cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.v5h24
title: Data from: Patterns of tree mortality in a temperate deciduous forest derived from a large forest dynamics plot

description: Tree mortality is one of the most influential drivers of forest dynamics,
 and characterizing patterns of tree mortality is critical to understanding
 forest dynamics and ecosystem function in the present era of global
 change. Here, we use a unique data set of mortality in a temperate
 deciduous forest to characterize rates and drivers of mortality. At the
 25.6-ha Center for Tropical Forest Science—Forest Global Earth Observatory
 forest dynamics plot at the Smithsonian Conservation Biology Institute
 (Virginia, USA), we conducted two full tree censuses in 2008 and 2013 and
 then tracked mortality over the next 2 years (2014 and 2015). Overall, the
 mortality rate, m, of stems ≥10 cm diameter was 1.3–2.1%/yr. Biomass
 mortality, M, was 1.9–3.4 Mg·ha−1·yr−1 at the stand level (0.6–1.1%/yr of
 biomass), less than biomass gains from growth and recruitment, resulting
 in net live biomass accumulation. Small stems died at the highest rate;
 however, contributions to M increased toward larger size classes. Most
 species had m &lt; 2%/yr and M &lt; 0.25 Mg·ha−1·yr−1
 (&lt;3%/yr of biomass), whereas two to four species had anomalously
 high mortality rates during each census period, accounting for 15–24% of m
 (n = 2, Cercis canadensis, Ulmus species) and 39–75% of M (n = 4 Quercus
 species). Stems that died, whether or not in association with mechanical
 damage, tended to grow more slowly in preceding years than surviving stems
 and, for certain shade-intolerant species, tended to be in neighborhoods
 with higher basal area. These findings show how relatively fine-scale
 mortality processes contribute to stand-level compositional change and
 carbon cycling. The mortality patterns reported here will provide a
 valuable basis for understanding future disturbance events within eastern
 deciduous forests and for comparing across forest types.
description: SCBI_tree_mortality_2014SCBI_tree_mortality_2015
DOI: 10.5061/dryad.5880j
title: Data from: Intra-population genomics in a model mutualist: population structure and candidate symbiosis genes under selection in Medicago truncatula

description: Bottom-up evolutionary approaches, including geographically-explicit
 population genomic analyses, have the power to reveal the mechanistic
 basis of adaptation. Here we conduct a population genomic analysis in the
 model legume, Medicago truncatula, in order to characterize population
 genetic structure and identify symbiosis-related genes showing evidence of
 spatially-variable selection. Using RAD-seq, we generated over 26,000 SNPs
 from 191 accessions from within three regions of the native range in
 Europe. Results from STRUCTURE analysis identify 5 distinct genetic
 clusters with divisions that separate east and west regions in the
 Mediterranean basin. Much of the genetic variation is maintained within
 sampling sites, and there is evidence for isolation by distance. Extensive
 linkage disequilibrium was identified, particularly within populations. We
 conducted genetic outlier analysis with FST-based genome scans and a
 bayesian modeling approach (PCAdapt). There were 70 core outlier loci
 shared between these distinct methods with one clear candidate symbiosis
 related gene, DMI1. This work sets that stage for functional experiments
 to determine the important phenotypes that selection has acted upon and
 complementary efforts in rhizobium populations.
description: Medicago SNP
 genotypesThis file contains
 ~26000 SNPs for 190 Medicago truncatula accessions. There are two lines
 for each accession representing both strands of DNA, allowing for the
 identification of heterozygotes. Accessions are labeled by number within
 collection site. GPS coordinates and information on the collection sources
 are indicated in online Supplemental Table 1.DRAYD
 .txtMedicago SNP
 positionThis file contains the
 chromosomal location and physical position of the Medicago truncatula
 SNPs.DRYAD
 SNP position.xlsx
DOI: 10.5061/dryad.508g5
title: Data from: A new platychelyid turtle (Pan-Pleurodira) from the Late Jurassic (Kimmeridgian) of Oaxaca, México

