cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.47p7c
title: Data from: The index case is not enough: variation among individuals, groups, and social networks modify bacterial transmission dynamics

description: 1.The traits of the index case of an infectious disease outbreak, and the
 circumstances for their etiology, potentially influence the trajectory of
 transmission dynamics. However, these dynamics likely also depend on the
 traits of the individuals with whom the index case interacts. 2.We used
 the social spider Stegodyphus dumicola to test how the traits of the index
 case, group phenotypic composition, and group size interact to facilitate
 the transmission of a GFP-labeled cuticular bacterium. We also compared
 bacterial transmission across experimentally generated “daisy-chain”
 versus “star” networks of social interactions. Finally, we compared social
 network structure across groups of different sizes. 3.Groups of 10 spiders
 experienced more bacterial transmission events compared to groups of 30
 spiders, regardless of groups’ behavioral composition. Groups containing
 only one bold spider experienced the lowest levels of bacterial
 transmission regardless of group size. We found no evidence for the traits
 of the index case influencing any transmission dynamics. In a second
 experiment, bacteria were transmitted to more individuals in
 experimentally induced star networks than in daisy-chains, on which
 transmission never exceeded three steps. In both experimental network
 types, transmission success depended jointly on the behavioral traits of
 the interacting individuals, however, the behavioral traits of the index
 case were only important for transmission on star networks. 4.Larger
 social groups exhibited lower interaction density (i.e. had a low ratio of
 observed to possible connections) and were more modular, i.e., they had
 more connections between nodes within a sub-group and fewer connections
 across sub-groups. Thus, larger groups may restrict transmission by
 forming fewer interactions and by isolating sub-groups that interacted
 with the index case. 5.These findings suggest that accounting for the
 traits of single exposed hosts has less power in predicting transmission
 dynamics compared to the larger-scale factors of the social groups in
 which they reside. Factors like group size and phenotypic composition
 appear to alter social interaction patterns, which leads to differential
 transmission of microbes.
description: Data for Keiser et al
 2017 - The index case is not enough - Journal of Animal
 EcologyData for three
 experiments testing group-wide transmission of cuticular bacteria (first
 tab), transmission along daisy-chain and radial networks, and social
 network metrics across groups of different sizes.
DOI: 10.5061/dryad.3np1m
title: Data from: Ecologically differentiated, stress tolerant endosymbionts in the dinoflagellate genus Symbiodinium (Dinophyceae) Clade D are different species.

description: We used an integrative genetics approach using sequences of (1) nuclear
 ribosomal rDNA (internal transcribed spacers and partial large subunit
 rDNA), (2) single-copy microsatellite nuclear DNA, (3) chloroplast-encoded
 23S rDNA, (4) mitochondrial cytochrome b, and (5) repeat variation at
 eight microsatellite markers, to test the hypothesis that the
 stress-tolerant, ‘morphologically cryptic’ Clade D Symbiodinium
 (Dinophyceae) was composed of more than one species. Concordant
 phylogenetic and population genetic evidence clearly differentiate
 separately evolving, reproductively isolated lineages. We describe
 Symbiodinium boreum sp. nov. and S. eurythalpos sp. nov., two symbionts
 known to occur in colonies of the zebra coral, Oulastrea crispata
 (Scleractinia), which lives in turbid, marginal habitats extending from
 equatorial Southeast Asia to the main islands of Japan in the temperate
 northwest Pacific Ocean. Symbiodinium boreum was associated with O.
 crispata in temperate latitudes and S. eurythalpos was common to colonies
 in the tropics. The geographical ranges of both symbiont species
 overlapped in the subtropics where they sometimes co-occurred in the same
 host colony. Symbiodinium trenchii sp. nov. is also described. As a
 host-generalist symbiont, it often occurs in symbiosis with various
 species of Scleractinia possessing open (horizontal) modes of symbiont
 acquisition and is common to reef coral communities thriving in warm
 turbid reef habitats in the western Pacific Ocean, Indian Ocean,
 Arabian/Persian Gulf, Red Sea and western Atlantic (Caribbean). As is
 typical for dinoflagellates, S. boreum and S. eurythalpos were haploid,
 but microsatellite loci from field-collected and cultured S. trenchii
 often possessed two alleles, implying that a genome-wide duplication
 occurred during the evolution of this species. The recognition that Clade
 D Symbiodinium contains species exhibiting marked differences in host
 specificity and geographical distribution will yield greater scientific
 clarity about how stress-tolerant symbionts function in the ecological
 response of coral–dinoflagellate symbioses to global climate change.
description: Symbiodinium species in
 Clade D microsatellite allelesThis data file is an
 excel file that contains the allele scores for 8 independently sorting
 microsatellite loci.R Oul Final
 (1).xlsClade D microsatellite
 flanking region sequencesExample flanking
 sequences of loci 88 and 93 (sensu Wham et al. 2011) for Symbiodinium
 trenchii, S. boreum, and S. eurythalpos.Clade D microsatellite flanking
 regions.txt
DOI: 10.5061/dryad.mp7t1
title: Data from: The evolution of a complex trait: cuticular hydrocarbons in ants evolve independent from phylogenetic constraints

