cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6df154sg
title: Data from: Sexual selection on song and cuticular hydrocarbons in two distinct populations of Drosophila montana

description: Sexual selection has the potential to contribute to population divergence
 and speciation. Most studies of sexual selection in Drosophila have
 concentrated on a single signaling modality, usually either courtship song
 or cuticular hydrocarbons (CHCs), which can act as contact pheromones. We
 have examined the relationship between both signal types and reproductive
 success using F1-3 offspring of wild-collected flies, raised in the lab.
 We used two populations of the Holarctic species Drosophila montana, that
 represent different phylogeographic clades which have been separate for
 ca. 0.5 MY, and which differ to some extent in both traits. Here we
 characterise the nature and identify the targets of sexual selection on
 song, CHCs and both traits combined within the populations. Three measures
 of courtship outcome were used as fitness proxies. They were the
 probability of mating, mating latency and the production of rejection song
 by females and showed patterns of association with different traits that
 included both linear and quadratic selection. Courtship song predicted
 courtship outcome better than CHCs and the signal modalities acted in an
 additive rather than synergistic manner. Selection was generally
 consistent in direction and strength between the two populations and
 favoured males that sang more vigorously. Sexual selection differed in the
 extent, strength and nature on some of the traits between populations.
 However, the differences in the directionality of selection detected were
 not a good predictor of population differences. In addition, a character
 previously shown to be important for species recognition, interpulse
 interval, was found to be under sexual selection. Our results highlight
 the complexity of understanding the relationship between within-population
 sexual selection and population differences. Sexual selection alone cannot
 predict differences between populations.
description: VeltsosMontanaDataSong and CHC data from males and females, used in all the selection analysis models.
DOI: 10.5061/dryad.j6f9655
title: Data from: Reticulate evolution, introgression, and intertribal gene capture in an allohexaploid grass

description: Recent molecular phylogenetic studies of polyploid plants have
 successfully clarified complex patterns of reticulate evolution. In this
 study of Elymus repens, an allohexaploid member of the wheat tribe
 Triticeae, chloroplast and nuclear DNA data reveal an extreme reticulate
 pattern, revealing at least five distinct gene lineages coexisting within
 the species, acquired through a possible combination of allohexaploidy and
 introgression from both within and beyond the Triticeae. Earlier
 cytogenetic studies of E. repens suggested that Hordeum (genome H) and
 Pseudoroegneria (St) were genome donors to E. repens. Chloroplast DNA data
 presented here (from the rpoA gene and from the region between trnT and
 trnF) identify three potential maternal genome donors (Pseudoroegneria,
 Thinopyrum, and Dasypyrum), and information from previous molecular work
 suggests that, of these, Pseudoroegneria is the most likely maternal
 donor. Nuclear starch synthase gene data indicate that both Hordeum and
 Pseudoroegneria have contributed to the nuclear genome of E. repens, in
 agreement with cytogenetic data. However, these data also show unexpected
 contributions from Taeniatherum, and from two additional donors of unknown
 identity. One of the sequences of unknown origin falls within the
 Triticeae, but is not closely associated with any of the sampled diploid
 genera. The second falls outside of the clade containing Triticeae and its
 outgroup Bromus, suggesting the acquisition of genetic material from a
 surprisingly divergent source. Bias toward the amplification of certain
 starch synthase variants has complicated attempts to thoroughly sample
 from within individuals, but the data clearly indicate a complex pattern
 of reticulate evolution, consistent not only with allohexaploidy, but also
 with introgression from unexpectedly divergent sources.
description: cpDNA
 dataMasonGamer_cpDNA.nexGBSSIexons dataMasonGamer_GBSSIexons.nexGBSSIseqs dataMasonGamer_GBSSIseqs.nex
DOI: 10.5061/dryad.6n391t06
title: Data from: Toward responsible stock enhancement: broadcast spawning dynamics and adaptive genetic management in white seabass aquaculture