description: Until recently, the record of Mesozoic turtles in Mexico has been
 restricted to the Cretaceous. New discoveries in the Sabinal Formation
 (Tlaxiaco, Oaxaca) have extended the record into the Kimmeridgian (Late
 Jurassic). The Sabinal Formation is part of the Tlaxiaco Basin, which was
 a depocenter of continental and marine sediments dominated by
 transgressive-regressive marine conditions during the Jurassic–Cretaceous.
 The new turtle described here consists of an almost complete carapace
 associated with a plastron. Based on the unique combination of characters,
 this turtle is identified as a new species of Platychelyidae here named
 Notoemys tlaxiacoensis. Platychelyid characters in this specimen include
 the presence of the sulcus between vertebral 3 and 4 located on neural 6,
 the presence of a central plastral fontanelle, and a pair of reduced
 mesoplastra. The occurrence of Kimmeridgian platychelyids in Mexico
 confirms that the Hispanic Corridor acted as a connection between Tethyan
 and Palaeopacific faunas.
description: Data from phylogenetic
 analysisAppendix.zip
DOI: 10.5061/dryad.v3127
title: Data from: Evaporimeter and bubble-imaging measures of sweat gland secretion rates

description: Beta-adrenergically-stimulated sweat rates determined by evaporimetry or
 by sweat bubble imaging are useful for measuring CFTR function because
 they provide a near-linear readout across almost the full range of CFTR
 function. They differentiate cystic fibrosis (CF) subjects from CF
 carriers and carriers from controls. However, evaporimetry, unlike bubble
 imaging, appears to be unable to detect improved levels of CFTR function
 in G551D subjects taking the CFTR modulator ivacaftor. Here, we quantify
 the sensitivity of evaporimetry and bubble imaging methods for assessing
 low levels of CFTR-dependent sweat rates. To establish sensitivity, we did
 dose-ranging studies using intradermally injected [cAMP]i–elevating
 cocktails. We reduced isoproterenol/aminophylline levels while maintaining
 a high level of atropine to block muscarinic elevation of [Ca2+]i. We
 stimulated the same sets of glands for both assays and recorded responses
 for 20 min. In response to a 3-log dilution of the stimulating cocktail
 (0.1%), bubble responses were detected in 12/12 tests (100%), with 49% ±
 3% of glands secreting to produce an aggregate volume of 598 nl across the
 12, 20-min tests. This was ~5% of the response to full cocktail.
 Evaporimetry detected responses in 3/12 (25%) tests with an aggregate
 secretion volume of 175 nl. After stimulation with a still more dilute
 cocktail (0.03%), bubble imaging detected 15 ± 13% of glands secreting at
 a rate ~0.9% of the response to full cocktail, while zero responding was
 seen with evaporimetry. The bubble imaging method detected secretion down
 to aggregate rates of &lt;0.2 nl/(cm2·min), or ~1/30th of the average
 basal transepithelial water loss (TEWL) in the test subject of 4 g/m2·hr
 or 6.7 nl/(cm2·min). The increased sensitivity of bubble imaging may be
 required to detect small but physiologically important increases in
 secretion rates produced by CFTR modulators.
description: Bubble-evap test
 numberingLabeled image files of
 all bubble testsEB01 evaporimeter 0.1%
 Cktl graphsEB01 evaporimeter graphs
 0.1% Cktl stimulationEB01 evaporimeter 0.03%
 Cktl graphsEB01 evaporimeter graphs
 0.03% Cktl stimulationEB01 evaporimeter 1%
 Cktl graphsEB01 evaporimeter graphs
 1% Cktl stimulationEB01 evaporimeter full
 Cktl graphsEB01 evaporimeter graphs
 full Cktl stimulationEvaporimetry experiments
 summarySummary of evaporimeter
 and bubbles tests for all subjectsEB02-03 evaporimeter no
 stim graphsEB02 and EB03
 evaporimeter graphs with no Cktl stimulation
DOI: 10.5061/dryad.6q442
title: Data from: Acquisition and functional consequences of social knowledge in macaques

