cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.8gh7p
title: Data from: Preservation of RNA and DNA from mammal samples under field conditions

description: Ecological and conservation genetics require sampling of organisms in the
 wild. Appropriate preservation of the collected samples, usually by
 cryostorage, is key to the quality of the genetic data obtained.
 Nevertheless, cryopreservation in the field to ensure RNA and DNA
 stability is not always possible. We compared several nucleic acid
 preservation solutions appropriate for field sampling and tested them on
 rat (Rattus rattus) blood, ear and tail tip, liver, brain and muscle. We
 compared the efficacy of a nucleic acid preservation (NAP) buffer for DNA
 preservation against 95% ethanol and Longmire buffer, and for RNA
 preservation against RNAlater (Qiagen) and Longmire buffer, under
 simulated field conditions. For DNA, the NAP buffer was slightly better
 than cryopreservation or 95% ethanol, but high molecular weight DNA was
 preserved in all conditions. The NAP buffer preserved RNA as well as
 RNAlater. Liver yielded the best RNA and DNA quantity and quality; thus,
 liver should be the tissue preferentially collected from euthanized
 animals. We also show that DNA persists in nonpreserved muscle tissue for
 at least 1 week at ambient temperature, although degradation is noticeable
 in a matter of hours. When cryopreservation is not possible, the NAP
 buffer is an economical alternative for RNA preservation at ambient
 temperature for at least 2 months and DNA preservation for at least 10
 months.
description: DNA quantity and RNA
 quality and quantity for preservation of rat tissues under field simulated
 conditions and change in DNA concentration for different postmortem
 times.The file has the quality
 (RIN value in Bioanalyzer) and quantity data (NanoDrop) of RNA extractions
 and DNA quantity data (NanoDrop) from different rat tissues preserved for
 a combination of times and conditions. We also include DNA concentration
 from extractions done on muscle rat tissue after a series of time
 intervals 0 hours-2 weeks.RNA_DNA_extractions.xlsx
DOI: 10.5061/dryad.h70j3
title: Data from: Empirical relationships between tree fall and landscape-level amounts of logging and fire

description: Large old trees are critically important keystone structures in forest
 ecosystems globally. Populations of these trees are also in rapid decline
 in many forest ecosystems, making it important to quantify the factors
 that influence their dynamics at different spatial scales. Large old trees
 often occur in forest landscapes also subject to fire and logging.
 However, the effects on the risk of collapse of large old trees of the
 amount of logging and fire in the surrounding landscape are not well
 understood. Using an 18-year study in the Mountain Ash (Eucalyptus
 regnans) forests of the Central Highlands of Victoria, we quantify
 relationships between the probability of collapse of large old
 hollow-bearing trees at a site and the amount of logging and the amount of
 fire in the surrounding landscape. We found the probability of collapse
 increased with an increasing amount of logged forest in the surrounding
 landscape. It also increased with a greater amount of burned area in the
 surrounding landscape, particularly for trees in highly advanced stages of
 decay. The most likely explanation for elevated tree fall with an
 increasing amount of logged or burned areas in the surrounding landscape
 is change in wind movement patterns associated with cutblocks or burned
 areas. Previous studies show that large old hollow-bearing trees are
 already at high risk of collapse in our study area. New analyses presented
 here indicate that additional logging operations in the surrounding
 landscape will further elevate that risk. Current logging prescriptions
 require the protection of large old hollow-bearing trees on cutblocks. We
 suggest that efforts to reduce the probability of collapse of large old
 hollow-bearing trees on unlogged sites will demand careful landscape
 planning to limit the amount of timber harvesting in the surrounding
 landscape.
description: Data indicating tree
 collapse over an 18 year periodData for 737 trees
 showing their form in 1997 and again in 2015, along with landscape level
 covariates. Euclidean Nearest Neighbour Distance, and Interspersion &
 Juxtaposition Index metrics are derived from FragStats.Lindenmayer et al Tree collapse
 data.xlsx
DOI: 10.5061/dryad.dn60n
title: Data from: Pathologic evaluation of type 2 porcine reproductive and respiratory syndrome virus infection at the maternal-fetal interface of late gestation pregnant gilts