description: The evolutionary effects captive-bred individuals can have on wild
 conspecifics are necessary considerations for stock enhancement programs,
 but breeding protocols are often developed without knowledge of realized
 reproductive behavior. To help fill that gap, parentage was assigned to
 offspring produced by a freely-mating group of 50 white seabass
 (Atractoscion nobilis), a representative broadcast spawning marine finfish
 cultured for conservation. Similar to the well-known and closely-related
 red drum (Sciaenops ocellatus), A. nobilis exhibited large variation in
 reproductive success. More males contributed and contributed more equally
 than females within and among spawns in a mating system best described as
 lottery polygyny. Two females produced 27% of the seasonal offspring pool
 and female breeding effective size averaged 1.85 per spawn and 12.38
 seasonally, whereas male breeding effective size was higher (6.42 and
 20.87, respectively), with every male contributing 1-7% of offspring.
 Further, females batch spawned every 1-5 weeks, while males displayed
 continuous reproductive readiness. Sex-specific mating strategies resulted
 in multiple successful mate pairings and a breeding effective to census
 size ratio of ≥ 0.62. Understanding a depleted species’ mating system
 allowed management to more effectively utilize parental genetic
 variability for culture, but the fitness consequences of long-term
 stocking can be difficult to address.
description: A. nobilis
 microsatellite data
DOI: 10.5061/dryad.93f51
title: Data from: Birth dates vary with fixed and dynamic maternal features, offspring sex, and extreme climatic events in a high-latitude marine mammal

description: Reproductive synchrony tends to be widespread in diverse species of plants
 and animals, especially at higher latitudes. However, for long-lived
 mammals, birth dates for different individuals can vary by weeks within a
 population. A mother's birth timing can reveal useful information
 about her reproductive abilities and have important implications for the
 characteristics and survival of her offspring. Despite this, our current
 knowledge of factors associated with variation in birth dates is modest.
 We used long-term data for known-age Weddell seals in Antarctica and a
 Bayesian hierarchical modeling approach to study how birth dates varied
 with fixed and temporally varying features of mothers, whether sex
 allocation varied with birth timing, and annual variation in birth dates.
 Based on birth dates for 4465 pups born to 1117 mothers aged 4–31, we
 found that diverse features of mothers were associated with variation in
 birth dates. Maternal identity was the most important among these. Unlike
 most studies, which have reported that birth dates occur earlier as
 mothers age, we found that birth dates progressively occurred earlier in
 the year in the early part of a mother's reproductive life, reached a
 minimum at age 16, and then occurred later at later ages. Birth dates were
 positively related to a mother's age at primiparity and recent
 reproductive effort. The earliest birth dates were for pups born to
 prime-age mothers who did not reproduce in the previous year but began
 reproduction early in life, suggesting that females in the best condition
 gave birth earlier than others. If so, our finding that male pups tended
 to be born earlier than females provides support for the Trivers–Willard
 sex-allocation model. Average birth dates were quite consistent across
 years, except for 2 years that had notable delays and occurred during the
 period when massive icebergs were present and disrupted the ecosystem.
description: WESE_birthscsv file containing data on pup birth dates, pup sex, year of birth, and attributes of mothers for Weddell seals in Erebus Bay, Antarctica for 4.465 pups in 28 different years during 1993 through 2014.
DOI: 10.5061/dryad.5q1j0
title: Data from: Adjunctive clindamycin for cellulitis: clinical trial comparing flucloxacillin with or without clindamycin for the treatment of limb cellulitis

