cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5066/f71c1tzk
title: Underwater temperature on off-shore coral reefs of the Florida Keys, U.S.A.

description: The U.S. Geological Survey (USGS) Coral Reef Ecosystems Studies project provides science that helps resource managers tasked with the stewardship of coral reef resources. Coral reef organisms are very sensitive to high and low water-temperature extremes. Therefore, it is critical to precisely know water temperatures experienced by corals and associated plants and animals that live in the dynamic, nearshore environment, to document thresholds in temperature tolerance. This data release provides underwater temperature data recorded every fifteen minutes since 2009 at ten off-shore coral reefs in the Florida Keys. From southwest to northeast, these sites are in Dry Tortugas National Park: Garden Key, Pulaski Shoal West, Pulaski Shoal Light; in the Florida Keys National Marine Sanctuary: Sombrero Reef, Crocker Reef, Molasses Reef; and in Biscayne National Park: Ball Buoy North, Shadow Reef, Brewster Reef, and Fowey Rocks. Measurements were made at Sombrero Reef from July 2009 to August 2022, at Crocker Reef from June 2013 to August 2022, and at Molasses Reef from April 2009 to April 2013. Data collection continues at three sites in the Dry Tortugas National Park (Pulaski West, initiated December 2016, Garden Key, initiated May 2022, and Pulaski Light, initiated June 2009) and four sites in Biscayne National Park (Fowey Rocks, initiated August 2009; and Ball Buoy North, Shadow Reef, and Brewster Reef initiated in May 2023). Temperatures were recorded with Onset® HOBO® Water Temp Pro V2 (U22-001) data loggers in duplicate at each site. Loggers were attached to concrete blocks fixed to the reef with stainless-steel rods and epoxy at depths of 7 to 16 feet of seawater. Portions of the dataset included here were interpreted in conjunction with coral and/or algal calcification rates in publications including Kuffner and others (2020), and Lenz and others (2021). See the cross-reference section of the metadata for a complete list of publications.

Kuffner, I.B., Stathakopoulos, A., Toth, L.T., and Bartlett, L.A., 2020, Reestablishing a stepping-stone population of the threatened elkhorn coral Acropora palmata to aid regional recovery: Endangered Species Research, v. 43, p. 461-473, https://doi.org/10.3354/esr01083. 

Lenz, E.A., Bartlett, L.A., Stathakopoulos, A., and Kuffner, I.B., 2021, Physiological differences in bleaching response of the coral Porites astreoides along the Florida Keys reef tract during high-temperature stress: Frontiers in Marine Science, v. 8, art. 615795, https://doi.org/10.3389/fmars.2021.615795. 

Note: This data release was versioned on November 01, 2024. Please see the Suggested Citation section for details.
DOI: 10.5061/dryad.n2z34tn1v
title: Phylogenomics resolves major relationships of Catocala underwing moths

description: Underwing moths in the genus Catocala Shrank are among the most
 charismatic Lepidoptera. Catocala is also one of the most diverse genera
 in the speciose family Erebidae, but a phylogenetic framework for the
 genus is lacking. We reconstruct the first comprehensive molecular
 phylogeny for Catocala based on 685 anchored hybrid enrichment loci
 sampled from 173 species. Phylogenetic analysis unambiguously recovers
 Catocala and Catocala + Ulotrichopus as monophyletic with strong support
 and resolves many backbone relationships within Catocala. Our results
 confirm the classification of previously proposed taxonomic subgroups of
 Catocala, including seven based on recent molecular/morphological
 evidence, and ten based on early twentieth-century morphological research.
 Mapping of larval host plant use onto the tree shows Fabaceae to be the
 likely ancestral host plant family for Catocala (96.3% probability) and
 Catocala + Ulotrichopus (83.9% probability). There were at least 18
 independent larval host plant shifts to nine plant families, the most
 common shift being from Fabaceae to Fagaceae. Larval host plant use
 appears to have played a critical role in the evolutionary history of
 Catocala, with several rapid diversification events propelled by shifts to
 novel larval host plants, particularly in the North American Catocala
 fauna.
description: Dataset contains individual FASTA alignments for probe regions of
 loci used in analyses, and the concatenated FASTA supermatrix used for
 maximum likelihood analysis
DOI: 10.5061/dryad.rjdfn2zhc
title: Short-term fitness consequences of parasitism depend on host genotype and within-host parasite community