description: To manoeuvre in complex societies, it is beneficial to acquire knowledge
 about the social relationships existing among group mates, so as to better
 predict their behaviour. Although such knowledge has been firmly
 established in a variety of animal taxa, how animals acquire such
 knowledge, as well as its functional significance, remains poorly
 understood. In order to understand how primates acquire and use their
 social knowledge, we studied kin-biased redirected aggression in Japanese
 macaques (Macaca fuscata) relying on a large database of over 15 000
 aggressive episodes. Confirming previous research, macaques redirected
 aggression preferentially to the kin of their aggressor. An analysis that
 controlled for the rate of affiliation between aggressors and targets of
 redirection showed that macaques identified the relatives of group mates
 on the basis of the frequency of their ongoing associations. By contrast,
 having observed group mates interact with their mother as infants did not
 increase the monkeys' success in correctly identifying kin
 relationships among third parties. Inter-individual variation in the
 successful identification of the kin of aggressors and in redirecting
 aggression accordingly translated into differences in the amount of
 aggression received, highlighting a selective advantage for those
 individuals that were better able to acquire and use social knowledge.
description: Dyadic aggressive
 interactions of Japanese macaquesThe dataset consists of
 dyadic aggressive interactions occurring in one captive group of 57
 Japanese macaques. The dataset contains information on the number and
 duration of observation, aggressor and victim id, time of aggressive
 event. The second sheet contains dyadic data of kinship and degree of
 association, expressed as CSI, composite Sociality Index. The third sheet
 includes information on individuals' id, rank, sex and year of
 birth.dataset_macaques.xls
DOI: 10.5061/dryad.j5bp7
title: Data from: Adaptive dynamics of cuticular hydrocarbons in Drosophila

description: Cuticular hydrocarbons (CHCs) are hydrophobic compounds deposited on the
 arthropod cuticle that are of functional significance with respect to
 stress tolerance, social interactions, and mating dynamics. We
 characterized CHC profiles in natural populations of Drosophila
 melanogaster at five levels: across a latitudinal transect in the eastern
 U.S., as a function of developmental temperature during culture, across
 seasonal time in replicate years, and as a function of rapid evolution in
 experimental mesocosms in the field. Furthermore, we also characterized
 spatial and temporal change in allele frequencies for SNPs in genes that
 are associated with the production and chemical profile of CHCs. Our data
 demonstrate a striking degree of parallelism for clinal and seasonal
 variation in CHCs in this taxon; CHC profiles also demonstrate significant
 plasticity in response to rearing temperature, and the observed patterns
 of plasticity parallel the spatiotemporal patterns observed in nature. We
 find that these congruent shifts in CHC profiles across time and space are
 also mirrored by predictable shifts in allele frequencies at SNPs
 associated with CHC chain length. Finally, we observed rapid and
 predictable evolution of CHC profiles in experimental mesocosms in the
 field. Together, these data strongly suggest that CHC profiles respond
 rapidly and adaptively to environmental parameters that covary with
 latitude and season, and that this response reflects the process of local
 adaptation in natural populations of D. melanogaster.
description: 1_Geographical
 Variations & Thermal Plasticity ExperimentGC-MS data on two
 geographical populations (Florida & Maine) at three temperatures (18,
 25, and 30 Degree C). The first and second column contain retention time
 and abundance (signal).2_Seasonal Variation
 ExperimentGC-MS data on seasonal
 variations (Early and Late season). Two consecutive years (2013 and 2014)
 data have been provided. The first and second column contain retention
 time and abundance (signal).3_Control & Evolving
 Populations ExperimentGC-MS data on control
 (F) and evolving (E) populations (outdoor). The first and second column
 contain retention time and abundance (signal).
DOI: 10.5061/dryad.g6q2f
title: Data from: An auditory illusion reveals the role of streaming in the temporal misallocation of perceptual objects

description: This study investigates the neural correlates and processes underlying the
 ambiguous percept produced by a stimulus similar to Deutsch's ‘octave
 illusion’, in which each ear is presented with a sequence of alternating
 pure tones of low and high frequencies. The same sequence is presented to
 each ear, but in opposite phase, such that the left and right ears receive
 a high–low–high … and a low–high–low … pattern, respectively. Listeners
 generally report hearing the illusion of an alternating pattern of low and
 high tones, with all the low tones lateralized to one side and all the
 high tones lateralized to the other side. The current explanation of the
 illusion is that it reflects an illusory feature conjunction of pitch and
 perceived location. Using psychophysics and electroencephalogram measures,
 we test this and an alternative hypothesis involving synchronous and
 sequential stream segregation, and investigate potential neural correlates
 of the illusion. We find that the illusion of alternating tones arises
 from the synchronous tone pairs across ears rather than sequential tones
 in one ear, suggesting that the illusion involves a misattribution of time
 across perceptual streams, rather than a misattribution of location within
 a stream. The results provide new insights into the mechanisms of binaural
 streaming and synchronous sound segregation.
description: Frequency tagged
 DataFFT Data for all test
 and control conditions for all 13 subjects.FrequencyData.mat
DOI: 10.5061/dryad.v1c16
title: Data from: The use of functional data analysis to evaluate activity in a spontaneous model of degenerative joint disease associated pain in cats