description: Objective: To compare flucloxacillin with clindamycin to flucloxacillin
 alone for the treatment of limb cellulitis. Design: Parallel,
 double-blinded, randomised controlled trial. Setting: Emergency department
 attendances and general practice referrals within 20 hospitals in England.
 Interventions: Flucloxacillin, at a minimum of 500 mg 4 times per day for
 5 days, with clindamycin 300 mg 4 times per day for 2 days given orally
 versus flucloxacillin given alone. Main outcome measures: The primary
 outcome was improvement at day 5. This was defined as being afebrile with
 either a reduction in affected skin surface temperature or a reduction in
 the circumference of the affected area. Secondary outcomes included
 resolution of systemic features, resolution of inflammatory markers,
 recovery of renal function, reduction in the affected area, decrease in
 pain, return to work or normal activities and the absence of increased
 side effects. Results: 410 patients were included in the trial. No
 significant difference was seen in improvement at day 5 for flucloxacillin
 with clindamycin (136/156, 87%) versus flucloxacillin alone (140/172,
 81%)—OR 1.55 (95% CI 0.81 to 3.01), p=0.174. There was a significant
 difference in the number of patients with diarrhoea at day 5 in the
 flucloxacillin with clindamycin allocation (34/160, 22%) versus
 flucloxacillin alone (16/176, 9%)—OR 2.7 (95% CI 1.41 to 5.07), p=0.002.
 There was no clinically significant difference in any secondary outcome
 measures. There was no significant difference in the number of patients
 stating that they had returned to normal activities at the day 30
 interview in the flucloxacillin with clindamycin allocation (99/121, 82%)
 versus flucloxacillin alone (104/129, 81%)—adjusted OR 0.90 (95% CI 0.44
 to 1.84). Conclusions: The addition of a short course of clindamycin to
 flucloxacillin early on in limb cellulitis does not improve outcome. The
 addition of clindamycin doubles the likelihood of diarrhoea within the
 first few days.
description: C4C Anonymised
 DataThe data is derived form
 the paper forms completed for each patient within the study. The file
 contains expansions for each of the codes. for any further information
 please contact the lead author.C4CAnonFinalDataCheck1612.ods
DOI: 10.5061/dryad.6q3db
title: Data from: Experimental evidence that primate trichromacy is well suited for detecting primate social colour signals

description: Primate trichromatic colour vision has been hypothesized to be well tuned
 for detecting variation in facial coloration, which could be due to
 selection on either signal wavelengths or the sensitivities of the
 photoreceptors themselves. We provide one of the first empirical tests of
 this idea by asking whether, when compared with other visual systems, the
 information obtained through primate trichromatic vision confers an
 improved ability to detect the changes in facial colour that female
 macaque monkeys exhibit when they are proceptive. We presented pairs of
 digital images of faces of the same monkey to human observers and asked
 them to select the proceptive face. We tested images that simulated what
 would be seen by common catarrhine trichromatic vision, two additional
 trichromatic conditions and three dichromatic conditions. Performance
 under conditions of common catarrhine trichromacy, and trichromacy with
 narrowly separated LM cone pigments (common in female platyrrhines), was
 better than for evenly spaced trichromacy or for any of the dichromatic
 conditions. These results suggest that primate trichromatic colour vision
 confers excellent ability to detect meaningful variation in primate face
 colour. This is consistent with the hypothesis that social information
 detection has acted on either primate signal spectral reflectance or
 photoreceptor spectral tuning, or both.
description: Hiramatsu et al raw data
 and code for analysesraw data of performance
 and R codes for statistical analysesHiramatsu_et_al_raw_data_and_codes_for_analyses.zip
DOI: 10.5061/dryad.50603
title: Data from: Integrating phylogenetic and ecological distances reveals new insights into parasite host specificity