description: Multi-parasite communities inhabiting individual hosts are common and
 often consist of parasites from multiple taxa. The effects of parasite
 community composition and complexity on host fitness are critical for
 understanding how host-parasite coevolution is affected by parasite
 diversity. To test how naturally-occurring parasites affect host fitness
 of multiple host genotypes, we performed a common-garden experiment where
 we inoculated four genotypes of host plant Plantago lanceolata with six
 microbial parasite treatments: three single parasite treatments, a fungal
 mixture, a viral mixture, and a cross-kingdom treatment. Seed production
 was affected by both host genotype and parasite treatment, and their
 interaction jointly determined growth of the hosts. Fungal parasites had
 more consistent negative effects than viruses in both single mixed
 parasite treatments. These results demonstrate that parasite communities
 have the potential to affect the evolution and ecology of host populations
 through their effects on host growth and reproduction. Moreover, the
 results highlight the importance of accounting for the diversity of
 parasites as well as host genotypes when aiming to predict the
 consequences of parasites for epidemics as the effects of multi-parasitism
 are not necessarily additive of single parasite effects, nor uniform
 across all host genotypes.
description: Please see the associated publication for the data collection
 methods.
DOI: 10.5061/dryad.dv41ns23j
title: Data to support: Moving beyond heritability in the search for coral adaptive potential

description: Global environmental change is happening at unprecedented rates. Coral
 reefs are among the ecosystems most threatened by global change. For wild
 populations to persist, they must adapt. Knowledge shortfalls about
 corals’ complex ecological and evolutionary dynamics, however, stymie
 predictions about potential adaptation to future conditions. Here, we
 review adaptation through the lens of quantitative genetics. We argue that
 coral adaptation studies can benefit greatly from “wild” quantitative
 genetic methods, where traits are studied in wild populations undergoing
 natural selection, genomic relationship matrices can replace breeding
 experiments, and analyses can be extended to examine genetic constraints
 among traits. Individuals with advantageous genotypes for anticipated
 future conditions can be identified. Finally, genomic genotyping supports
 simultaneous consideration of how genetic diversity is arrayed across
 geographic and environmental distances, providing greater context for
 predictions of phenotypic evolution at a metapopulation scale.
description: Data is processed by simulation modelling.
description: Files can be accessed using SLiM and R.
DOI: 10.5061/dryad.931zcrjqz
title: Season-dependent impact of forage quality on stress in Alpine chamois

description: Chronically heightened stress levels in wildlife species may have
 detrimental effects on individual life history traits, for example through
 the increased likelihood of disease, parasitic infections, and overall
 reduced fitness. Understanding the drivers of stress may thus have great
 potential for informing wildlife conservation. Although the role of
 climate and individual status is well studied in stress ecology, the
 impact of related stressors such as dietary quality is of increasing
 interest to wildlife research and conservation. In this study, fecal
 cortisol metabolites (FCMs) in Alpine chamois Rupicapra r. rupicapra, used
 as bioindicators of stress, and their relationship with forage quality –
 measured as the percentage of fecal crude protein (CP) – were
 investigated. Data collection took place in 2011 and 2012 in the Gran
 Paradiso National Park (Western Italian Alps), on 22 individually marked
 adult males. The relationship between FCMs and CPs was analyzed through
 linear models and seperated between winter and summer months, accounting
 for the effect of potentially confounding exogenous and endogenous
 variables. After AICc-based model selection, we found that forage quality
 was negatively related to FCM levels in Alpine chamois during the summer
 months, meaning that higher quality forage was associated with the
 decreased expression of stress hormones. However, during the winter
 months, we did not find a significant relationship, potentially as a
 result of forage quality being ubiquitously poor. Although the mechanisms
 through which dietary variations impact FCM concentrations in wildlife
 populations are largely unknown, the occurrence of significant
 relationships between forage quality and stress levels supports
 potentially important implications for the long-term effect of climatic
 changes on the fitness of wildlife populations.
DOI: 10.5061/dryad.zs7h44jf6
title: Electroretinogram data and thermographic data from walking and sitting bumblebees