description: Cuticular hydrocarbons (CHC) are ubiquitous and highly diverse in insects,
 serving as communication signal and waterproofing agent. Despite their
 vital function, the causes, mechanisms and constraints on CHC
 diversification are still poorly understood. Here, we investigated
 phylogenetic constraints on the evolution of CHC profiles, using a global
 dataset of the species-rich and chemically diverse ant genus
 Crematogaster. We decomposed CHC profiles into quantitative (relative
 abundances, chain length) and qualitative traits (presence/absence of CHC
 classes). A species-level phylogeny was estimated using newly generated
 and previously published sequences from five nuclear markers. Moreover, we
 reconstructed a phylogeny for the chemically diverse C. levior species
 group using cytochrome oxidase I. Phylogenetic signal was measured for
 these traits on genus and clade level and within the chemically diverse C.
 levior group. For most quantitative CHC traits, phylogenetic signal was
 low and did not differ from random expectation. This was true on the level
 of genus, clade and species-group, indicating that CHC traits are
 evolutionary labile. In contrast, the presence or absence of alkenes and
 alkadienes was highly conserved within the C. levior group. Hence, the
 presence or absence of biosynthetic pathways may be phylogenetically
 constrained, especially at lower taxonomic levels. Our study shows that
 CHC composition can evolve rapidly, allowing insects to quickly adapt
 their chemical profiles to external selection pressures, while the
 presence of biosynthetic pathways appears more constrained. However, our
 results stress the importance to consider the taxonomic level when
 investigating phylogenetic constraints.
description: Chemical and genetic
 data of the Crematogaster specimenThe zip file contains
 the following sheets in one xls file: Tables S1 and S2: Information on
 collection sites. Tables S3 and S4: Data on the relative abundances of CHC
 classes and the median chain lengths in the entire Crematogaster data set
 and in the Crematogaster levior species group. Furthermore, it provides
 the genetic data for the entire Crematogaster dataset (five nuclear loci,
 i.e. LW Rh, ArgK, CAD, TOP1 and Wg) and for the Crematogaster levior
 species group (mitochondrial DNA: COI) as nexus files.Menzel Schmitt Blaimer Dryad
 data.zip
DOI: 10.5061/dryad.3hp02
title: Data from: Evolution and plasticity: divergence of song discrimination is faster in birds with innate song than in song learners in Neotropical passerine birds

