DNA (eDNA) can establish itself as a robust tool for
 biodiversity monitoring, comparison with existing approaches is necessary,
 yet is lacking for terrestrial mammals. Moreover, much is unknown
 regarding the nature, spread and persistence of DNA shed by animals into
 terrestrial environments, or the optimal experimental design for
 understanding these potential biases. To address some of these challenges,
 we compared the detection of terrestrial mammals using eDNA analysis of
 soil samples against confirmed species observations from a long-term
 (~9-yr) camera trapping study. At the same time, we considered multiple
 experimental parameters, including two sampling designs, two DNA
 extraction kits and two metabarcodes of different sizes. All mammals
 regularly recorded with cameras were detected in eDNA. In addition, eDNA
 reported many unrecorded small mammals whose presence in the study area is
 otherwise documented. A long metabarcode (≈220bp) offering a high
 taxonomic resolution, achieved a similar efficiency as a shorter one
 (≈70bp) and a phosphate buffer-based extraction gave similar results as a
 total DNA extraction method, for a fraction of the price. Our results
 support that eDNA-based monitoring should become a valuable part of
 ecosystem surveys, yet mitochondrial reference databases need to be
 enriched first.
DOI: 10.5061/dryad.dbrv15dws
title: Estimating correlations among demographic parameters in population models

description: Estimating correlations among demographic parameters is critical to
 understanding population dynamics and life-history evolution, where
 correlations among parameters can inform our understanding of life-history
 trade-offs, result in effective applied conservation actions, and
 shed light on evolutionary ecology. The most common approaches
 rely on the multivariate normal distribution, and its conjugate inverse
 Wishart prior distribtion. However, the inverse Wishart prior for the
 covariance matrix of multivariate normal distributions has a strong
 influence on posterior distributions. As an alternative to the inverse
 Wishart distribution, we individually parameterize the covariance matrix
 of a multivariate normal distribution to accurately estimate variances
 (σ2) of, and process correlations (ρ) between, demographic parameters. We
 evaluate this approach using simulated capture-mark-recapture data. We
 then use this method to examine process correlations between adult and
 juvenile survival of black brent marked on the Yukon-Kuskokwim River
 Delta, Alaska (1988-2014). Our parameterization consistently outperformed
 the conjugate inverse Wishart prior for simulated data, where the means of
 posterior distributions estimated using an inverse Wishart prior were
 substantially different from the values used to simulate the data. Brent
 adult and juvenile annual apparent survival rates were strongly positively
 correlated (ρ = 0.563, 95% CRI 0.181 − 0.823), suggesting that habitat
 conditions have significant effects on both adult and juvenile survival.
 We provide robust simulation tools, and our methods can readily be
 expanded for use in other capture-recapture or capture-recovery
 frameworks. Further, our work reveals limits on the utility of these
 approaches when study duration or sample sizes are small.
description: This is an R script that simulates capture-mark-recapture data of
 juveniles and adults of a hypothetical species at a single site or region.
 It then analyses these data using an inverse Wishart prior, as well as
 hyperpriors for the components of the covariance matrix.
 This file also includes brant capture-mark-recapture data
 collected at the Tutakoke River brant colony in western Alaska, and
 analyses those data using the same models used in the simulation
 script.  
description: basic R, JAGS, capture-recapture knowledge
DOI: 10.5061/dryad.wm37pvmh5
title: Evaluating the effects of large marine predators on mobile prey behavior across subtropical reef ecosystems

description: The indirect effect of predators on prey behavior, recruitment, and
 spatial relationships continues to attract considerable
 attention.  However, top predators like sharks or large, mobile
 teleosts, which can have substantial top-down effects in ecosystems, are
 often difficult to study due to their large size and mobility. 
 This has created a knowledge gap in understanding how they affect their
 prey through non-consumptive effects.  Here we investigated how
 different functional groups of predators affected potential prey fish
 populations across various habitats within Biscayne Bay, FL. Using baited
 remote underwater videos (BRUVs), we quantified predator abundance and
 activity as a rough proxy for predation risk, and analyzed key prey
 behaviors across coral reef, sea fan, seagrass, and sandy
 habitats.  Both predator abundance and prey arrival times to the
 bait were strongly influenced by habitat type, with open homogenous
 habitats receiving faster arrival times by prey. Other prey behaviors,
 such as residency and risk-associated behaviors, were potentially driven
 by predator interaction.  Our data suggest that small predators
 across functional groups do not have large controlling effects on prey
 behavior or stress responses over short temporal scales; however, habitats
 where predators are more unpredictable in their occurrence (i.e., open
 areas) may trigger risk-associated behaviors such as avoidance and
 vigilance. Our data shed new light on the importance of habitat and
 context for understanding how marine predators may influence prey
 behaviors in marine ecosystems.
DOI: 10.60905/pcior2
title: Balance Asambleas Populares Valle de Aburr��

description: &lt;p&gt;Documento relator��a de un encuentro realizado en el Sintraitabaco con representantes de las asambleas barriales y comunitarias de Medell��n que se realizaron en el marco del Paro Nacional.&lt;/p&gt;
description: <br> Inicio y ascenso de la Paro Nacional #28A. 28 de abril al 28 de julio de 2021