description: The behavioral state of animals has profound effects on neuronal
 information processing. Locomotion changes the response properties of
 visual interneurons in the insect brain, but it is still unknown if it
 also alters the response properties of photoreceptors. Photoreceptor
 responses become faster at higher temperatures. It has therefore been
 suggested that thermoregulation in insects could improve temporal
 resolution in vision, but direct evidence for this idea has so far been
 missing. Here, we compared electroretinograms from the compound eyes of
 tethered bumblebees that were either sitting or walking on an air
 supported ball. We found that the visual processing speed strongly
 increased when the bumblebees were walking. By monitoring the eye
 temperature during recording, we saw that the increase in response speed
 was in synchrony with a rise in eye temperature. By artificially heating
 the head, we show that the walking-induced temperature increase of the
 visual system is sufficient to explain the rise in processing speed. We
 also show that walking accelerates the visual system to the equivalent of
 a 14-fold increase in light intensity. We conclude that the
 walking-induced rise in temperature accelerates the processing of visual
 information – an ideal strategy to process the increased information flow
 during locomotion.
description: Electrophysiological data was collected by recording
 electroretinograms from the eyes of bumblebees. Raw data traces are
 provided. Temperature data were recorded using a
 thermographic camera. Raw data are provided.
description: Electrophysiological data was recorded using spike2 v9. It can be
 opened using spike2. Cambridge electronic design provides libraries for
 Python and Matlab to read spike 2 files: https://ced.co.uk/downloads/latestsoftware
DOI: 10.5061/dryad.s7h44j1bv
title: Data from: Developmental stress does not induce genome-wide DNA methylation changes in wild great tit (Parus major) nestlings

description: The environment experienced during early life is a crucial factor in the
 life of many organisms. This early life environment has been shown to have
 profound effects on morphology, physiology and fitness. However, the
 molecular mechanisms that mediate these effects are largely unknown, even
 though this is essential for our understanding of the processes that
 induce phenotypic variation in natural populations. DNA methylation is an
 epigenetic mechanism that has been suggested to explain such
 environmentally induced phenotypic changes early in life. To investigate
 whether DNA methylation changes are associated with experimentally induced
 early developmental effects, we cross-fostered great tit (Parus major)
 nestlings and manipulated their brood sizes in a natural study population.
 We assessed experimental brood size effects on pre-fledging biometry and
 behaviour. We linked this to genome-wide DNA methylation levels of CpG
 sites in erythrocyte DNA, using 122 individuals and an improved epiGBS2
 laboratory protocol. Brood enlargement caused developmental stress and
 negatively affected nestling condition, predominantly during the second
 half of the breeding season, when conditions are harsher. Brood
 enlargement, however, affected nestling DNA methylation in only one CpG
 site and only if hatch date was taken into account. In conclusion, this
 study shows that nutritional stress in enlarged broods does not associate
 with direct effects on genome-wide DNA methylation. Future studies should
 assess whether genome-wide DNA methylation variation may arise later in
 life as a consequence of phenotypic changes during early development.
DOI: 10.5061/dryad.wh70rxwsk
title: Developmental and functional controls on enrolment in an ancient, extinct arthropod