description: Plasticity is often thought to accelerate trait evolution and speciation.
 For example, plasticity in birdsong may partially explain why clades of
 song learners are more diverse than related clades with innate song. This
 “song learning” hypothesis predicts that 1) differences in song traits
 evolve faster in song learners, and 2) behavioral discrimination against
 allopatric song (a proxy for premating reproductive isolation) evolves
 faster in song learners. We tested these predictions by analyzing acoustic
 traits and conducting playback experiments in allopatric Central American
 sister pairs of song learning oscines (N = 42) and non-learning suboscines
 (N = 27). We found that non-learners evolved mean acoustic differences
 slightly faster than did leaners, and that the mean evolutionary rate of
 song discrimination was 4.3 times faster in non-learners than in learners.
 This unexpected result may be a consequence of significantly greater
 variability in song traits in song learners (by 54–79%) that requires
 song-learning oscines to evolve greater absolute differences in song
 before achieving the same level of behavioral song discrimination as
 non-learning suboscines. This points to “a downside of learning” for the
 evolution of species discrimination, and represents an important example
 of plasticity reducing the rate of evolution and diversification by
 increasing variability.
description: TableS1_datatableThis data table provides the data necessary to recreate the analyses presented in the Freeman et al. paper in Evolution. The unit of analysis in this study is the "sister pair". Thus, each row in the file provides information for a phylogenetically independent sister pair. The key columns are: 1) Clade (either suboscine or oscine), 2) Overall_Discrimination (the proportion of territories that discriminated against allopatric song; note that for sister pairs where we conducted reciprocal playbacks (how population A responds to song from population B and also how population B responds to song from population A), this value is the average of each unidirectional comparison), and 3) GeneticDistance (uncorrected p-distance in mtDNA).TableS1_forDryad.xlsx
DOI: 10.5061/dryad.2qk35
title: Data from: Genetic evidence for monogamy in the dwarf seahorse, Hippocampus zosterae

description: Syngnathid fishes (pipefishes, seahorses, and seadragons) exhibit a wide
 array of mating systems ranging from monogamy with long-term pair bonds to
 more promiscuous mating systems, such as polyandry and polygynandry. Some
 seahorses, including the dwarf seahorse Hippocampus zosterae, have been
 found to be socially monogamous. Although several seahorse species have
 also been shown to be genetically monogamous, parentage analysis has not
 yet been applied to the dwarf seahorse. We developed 8 novel
 microsatellites for the dwarf seahorse to conduct genetic parentage
 analysis to confirm that this species is indeed monogamous. Using 4
 selected loci and a total of 16 pregnant male seahorses, with 8 collected
 in Florida and 8 sampled in Texas, we genotyped all of the offspring
 within each male’s brood to determine the maternal contributions to each
 brood. We found a maximum of 4 alleles per locus segregating within each
 pregnant male’s brood, a pattern consistent with each brood having exactly
 1 mother and 1 father. These results support previous laboratory-based
 behavioral studies and indicate that the dwarf seahorse, H. zosterae, is
 genetically monogamous.
description: All parental alleles for
 both locationsParental Genotypes for
 males and their mates from both locations, Texas and
 Florida.Zosterae Fl embryo data
 sheetsAll of the embryo
 genotypes for each males collected in Florida.Zosterae Tx embryo data
 sheetsAll of the embryo
 genotypes for each males collected in Texas.
DOI: 10.5061/dryad.d191r
title: Data from: Invasion status and phylogenetic relatedness predict cost of heterospecific pollen receipt: implications for native biodiversity decline