description: The pathogenesis of fetal death caused by reproductive porcine
 reproductive and respiratory syndrome virus (PRRSV) remains unclear. The
 objective of this study was to improve our understanding of the
 pathogenesis by assessing potential relationships between specific
 histopathological lesions and PRRSV RNA concentration in the fetuses and
 the maternal-fetal interface. Pregnant gilts were inoculated with PRRSV
 (n=114) or sham inoculated (n=19) at 85±1 days of gestation. Dams and
 their litters were humanely euthanized and necropsied 21 days later. PRRSV
 RNA concentration was measured by qRT-PCR in the maternal-fetal interface
 and fetal thymus (n=1391). Presence of fetal lesions was positively
 related to PRRSV RNA concentration in the maternal-fetal interface and
 fetal thymus (P&lt;0.05 for both), but not to the distribution or
 severity of vasculitis, or the severity of endometrial inflammation. The
 presence of fetal and umbilical lesions was associated with greater odds
 of meconium staining (P&lt;0.05 for both). The distribution and
 severity of vasculitis in endometrium were not significantly related to
 PRRSV RNA concentration in maternal-fetal interface or fetal thymus.
 Endometrial inflammation severity was positively related to distribution
 and severity of vasculitis in endometrium (P&lt;0.001 for both).
 Conclusions from this study suggest that type 2 PRRSV infection in
 pregnant gilts induces significant histopathological lesions at
 maternal-fetal interface, but they are not associated with presence of
 PRRSV in the maternal-fetal interface at 21 days post infection.
 Conversely, fetal pathological lesions are associated with presence of
 PRRSV in the maternal-fetal interface and fetal thymus, and meconium
 staining is significantly associated with the presence of both fetal and
 umbilical lesions observed 21 days post infection.
description: PGM1 PRRS
 histopathological grading dataExcel File contains
 histopathological grading data for distribution, and severity of
 vasculitis, endometrial inflammation score in the uterine tissues
 associated with 679 fetuses, qRT-PCR PRRS virus RNA concentration values
 in the uterine tissues and fetal thymuses, number of fetal and umbilical
 histopathological lesions and fetal preservation status of 679 fetuses.
 Also file contains explanation of histological grading schemes used for
 assessment in this study.PRRS pathology
 paper_PLoSOne.xlsx
DOI: 10.7910/dvn/fhtla7
title: Replication package for: Selective Synchronization: How Issue Urgency Shapes Central–Local Agenda Coupling on WeChat (China, 2013–2024)

description: This dataset contains a clean replication package (code + derived, aggregated data) for the manuscript "Selective Synchronization: How Issue Urgency Shapes Central–Local Agenda Coupling on WeChat (China, 2013–2024)." It reproduces the tables and figures reported in the paper. The underlying raw text corpora (national newspaper databases and local government WeChat posts) were obtained from third-party sources and are not redistributable; this package is designed to reproduce results without access to the restricted raw corpora.
DOI: 10.5061/dryad.cb5h8
title: Data from: The stress hormone corticosterone in a marine top-predator reflects short-term changes in food availability

description: In many seabird studies, single annual proxies of prey abundance have been
 used to explain variability in breeding performance, but much more
 important is probably the timing of prey availability relative to the
 breeding season when energy demand is at a maximum. Until now,
 intraseasonal variation in prey availability has been difficult to
 quantify in seabirds. Using a state-of-the-art ocean drift model of larval
 cod Gadus morhua, an important constituent of the diet of common
 guillemots Uria aalge in the southwestern Barents Sea, we were able to
 show clear, short-term correlations between food availability and
 measurements of the stress hormone corticosterone (CORT) in parental
 guillemots over a 3-year period (2009–2011). The model allowed the
 extraction of abundance and size of cod larvae with very high spatial (4
 km) and temporal resolutions (1 day) and showed that cod larvae from
 adjacent northern spawning grounds in Norway were always available near
 the guillemot breeding colony while those from more distant southerly
 spawning grounds were less frequent, but larger. The latter arrived in
 waves whose magnitude and timing, and thus overlap with the guillemot
 breeding season, varied between years. CORT levels in adult guillemots
 were lower in birds caught after a week with high frequencies of southern
 cod larvae. This pattern was restricted to the two years (2009 and 2010)
 in which southern larvae arrived before the end of the guillemot breeding
 season. Any such pattern was masked in 2011 by already exceptionally high
 numbers of cod larvae in the region throughout chick-rearing period. The
 findings suggest that CORT levels in breeding birds increase when the
 arrival of southern sizable larvae does not match the period of peak
 energy requirements during breeding.
description: Guillemot
 measurementsBiometry, phenology and
 CORT measurements of adult and juvenile common guillemots on
 Hornøyaguillemt.csvCod larvae abundancesAbundances and weights of cod larvae from different spawning grounds around the guillemot colony at Hornøya, by date and yearcod.csv
DOI: 10.5061/dryad.7qs70
title: Data from:Physiological effects of increased foraging effort in a small passerine