description: The range of hosts a pathogen infects (host specificity) is a key element
 of disease risk that may be influenced by both shared phylogenetic history
 and shared ecological attributes of prospective hosts. Phylospecificity
 indices quantify host specificity in terms of host relatedness, but can
 fail to capture ecological attributes that increase susceptibility. For
 instance, similarity in habitat niche may expose phylogenetically
 unrelated host species to similar pathogen assemblages. Using a recently
 proposed method that integrates multiple distances, we assess the relative
 contributions of host phylogenetic and functional distances to pathogen
 host specificity (functional–phylogenetic host specificity). We apply this
 index to a data set of avian malaria parasite (Plasmodium and Haemoproteus
 spp.) infections from Melanesian birds to show that multihost parasites
 generally use hosts that are closely related, not hosts with similar
 habitat niches. We also show that host community phylogenetic ß-diversity
 (Pßd) predicts parasite Pßd and that individual host species carry
 phylogenetically clustered Haemoproteus parasite assemblages. Our findings
 were robust to phylogenetic uncertainty, and suggest that phylogenetic
 ancestry of both hosts and parasites plays important roles in driving
 avian malaria host specificity and community assembly. However,
 restricting host specificity analyses to either recent or historical
 timescales identified notable exceptions, including a ‘habitat specialist’
 parasite that infects a diversity of unrelated host species with similar
 habitat niches. This work highlights that integrating ecological and
 phylogenetic distances provides a powerful approach to better understand
 drivers of pathogen host specificity and community assembly.
description: Raw Parasite Infection
 DataThis comma-separated
 .csv file contains infection data for individual birds. Included are the
 bird species name, sampling location, infection status and parasite
 lineage identification.Clark_Clegg_Supplementary_Data_RawInfectionData.csvAvian host habitat niche traitsThis comma-separated .csv file contains avian species distribution data, feeding preferences, forest strata preferences and habitat breadth indices.Clark_Clegg_Supplementary_Data_BirdTraits.csvAnalysis R code and functionsThis .doc file contains example R code and annotated functions necessary to carry out analyses described in the manuscript.Clark_Clegg_Supplementary_Data_RCode.docx
DOI: 10.15468/dl.6k6v5t
title: Occurrence Download

description: A dataset containing 264523 species occurrences available in GBIF matching the query:
{
 "DatasetKey" : [
 "is WELT Herbarium at Museum of New Zealand Te Papa Tongarewa"
 ]
}

 The dataset includes 264523 records from 1 constituent datasets; see https://api.gbif.org/v1/occurrence/download/0000614-260126135527185/datasets/export for details.
 
Data from some individual datasets included in this download may be licensed under less restrictive terms.
DOI: 10.5061/dryad.28816
title: Data from: Ocean acidification induces biochemical and morphological changes in the calcification process of large benthic foraminifera

description: Large benthic foraminifera are significant contributors to sediment
 formation on coral reefs, yet they are vulnerable to ocean acidification.
 Here, we assessed the biochemical and morphological impacts of
 acidification on the calcification of Amphistegina lessonii and
 Marginopora vertebralis exposed to different pH conditions. We measured
 growth rates (surface area and buoyant weight) and Ca-ATPase and Mg-ATPase
 activities and calculated shell density using micro-computer tomography
 images. In A. lessonii, we detected a significant decrease in buoyant
 weight, a reduction in the density of inner skeletal chambers, and an
 increase of Ca-ATPase and Mg-ATPase activities at pH 7.6 when compared
 with ambient conditions of pH 8.1. By contrast, M. vertebralis showed an
 inhibition in Mg-ATPase activity under lowered pH, with growth rate and
 skeletal density remaining constant. While M. vertebralis is considered to
 be more sensitive than A. lessonii owing to its high-Mg-calcite skeleton,
 it appears to be less affected by changes in pH, based on the parameters
 assessed in this study. We suggest difference in biochemical pathways of
 calcification as the main factor influencing response to changes in pH
 levels, and that A. lessonii and M. vertebralis have the ability to
 regulate biochemical functions to cope with short-term increases in
 acidity.
description: pH and DIC input
 parameterspH and DIC data used to
 calculate carbonate system parameters used in the
 experimentInput and output
 parameters.xlsxElectronic supporting
 materialSupporting statistical
 analysisPrazeres et al_Supporting
 material.docx
DOI: 10.5061/dryad.vs970
title: Data from: Postnatal dynamics of developmental stability and canalization of lizard head shape under different environmental conditions