description: Understanding the mechanisms by which invasive species affect native
 plants is a central challenge. Invasive plants have been shown to reduce
 pollinator visitation to natives and increase pollen quantity limitation.
 However, visitation and conspecific pollen delivery are only two
 components of the pollination process; post-pollination interactions on
 the stigma (heterospecific pollen [HP] receipt) could intensify
 pre-pollination responses to invasion. Here we used meta-analysis to test
 the hypotheses that invasive plants are more detrimental as HP donors than
 natives ones, and that HP donors that are closely related to the
 recipients have stronger effects on fruit and seed production compared to
 distantly related ones. Invasive HP donors reduced fruit and seed
 production of recipients to a greater degree than native ones, and this
 was more intense for HP donors closely related to natives. Related donors
 were more detrimental overall. Synthesis: These results suggest that the
 total effect of invasive plants on native plant reproductive success could
 be greater than what is inferred from visitation and conspecific pollen
 transfer alone. Furthermore, these results indicate that invasive species
 can reduce reproductive success of native species even if pollinator
 visitation rates remain unaltered. Thus, we highlight the need to evaluate
 pre- and post-pollination processes in order to fully understand the
 potential effects of invasive species on the reproductive success and
 maintenance of native plant populations.
description: Data on the effects of
 heterospecific pollen receiptData from analyses
 presented in Arceo-Gomez and Ashman 2016 "Invasion status and
 phylogenetic relatedness predict cost of heterospecific pollen receipt:
 implications for native biodiversity decline", published in Journal
 of Ecology. The data was collected from published literature on the
 effects of heterospecific pollen receipt and was used in
 meta-analysesData for submission
 JEcology_3_31_16.xlsx
DOI: 10.5061/dryad.01n20
title: Data from: Clinical efficacy of implantation of toric intraocular lenses with different incision positions: a comparative study of steep-axis incision and non-steep-axis incision

description: Background: To compare the clinical outcomes after implantation of AcrySof
 Toric IOLs with different clear corneal incisions. Methods: Sixty cataract
 patients with regular corneal astigmatism who underwent
 phacoemulsification combined with implantation of an AcrySof Toric IOL
 were enrolled. They were divided into two groups according to the position
 of the clear corneal incision: steep-axis and non-steep-axis. Main outcome
 measurements included visual acuity, residual astigmatism and changes of
 corneal astigmatism 3 months postoperatively. Deviation of IOL axis
 according to the re-calculation using the actual surgically induced
 astigmatism (SIA) and visual function 3 months after surgery were also
 evaluated. Results: The corneal astigmatism decreased significantly in
 steep-axis group 3 months postoperatively (P &lt; 0.05). Besides, more
 patients in non-steep-axis group were with irregular corneal astigmatism
 after the surgery (43.33% vs 10%, P = 0.004). The deviation of IOL axis
 according to the re-calculation using the actual SIA was significantly
 larger in non-steep-axis group than that of steep-axis group (P &lt;
 0.001). Moreover, the postoperative visual function was better in eyes of
 steep-axis group in various measurements, including point spread function,
 modulation transfer function and high-order aberrations. Conclusion:
 Steep-axis clear corneal incision could reduce the cylinder power of toric
 IOL and lower the chance of postoperative irregular astigmatism, which may
 consequently improve the postoperative visual quality.
description: toric
 data
DOI: 10.5061/dryad.608d7
title: Data from: Rapid human-induced divergence of life-history strategies in Bahamian livebearing fishes (family Poeciliidae)

description: 1. Human-induced rapid environmental change (HIREC) can have dramatic
 impacts on ecosystems, leading to rapid trait changes in some organisms
 and extinction in others. Such changes in traits signify that human
 actions can lead to cases of increased phenotypic diversity and
 consequently can strongly impact population-, community- and
 ecosystem-level dynamics. 2. Here, we examine whether the ecological
 consequences of habitat fragmentation have led to changes in the life
 histories of three native species of mosquitofish (Gambusia spp.)
 inhabiting tidal creeks on six different Bahamian islands. We address two
 important questions: (i) How predictable and parallel are life-history
 changes in response to HIREC across islands and species, and (ii) what is
 the relative importance of shared (i.e. parallel) responses to
 fragmentation, differences between species or islands and species- or
 island-specific responses to fragmentation? 3. Phenotypic differences
 between fragmentation regimes were as great or greater than differences
 between species or islands. While some adult life histories (lean weight
 and fat content) showed strong, shared responses to fragmentation,
 offspring-related life histories (embryo fat and fecundity) exhibited
 idiosyncratic, island-specific responses. While shared responses to
 fragmentation appeared largely driven by a reduction in piscivorous fish
 density, increased conspecific density and changes in salinity, we found
 some evidence that among-population variation in male reproductive
 investment and embryo fat content may have arisen via variation in
 conspecific density. 4. Our results suggest that phenotypic responses to
 HIREC can be complex, with the predictability of response varying across
 traits. We therefore emphasize the need for more theoretical and empirical
 work to better understand the predictability of phenotypic responses to
 human-induced disturbances.
description: Tidal Creek Gambusia:
 Life Histories and Environmental DataLife-history data for
 all three species of Gambusia and all six Bahamian islands, as well as
 environmental variables (Gambusia density, piscivore density,
 #competitors, salinity, pH, and dissolved oxygen) that characterize the 42
 sample sites.DRYAD_TidalCreekLifeHistories.xlsx
DOI: 10.5061/dryad.bp8jf84
title: Data from: Stress in biological invasions: introduced invasive grey squirrels increase physiological stress in native Eurasian red squirrels