description: Foraging to obtain food, either for self-maintenance or at presumably
 elevated rates to provision offspring, is thought to be an energetically
 demanding activity but one that is essential for fitness (higher
 reproductive success and survival). Nevertheless, the physiological
 mechanisms that allow some individuals to support higher foraging
 performance, and the mechanisms underlying costs of high workload, remain
 poorly understood. We experimentally manipulated foraging behaviour in
 zebra finches (Taeniopygia guttata) using the technique described by
 Koetsier and Verhulst (2011). Birds in the “high foraging effort” (HF)
 group had to obtain food either while flying/hovering or by making
 repeated hops or jumps from the ground up to the feeder, behaviour typical
 of the extremely energetically-expensive foraging mode observed in many
 free-living small passerines. HF birds made significantly more trips to
 the feeder per 10min whereas control birds spent more time (perched) at
 the feeder. Despite this marked change in foraging behaviour we documented
 few short- or long-term effects of “training” (3 days and 90 days of
 “training” respectively) and some of these effects were sex-specific.
 There were no effects of treatment on BMR, hematocrit, hemoglobin, or
 plasma glycerol, triglyceride, glucose levels, and masses of kidney, crop,
 large intestine, small intestine, gizzard and liver. HF females had higher
 masses of flight muscle, leg muscle, heart and lung compared to controls.
 In contrast, HF males had lower heart mass than controls and there were no
 differences for other organs. When both sexes were pooled, there were no
 effects of treatment on body composition. Finally, birds in the HF
 treatment had higher levels of reactive oxygen metabolites (dROMs) and,
 consequently, although treatment did not affect total antioxidant capacity
 (OXY), birds in the HF treatment had higher oxidative stress.
description: BMR, Hct, Hb,
 GlucoseRepeated measures of
 BMR, Hct, Hb, glucose across 3 timepointsrepeated measures- bmr, hct,
 hb, glucose.xlsxGlycerol, Triglyceride
 and Oxidative stressMeasurements of
 Glycerol, Triglyceride and Oxidative stressglycerol, triglyceride and
 oxidative stress.xlsxBody
 compositionbody
 composition.xlsx
DOI: 10.5061/dryad.0838c
title: Data from: Weber's law, the magnitude effect and discrimination of sugar concentrations in nectar-feeding animals

description: Weber’s law quantifies the perception of difference between stimuli. For
 instance, it can explain why we are less likely to detect the removal of
 three nuts from a bowl if the bowl is full than if it is nearly empty.
 This is an example of the magnitude effect – the phenomenon that the
 subjective perception of a linear difference between a pair of stimuli
 progressively diminishes when the average magnitude of the stimuli
 increases. Although discrimination performances of both human and animal
 subjects in various sensory modalities exhibit the magnitude effect,
 results sometimes systematically deviate from the quantitative predictions
 based on Weber’s law. An attempt to reformulate the law to better fit data
 from acoustic discrimination tasks has been dubbed the “near-miss to
 Weber’s law”. Here, we tested the gustatory discrimination performance of
 nectar-feeding bats (Glossophaga soricina), in order to investigate
 whether the original version of Weber’s law accurately predicts choice
 behavior in a two-alternative forced choice task. As expected, bats either
 preferred the sweeter of the two options or showed no preference. In 4 out
 of 6 bats the near-miss to Weber’s law provided a better fit and Weber’s
 law underestimated the magnitude effect. In order to test the generality
 of this observation in nectar-feeders, we reviewed previously published
 data on bats, hummingbirds, honeybees, and bumblebees. In all groups of
 animals the near-miss to Weber’s law provided better fits than Weber’s
 law. Furthermore, whereas the magnitude effect was stronger than predicted
 by Weber’s law in vertebrates, it was weaker than predicted in insects.
 Thus nectar-feeding vertebrates and insects seem to differ in how their
 choice behavior changes as sugar concentration is increased. We discuss
 the ecological and evolutionary implications of the observed patterns of
 sugar concentration discrimination.
description: Magnitude Effect
 dataPreference data from
 different nectar-feeding animals in choice situations between two
 different sugar concentrations. Excel Workbook with six Spreadsheets.
 Sources are cited within the file. For further information, consult the
 spreadsheet "General Information".
DOI: 10.5061/dryad.7hk6523
title: Data from: Range-wide populations of a long-distance migratory songbird converge during stopover in the tropics