description: Accelerometry is used as an objective measure of physical activity in
 humans and veterinary species. In cats, one important use of accelerometry
 is in the study of therapeutics designed to treat degenerative joint
 disease (DJD) associated pain, where it serves as the most widely applied
 objective outcome measure. These analyses have commonly used summary
 measures, calculating the mean activity per-minute over days and comparing
 between treatment periods. While this technique has been effective,
 information about the pattern of activity in cats is lost. In this study,
 functional data analysis was applied to activity data from client-owned
 cats with (n=83) and without (n=15) DJD. Functional data analysis retains
 information about the pattern of activity over the 24-hour day, providing
 insight into activity over time. We hypothesized that 1) cats without DJD
 would have higher activity counts and intensity of activity than cats with
 DJD; 2) that activity counts and intensity of activity in cats with DJD
 would be inversely correlated with total radiographic DJD burden and total
 orthopedic pain score; and 3) that activity counts and intensity would
 have a different pattern on weekends versus weekdays. Results showed
 marked inter-cat variability in activity. Cats exhibited a bimodal pattern
 of activity with a sharp peak in the morning and broader peak in the
 evening. Results further showed that this pattern was different on
 weekends than weekdays, with the morning peak being shifted to the right
 (later). Cats with DJD showed different patterns of activity from cats
 without DJD, though activity and intensity were not always lower; instead
 both the peaks and troughs of activity were less extreme than those of the
 cats without DJD. Functional data analysis provides insight into the
 pattern of activity in cats, and an alternative method for analyzing
 accelerometry data that incorporates fluctuations in activity across the
 day.
description: Cat
 ActivityThis folder contains
 files necessary to replicate the analysis presented in Gruen, M.E., et al
 (2016). "The Use of Functional Data Analysis to Evaluate Activity in
 a Spontaneous Model of Degenerative Joint Disease Associated Pain in
 Cats". PLOSone, under revision. The code was created by Marcela
 Alfaro-Cordoba and Ana-Maria Staicu.CatActivity.zip
DOI: 10.5061/dryad.5d29r
title: Data from: The inbreeding strategy of a solitary primate, Microcebus murinus

description: Inbreeding depression may be common in nature, reflecting either the
 failure of inbreeding avoidance strategies or inbreeding tolerance when
 avoidance is costly. The combined assessment of inbreeding risk, avoidance
 and depression is therefore fundamental to evaluate the inbreeding
 strategy of a population, that is how individuals respond to the risk of
 inbreeding. Here, we use the demographic and genetic monitoring of 10
 generations of wild grey mouse lemurs (Microcebus murinus), small primates
 from Madagascar with overlapping generations, to examine their inbreeding
 strategy. Grey mouse lemurs have retained ancestral mammalian traits,
 including solitary lifestyle, polygynandry and male-biased dispersal, and
 may therefore offer a representative example of the inbreeding strategy of
 solitary mammals. The occurrence of close kin among candidate mates was
 frequent in young females (~37%, most often the father) and uncommon in
 young males (~6%) due to male-biased dispersal. However, close kin
 consistently represented a tiny fraction of candidate mates (&lt; 1%)
 across age and sex categories. Mating biases favouring partners with
 intermediate relatedness were detectable in yearling females and adult
 males, possibly partly caused by avoidance of daughter–father matings.
 Finally, inbreeding depression, assessed as the effect of heterozygosity
 on survival, was undetectable using a capture–mark–recapture study.
 Overall, these results indicate that sex-biased dispersal is a primary
 inbreeding avoidance mechanism at the population level, and mating biases
 represent an additional strategy that may mitigate residual inbreeding
 costs at the individual level. Combined, these mechanisms explain the
 rarity of inbreeding and the lack of detectable inbreeding depression in
 this large, genetically diverse population.
description: Mate choice and survival
 data in relation to relatedness and inbreeding in grey mouse
 lemursThe file has 3 sheets:
 the first sheet contains data on female mate choice in relation to the
 (genetic) relatedness of her potential mates, the second sheet contains
 data on male mate choice in relation to the (genetic) relatedness of his
 potential mates, and the third sheet contains capture-mark-recapture data
 supporting a survival analysis in relation to individual heterozygosity.
 All the headlines should be self-explanatory.Mouse lemur mate choice data
 for DRYAD_FINAL FOR SUBMISSION.xlsx
DOI: 10.5281/zenodo.15688267
title: High-Entropy Skutterudites as Thermoelectrics