description: 1. Invasive alien species can cause extinction of native species through
 processes including predation, interspecific competition for resources, or
 disease-mediated competition. Increases in stress hormones in vertebrates
 may be associated with these processes and contribute to the decline in
 survival or reproduction of the native species. 2. Eurasian red squirrels
 (Sciurus vulgaris) have gone extinct across much of the British Isles and
 parts of Northern Italy following the introduction of North American
 invasive grey squirrels (Sciurus carolinensis). We extracted
 glucocorticoid metabolites from faecal samples to measure whether the
 presence of the invasive species causes an increase in physiological
 stress in individuals of the native species. 3. We show that native red
 squirrels in seven sites where they co-occurred with invasive grey
 squirrels had glucocorticoid concentrations that were three times higher
 than those in five sites without the invasive species. Moreover, in a
 longitudinal study, stress hormones in native red squirrels increased
 after colonisation by grey squirrels. When we experimentally reduced the
 abundance of the invasive grey squirrels, the concentration of faecal
 glucocorticoid metabolites in co-occurring red squirrels decreased
 significantly between pre- and post-removal periods. 4. Hence, we found
 that the invasive species acts as a stressor which significantly increases
 the concentrations of glucocorticoids in the native species. 5. Given that
 sustained elevations in glucocorticoids could reduce body growth and
 reproductive rate, our results are consistent with previous studies where
 the co-occurrence of the invasive grey squirrel was associated with
 smaller size and lower reproductive output in red squirrels.
description: Sciurus vulgaris
 physiological stress datasetThe dataset includes
 capture data, biometrics and FGM concentrations for Eurasian red squirrels
 in study sites with and without the invasive species (Eastern grey
 squirrel). It contains a copy of the main data file used for this paper
 (for details see README file).Santicchia_et_al_data_def.xlsx
DOI: 10.5061/dryad.2sf64
title: Data from: Experimental confirmation that body size determines mate preference via phenotype matching in a stickleback species pair

description: Mate choice by phenotype matching, whereby individuals prefer a mate whose
 phenotype is similar to their own, should facilitate speciation with gene
 flow. This is because the genes that control mate signal (the phenotype
 being matched) also determine the preferred mate signal (‘mate
 preference’). Speciation is made even easier if phenotype matching is
 based on a trait under divergent natural selection. In this case,
 assortative mating should readily evolve as a by-product of divergent
 selection on the trait. Previous observational studies of assortative
 mating between sympatric, hybridizing threespine stickleback species
 (Gasterosteus aculeatus complex) suggested that phenotype matching might
 occur by body size, a trait under divergent natural selection. To test
 this we used experimental manipulation of body size to rule out the
 effects of confounding variables. We found that size-manipulated benthic
 and limnetic stickleback females prefer mates whose body size more closely
 matches their own. It is thus likely that assortative mating by phenotype
 matching has facilitated the origin and persistence of benthic and
 limnetic threespine sticklebacks in the face of gene flow.
description: mate choice trial
 dataAll data recorded from
 57 mate choice trails, reported and analyzed in the referenced article.
 (See ReadMe file for guide to column headings and
 classifications).Conte and Schluter - phenotype
 matching data.xlsx