description: Geographic convergence during migration influences the extent to which
 animal populations may experience carry-over effects across periods of the
 annual cycle. When most individuals of a population share geographic areas
 during a given period, carry-over effects are likely stronger than when
 individuals occupy multiple areas. We used genetic data and stable isotope
 (δ2H) measurements from feathers and claws to describe the likely breeding
 and wintering geographic origins of a long-distance migratory songbird
 (Gray-cheeked Thrush, Catharus minimus) moving through northern Colombia
 in spring and fall migration. Furthermore, we used these data coupled with
 regional occupancy surveys to assess whether individuals from various
 breeding populations converge during migration, and evaluated whether
 geographic origin, age, or sex affected stopover strategies. We found that
 range-wide breeding populations of Gray-cheeked Thrush converged in
 northern Colombia in an area spanning less than 1% of the breeding range,
 especially during a prolonged spring stopover in the Sierra Nevada de
 Santa Marta. Breeding (but not winter) origin, sex, and age, influenced
 arrival date and body condition upon arrival at stopover sites where
 populations converged. Birds from more northerly breeding latitudes, males
 and adults generally arrived earlier and in lower body condition than
 those with more southerly breeding origins, females and juveniles. Our
 work and other studies suggest that areas in northern Colombia may
 function as ecological bottlenecks for Gray-cheeked Thrush because they
 concentrate individuals from across the breeding range, provide critical
 resources, and impose constraints during migration. Future studies
 quantifying the effects of high-convergence areas on fitness and survival
 of individuals and their demographic consequences are required to assess
 their roles as ecological bottlenecks.
description: Stable Isotope data for
 Feathers and Claws collected from Gray cheeked Thrush during migration in
 Northern ColombiaFile contains individual
 delta 2H (deuterium) values of feathers (Primary 1) and claws (tip of both
 hallux claws) collected from Gray-cheeked Thrush during migration in
 northern Colombia. Additional data include the Band number with which each
 individual was tagged, age (HY/SY or AHY/ASY), sex (male of female), fat
 (ordinal scale from 0 to 8), muscle score (ordinal scale from 0 to 3),
 wing chord (in millimeters mm), and weight (in grams g). The Claw data
 also contain a column for corrected Deuterium values due to the 2015 El
 Niño event.Gomez et al
 2018_GrayCHeekedThrush_Deuterium_Feathers_Claws.xlsx
DOI: 10.5061/dryad.g3h22
title: Data from: Plant essential oils synergize and antagonize toxicity of different conventional insecticides against Myzus persicae (Hemiptera: Aphididae)

description: Plant-derived products can play an important role in pest management
 programs. Essential oils from Lavandula angustifolia (lavender) and Thymus
 vulgaris (thyme) and their main constituents, linalool and thymol,
 respectively, were evaluated for insecticidal activity and synergistic
 action in combination with insecticides against green peach aphid, Myzus
 persicae (Sulzer) (Hemiptera: Aphididae). The essential oils and their
 main constituents exerted similar insecticidal activity when aphids were
 exposed by direct sprays, but were non-toxic by exposure to treated leaf
 discs. In synergism experiments, the toxicity of imidacloprid was
 synergized 16- to 20-fold by L. angustifolia and T. vulgaris essential
 oils, but far less synergism occurred with linalool and thymol, indicating
 that secondary constituents of the oils were probably responsible for the
 observed synergism. In contrast to results with imidacloprid, the
 insecticidal activity of spirotetramat was antagonized by L. angustifolia
 and T. vulgaris essential oils, and linalool and thymol. Our results
 demonstrate the potential of plant essential oils as synergists of
 insecticides, but show that antagonistic action against certain
 insecticides may occur.
description: EO raw
 dataRaw_Data
 PlosOne.xlsx
DOI: 10.15468/dl.zyc5e8
title: Occurrence Download

description: A dataset containing 4405 species occurrences available in GBIF matching the query:
{
 "and" : [
 "TaxonKey is Alangium chinense",
 "HasCoordinate is true",
 "BasisOfRecord is one of (Specimen)"
 ]
}