description: Three-dimensional models reveal how the mechanics of exoskeletal enrolment
 changed during the development of a model organism for insights into
 ancient arthropod development, the 429-million-year old trilobite
 Aulacopleura koninckii. Changes in the number, size and allocation of
 segments within the trunk, coupled with the need to maintain effective
 exoskeletal shielding of soft tissue during enrolment, necessitated a
 transition in enrolment style about the onset of mature growth. During an
 earlier growth phase, enrolment was sphaeroidal, with the venter of the
 trunk fitting exactly against that of the head. In later growth, if
 lateral exoskeletal encapsulation was to be maintained trunk length
 proportions did not permit such exact fitting, requiring an alternative,
 non-sphaeoridal enrolment style. Our study favours adoption of a posture
 in later growth in which the posterior trunk extended beyond the front of
 the head. This change in enrolment accommodated a pattern of notable
 variation in the number of mature trunk segments, well known to
 characterize the development of this species. It suggests how an animal
 whose early segmental development was remarkably precisely controlled was
 able to realize marked variation in mature segment number that was
 related, apparently, to life in a physically challenging, reduced oxygen
 setting.
description: Blender files use the 3-D graphics and animation
 software Blender (https://www.blender.org/). Add-on animations nodes
 (https://animation-nodes.com) can be used to visualize the results and
 assess different parameters. See README for more
 details.
DOI: 10.5061/dryad.k98sf7mbp
title: Burden of cardiometabolic risk factors and preclinical target organ damage among adults in Freetown, Sierra Leone: a community-based health-screening survey

description: The study aimed to investigate the prevalence of cardiometabolic risk
 factors (CMRFs), target organ damage and its associated factors among
 adults in Freetown, Sierra Leone. Design This community-based
 cross-sectional study used a stratified multistage random sampling method
 to recruit adult participants.  Setting The health screening
 study was conducted between October 2019 and October 2021 in Western Area
 Urban, Freetown, Sierra Leone.  Participants A total of 2394
 adults Sierra Leoneans aged 20 years, or more were enrolled. Outcome
 measure Anthropometric data, fasting lipid profiles, fasting plasma
 glucose, target organ damage, clinical profiles and demographic
 characteristic of participants were described. The cardiometabolic risks
 were further related to target organ damage. Results The prevalence of
 known CMRFs was 35.3% for hypertension, 8.3% for diabetes mellitus, 21.1%
 for dyslipidemia, 10.0% for obesity, 13.4% for smoking and 37.9% for
 alcohol. Additionally, 16.1% had left ventricular hypertrophy (LVH) by
 ECG, 14.2% had LVH by 2D-Echo while 11.4% had chronic kidney disease.
 Diabetes [OR = 1.176, 95% C.I. (0.759 - 1.823)] and dyslipidaemia [OR =
 1.844, 95% C.I. (1.006 -3.380)] were independently associated with LVH.
 LVH by Echo shows an independent association with diabetes mellitus [OR
 =1.176, 95% C.I (0.759-1.823)] and dyslipidemia [OR = 1.844, 95% C.I
 (1.006-3.380)]. The odds of having CKD were associated with diabetes
 mellitus [OR =1.212, 95% CI (0.741-1.983)] and hypertension [OR =1.163,
 95% CI (0.887-1.525)]. A low optimal cut-off points for ECG-LVH (male 24.5
 vs female 27.5mm) was required to maximize sensitivity and
 specificity.  Conclusions This study provides novel data-driven
 information on the burden of cardiometabolic risks and its association
 with preclinical target organ damage in a resource limited setting. It
 illustrates the need for interventions in improve cardiometabolic health
 screening and management among adults in Sierra Leoneans. 
description: <strong>Procedure and
 data collection</strong> All eligible potential participants in each
 selected community were invited to participate in the ‘awareness and
 screening campaign for non-communicable disease’ on a designated date at
 the National Victoria Park. The WHO stepwise approach questionnaire guided
 the process of data collection for this study. Medical students, doctors
 and nurses were trained on the campaign's conduct, including data
 collection.
description: Data analysis was done using IBM
 SPSS Statistical 2.6 and STATA 17 software
DOI: 10.5061/dryad.12jm63z2w
title: Scores on independence, quality of life, and satisfaction on visual mapping software intervention in children with Down syndrome

description: Enhancing independence and quality of life are key modifiable outcomes
 that are short- and long-term goals for children with Down syndrome and
 for their parents. Here we report the outcome of a 4-week feasibility
 study in a cohort of 26 children with Down Syndrome, 7–17 years old, who
 used an assistive technology approach that incorporated smart device
 software and step-by-step pictures (the MapHabit System). Parents reported
 improvements in children’s activities of daily living, quality of life,
 and independence. They recommended this technology to other families. This
 report and its findings underscore the feasibility of using assistive
 technology in children with Down syndrome within home and family settings.
 The current findings that assistive technology can be used successfully
 and effectively in family and home settings set the stage for more
 informative systematic studies using assistive technology for this
 population.
description: Data was collected through self-report instruments in electronic
 form. ABAS-3 data was collected through the WPS Online Evaluation System.
 Both Quality of Life and Satisfaction instrument data were collected
 through the REDCap platform.
DOI: 10.15468/dl.pa94q3
title: Occurrence Download