description: Data for computing thermodynamic density of states and unfolded band structures.
DOI: 10.5281/zenodo.15688266
title: High-Entropy Skutterudites as Thermoelectrics

description: Data for computing thermodynamic density of states and unfolded band structures.
DOI: 10.5061/dryad.ck0ts
title: Data from: Ecological and social factors constrain spatial and temporal opportunities for mating in a migratory songbird

description: Many studies of sexual selection assume that individuals have equal mating
 opportunities and that differences in mating success result from variation
 in sexual traits. However, the inability of sexual traits to explain
 variation in male mating success suggests that other factors moderate the
 strength of sexual selection. Extrapair paternity is common in vertebrates
 and can contribute to variation in mating success and thus serves as a
 model for understanding the operation of sexual selection. We developed a
 spatially explicit, multifactor model of all possible female-male pairings
 to test the hypothesis that ecological (food availability) and social
 (breeding density, breeding distance, and the social mate’s nest stage)
 factors influence an individual’s opportunity for extrapair paternity in a
 socially monogamous bird, the black-throated blue warbler, Setophaga
 caerulescens. A male’s probability of siring extrapair young decreased
 with increasing distance to females, breeding density, and food
 availability. Males on food-poor territories were more likely to sire
 extrapair young, and these offspring were produced farther from the male’s
 territory relative to males on food-abundant territories. Moreover, males
 sired extrapair young mostly during their social mates’ incubation stage,
 especially males on food-abundant territories. This study demonstrates how
 ecological and social conditions constrain the spatial and temporal
 opportunities for extrapair paternity that affect variation in mating
 success and the strength of sexual selection in socially monogamous
 species.
description: BTBW_model1_dataData for Model 1: Testing the effects of ecological and social factors on the probability of siring extra-pair youngBTBW_model2_dataData for Model 2: Testing the effect of food availability on breeding distance
DOI: 10.5061/dryad.j9q7h
title: Data from: Improving access and continuity of care for homeless people: how could general practitioners effectively contribute? results from a mixed study.

description: Objectives: To analyze the views of general practitioners (GPs) about how
 they can provide care to homeless people (HP) and to explore which
 measures could influence their views. Design: Mixed-methods design
 (qualitative –&gt; quantitative (cross-sectional observational) 
 qualitative). Qualitative data were collected through semi-structured
 interviews; quantitative data were collected through questionnaires with
 closed questions. Quantitative data were analyzed with descriptive
 statistical analyses on SPPS; a content analysis was applied on
 qualitative data. Setting: primary care; views of urban GPs working in
 deprived area in Marseille were explored by questionnaires and/or
 semi-structured interview. Participants: 19 GPs involved in HP’s
 healthcare were recruited for phase 1 (qualitative); for phase 2
 (quantitative), 150 GPs who provide routine health care (“standard” GPs)
 were randomized, 144 met the inclusion criteria and 105 responded the
 questionnaire; for phase 3 (qualitative), data were explored on 14
 “standard” GPs. Results: In quantitative phase, 79% of the 105 GPs already
 treated HP. Most of the difficulties they encountered treating HP
 concerned social matters (mean level of perceived difficulties = 3.95/5,
 IC95 [3.74-4.17]), lack of medical information (mn=3.78/5, IC95
 [3.55-4.01]patient’s compliance (mn=3.67/5, IC95 [3.45-3.89]), loneliness
 in practice (mn=3.45/5, IC95 [3.18-3.72]) and time required for doctor
 (mn=3.25, IC95 [3-3.5]. From qualitative analysis we understood that
 maintaining a stable follow-up was a major condition for GPs to contribute
 effectively to the care of HP. Acting on health system organization,
 developing a medical and psychosocial approach with closer relation with
 social workers and enhancing the collaboration between tailored and
 non-tailored programs were also other key answers. Conclusion: If we adapt
 the conditions of GPs practice, they could contribute to the improvement
 of HP’s health. These results will enable the construction of a new model
 of primary care organization aiming to improve access to health care for
 HP.
description: annex 1 -interview
 guides and questionnaireInterview guides for
 qualitative phases (phase 1 and 3 of the study); questionnaire passed
 during quantitative phase (phase 2)Annex 2 - extracts from
 coding tree in englishExtracts from the coding
 trees (non-exhaustive) used for qualitative phases (phases 1 and 3), from
 N-Vivo 11.