 The dataset includes 4405 records from 55 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0001038-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.m4q9f
title: Data from: Population genetic structure between Yap and Palau for the coral Acropora hyacinthus

description: Information on connectivity is becoming increasingly in demand as marine
 protected areas are being designed as an integral part of a network to
 protect marine resources at the ecosystem level. Larval dispersal and
 population structure, however, remain very difficult to assess. Here, we
 tested the predictions of a detailed oceanographic connectivity model of
 larval dispersal and coral recruitment within Palau and between Palau and
 Yap, which was developed to support the review of the existing network of
 marine protected areas in Palau. We used high throughput microsatellite
 genotyping of the coral Acropora hyacinthus to characterize population
 genetic structure. Pairwise F′ST values between Palau and Yap (0.10),
 Palau and Ngulu (0.09) and Yap and Ngulu (0.09) were all significant and
 similar to pairwise F′ST values of sites within Palau (0.02–0.12) and
 within Yap (0.02–0.09) highlighting structure at island scale and
 indicating that recruitment may be even more localized than previously
 anticipated. A bottleneck test did not reveal any signs of a founder
 effect between Yap and Palau. Overall, the data supports the idea that
 recovery of A. hyacinthus in Palau did not come exclusively from a single
 source but most likely came from a combination of areas, including sites
 within Palau. In light of these results there seems to be very little
 connectivity around the barrier reef and management recommendation would
 be to increase the number or the size of MPAs within Palau.
description: PalauYapNgulu_000_exclTwiceGenodive file (can be used as text format) of the genotypes of the colonies of Acropora hyacinthus for Yap, Palau and Ngulu, coded with by the length of the STR (single tandem repeats).YapPalauNgulu_ID000_excltwiceGenodive file (can be read in a text editor) of the genotypes of the colonies of Acropora hyacinthus for Palau, Yap and Ngulu, identified by their sequences (unique ID).Ahyacinthus-filtersFilters developed in PYTHON applied to raw sequences of microsatellites that have been trimmed, cleaned, paired and demultiplexed.
DOI: 10.5061/dryad.g4n11
title: Fruit/seed traits and phenology of trees in Ranomafana National Park, Madagascar

description: This dataset contains information on fruit/seed traits of plants in
 Ranomafana National Park, Madagascar as well as a summary of their
 fruiting phenology for the period of July 2012 - June 2014.
description: Data on fruit and seed
 traits and fruiting phenology
DOI: 10.5061/dryad.nv5r5
title: Data from: Female-biased dispersal in a bat with a female-defence mating strategy

description: The ultimate causes for predominant male-biased dispersal (MBD) in mammals
 and female-biased dispersal (FBD) in birds are still subject to much
 debate. Studying exceptions to general patterns of dispersal, for example,
 FBD in mammals, provides a valuable opportunity to test the validity of
 proposed evolutionary pressures. We used long-term behavioural and genetic
 data on individually banded Proboscis bats (Rhynchonycteris naso) to show
 that this species is one of the rare mammalian exceptions with FBD. Our
 results suggest that all females disperse from their natal colonies prior
 to first reproduction and that a substantial proportion of males are
 philopatric and reproduce in their natal colonies, although male
 immigration has also been detected. The age of females at first conception
 falls below the tenure of males, suggesting that females disperse to avoid
 father–daughter inbreeding. Male philopatry in this species is intriguing
 because Proboscis bats do not share the usual mammalian correlates (i.e.
 resource-defence polygyny and/or kin cooperation) of male philopatry. They
 have a mating strategy based on female defence, where local mate
 competition between male kin is supposedly severe and should prevent the
 evolution of male philopatry. However, in contrast to immigrant males,
 philopatric males may profit from acquaintance with the natal foraging
 grounds and may be able to attain dominance easier and/or earlier in life.
 Our results on Proboscis bats lent additional support to the importance of
 inbreeding avoidance in shaping sex-biased dispersal patterns and suggest
 that resource defence by males or kin cooperation cannot fully explain the
 evolution of male philopatry in mammals.
description: Nagy et
 al_R.naso_Microsatellite dataMicrosatellite data and
 details of typed individuals (ID, capture date, capture locality, sex, age
 at capture)