description: A dataset containing 579961 species occurrences available in GBIF matching the query:
{
 "and" : [
 "DatasetKey is Macro-moth distribution records for the UK from Butterfly Conservation, up to 2019",
 "TaxonKey is Sphingidae",
 "HasCoordinate is true",
 "OccurrenceStatus is Present",
 "HasGeospatialIssue is false",
 "Year is greater than or equal to 1950"
 ]
}

 The dataset includes 579961 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0003384-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.crjdfn38v
title: Dataset for: Female reproductive fluids attracts more and better sperm in zebrafish

description: Mounting evidence shows that the female reproductive fluid (FRF) can
 differently affect sperm performance of different males by biasing
 paternity share among competing males. Here, we tested for the first time
 the potential of ‘within-ejaculate cryptic female choice’ mediated by the
 FRF in the zebrafish (Danio rerio). Using a recently developed sperm
 selection chamber, we separated and collected FRF-selected from
 non-selected sperm to compare the two subpopulations of sperm in terms of
 sperm number, viability, DNA integrity and fertilizing ability. We showed
 that the sperm attracted by FRF are more numerous, more viable and with
 higher DNA integrity. In addition, FRF-selected sperm fertilized more
 eggs, but if this is due to fertilization ability per se or numerical
 advantage is unknown. Our results suggest that the FRF can select sperm
 with a better phenotype, highlighting the crucial and impactful role that
 the FRF has in the process of fertilization and post-mating sexual
 selection dynamics and the potential implications for sperm selection in
 assisted reproductive techniques.
description: Missing data code in data: NA
DOI: 10.5061/dryad.ngf1vhj02
title: Data from: Contrasting demographic responses to size-selective harvesting among neighboring wild fish populations

description: Sustainable harvesting of wild populations relies on
 evidence-based knowledge to predict harvesting outcomes for species and
 the ecosystems they inhabit. Although harvesting may elicit compensatory
 density-dependence, it is generally size-selective, which induces
 additional pressures that are challenging to forecast. Furthermore,
 responses to harvest may be population-specific and whether generalizable
 patterns exist remains unclear. Taking advantage of Parks Canada’s mandate
 to remove introduced brook trout (Salvelinus fontinalis) to
 restore alpine lakes in Canadian parks, we experimentally applied
 standardized size-selective harvesting rates (the largest ~64% annually)
 for three consecutive summers in five populations with different initial
 size structures. Four unharvested populations were used as controls. At
 reduced densities, harvested and control populations exhibited
 similar density-dependent increases in specific growth, juvenile survival,
 and earlier maturation. However, size-selective harvesting simultaneously
 induced changes to size and age structure that contrasted among harvested
 populations. Average body length decreased in three of five harvested
 populations, whereas it tended to increase in control populations over the
 three years. We also detected contrasting, population-specific changes in
 body length variability and ultimately in length- and age-at-harvest in
 harvested populations but not controls. Overall, populations with smaller,
 more homogeneous body sizes, and living at high densities were most
 resilient to size-selective harvesting, exhibiting the smallest change in
 size-at-age. In contrast, large-bodied populations exhibited more
 substantial size-structure changes following selective harvesting:
 large-bodied populations experienced either stabilizing or disruptive
 pressures, when initial length variability was high or low, respectively.
 Synthesis and application: Our results show that within species,
 size-selective harvesting inherently leads to more risk and uncertainty
 when harvesting populations with larger and more varied body sizes than
 smaller-bodied populations with less range in body size. Our study
 supports prioritizing regulations that protect harvested populations with
 larger and more varied body sizes. Such a management strategy would reduce
 the likelihood of eliciting unpredictable or undesirable demographic
 changes to fish populations with these attributes.