description: Developmental stability (DS) and canalization are key determinants of
 phenotypic variation. To provide a better understanding of how postnatal
 growth is involved in determining the effects of DS and canalization on
 phenotypic variation, we studied within- and among-individual variation in
 head shape in ontogenetic series of lizards inhabiting urban and rural
 environments. Urban lizards exhibited increased fluctuating asymmetry
 during the early postnatal stages, but asymmetry levels decreased during
 growth. By contrast, asymmetry remained constant across the investigated
 size range in the rural population. In addition, urban juveniles were more
 variable for symmetric shape and deviated more from the group shape-size
 allometric trajectory, but both indices declined across ontogeny.
 Congruent patterns of within- and among-individual variation suggest that
 both DS and canalization may rely on similar underlying mechanisms.
 Further, the ontogenetic reduction of variation in the urban population
 suggests that compensatory growth may aid in buffering phenotypic
 variation and correcting deviances from the established developmental
 path. Alternatively, passive mechanisms and population dynamics may also
 explain the decrease of phenodeviants in urban populations. Significant
 correlations between symmetric and asymmetric shape, as well as similar
 integration patterns between the two populations, suggest that similar
 developmental mechanisms regulate head shape in both environments.
 Overall, these results highlight the relevance of both pre- and post-natal
 dynamics in determining levels of phenotypic variation, enhancing our
 understanding of how organisms respond to perturbations to DS and
 canalization under stressful conditions.
description: FA_ontogenyThis is a tps file containing 2-D digitized landmarks of dorsal head view of adult and juvenile Podarcis muralis individuals. 28 landmarks were taken on each specimen. Landmark recording was repeated twice for each animal.classifierThis is a text file containing identifier variables associated with the individuals in the companion tps file. ID numbers corresponding to ID numbers in the tps file. Ind number refers to individual animals, Age_Class indicates whether individual is adult or juvenile (A=adult, J=juvenile), Pop indicates location where the animals were collected (P or S, p=urban population, s=rural population). Landmark recording was repeated twice for each animal and is indicated by Image (1 or 2).
DOI: 10.5061/dryad.1ph92
title: Data from: Changes in data sharing and data reuse practices and perceptions among scientists worldwide

description: The incorporation of data sharing into the research lifecycle is an
 important part of modern scholarly debate. In this study, the DataONE
 Usability and Assessment working group addresses two primary goals: To
 examine the current state of data sharing and reuse perceptions and
 practices among research scientists as they compare to the 2009/2010
 baseline study, and to examine differences in practices and perceptions
 across age groups, geographic regions, and subject disciplines. We
 distributed surveys to a multinational sample of scientific researchers at
 two different time periods (October 2009 to July 2010 and October 2013 to
 March 2014) to observe current states of data sharing and to see what, if
 any, changes have occurred in the past 3–4 years. We also looked at
 differences across age, geographic, and discipline-based groups as they
 currently exist in the 2013/2014 survey. Results point to increased
 acceptance of and willingness to engage in data sharing, as well as an
 increase in actual data sharing behaviors. However, there is also
 increased perceived risk associated with data sharing, and specific
 barriers to data sharing persist. There are also differences across age
 groups, with younger respondents feeling more favorably toward data
 sharing and reuse, yet making less of their data available than older
 respondents. Geographic differences exist as well, which can in part be
 understood in terms of collectivist and individualist cultural
 differences. An examination of subject disciplines shows that the
 constraints and enablers of data sharing and reuse manifest differently
 across disciplines. Implications of these findings include the continued
 need to build infrastructure that promotes data sharing while recognizing
 the needs of different research communities. Moving into the future,
 organizations such as DataONE will continue to assess, monitor, educate,
 and provide the infrastructure necessary to support such complex grand
 science challenges.
description: Dryad_PlosOne Baseline
 vs. Follow-Up DataThis dataset combines
 items from a 2009/2010 survey and a 2013/2014 survey to examine changes in
 data sharing/reuse perceptions and practices among research scientists.
 See ReadMe file for details.Final Dryad PLOS ONE
 Scientist FollowUp OnlyCorrected version of
 follow-up (2013/2014) study data only. Corresponds with second half of
 results in manuscript.