cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.368284vr
title: Data from: The B-matrix harbours significant and sex-specific constraints on the evolution of multi-character sexual dimorphism

description: The extent to which sexual dimorphism can evolve within a population
 depends on an interaction between sexually divergent selection and
 constraints imposed by a genetic architecture that is shared between males
 and females. The degree of constraint within a population is normally
 inferred from the intersexual genetic correlation, rmf. However, such
 bivariate correlations ignore the potential constraining effect of genetic
 covariances between other sexually co-expressed traits. Using the fruit
 fly Drosophila serrata, a species that exhibits mutual mate preference for
 blends of homologous contact pheromones, we tested the impact of
 between-sex between-trait genetic covariances using an extended version of
 the genetic variance-covariance matrix, G, that includes Lande’s (1980)
 between-sex covariance matrix, B. We find that including B greatly reduces
 the degree to which male and female traits are predicted to diverge in the
 face of divergent phenotypic selection. However, the degree to which B
 alters the response to selection differs between the sexes. The overall
 rate of male trait evolution is predicted to decline, but its direction
 remains relatively unchanged, whereas the opposite is found in females. We
 emphasise the importance of considering the B-matrix in microevolutionary
 studies of constraints on the evolution of sexual dimorphism.
description: Sex, phenotype and
 mating success of 45 Inbred linesData collected from
 mating trials and the CHC phenotype of individuals from the trials.
 lc2-lc8 refer to the log contrast values of the 7 chc's of interest.
 Mate refers to the individual either being chosen (1) or rejected (0) in
 the binomial mating trial.B-matrix.xls
DOI: 10.5061/dryad.1cq8n52h
title: Data from: Integrating fuzzy logic and statistics to improve reliabile definition of biogeographic regions and transition zones

description: The present study uses the amphibian species of the Mediterranean Region
 to develop a consistent procedure based on fuzzy sets with which
 biogeographic regions and biotic transition zones can be objectively
 detected and reliably mapped. Biogeographical regionalizations are
 abstractions of the geographical organization of life on Earth that
 provide frameworks for cataloguing species and ecosystems, for answering
 basic questions in biogeography, evolutionary biology and systematics, and
 for assessing priorities for conservation. On the other hand, limits
 between regions may form sharply defined boundaries along some parts of
 their borders, whereas elsewhere they may consist of broad transition
 zones. The fuzzy set approach provided a heuristic way to analyze the
 complexity of the biota within an area; significantly different regions
 were detected whose mutual limits were sometimes fuzzy, sometimes clearly
 crisp. Most of the regionalizations described in the literature for the
 Mediterranean Region present a certain degree of convergence when they are
 compared within the context of fuzzy interpretation, as many of the
 differences found between regionalizations are located in transition
 zones, according to our case study. Compared to other classification
 procedures based on fuzzy sets, the novelty of our method is that both
 fuzzy logic and statistics are used together in a synergy in order to
 avoid arbitrary decisions in the definition of biogeographic regions and
 transition zones.
description: Data_filePresence/absence matrix of 112 amphibian species occurring in the Mediterranean Region throughout a system of operational geographic units (OGUs) based on river basins, by merging the Level 6 subdivisions of the US Geological Survey (1997) HYDRO1k data set for Europe and Africa. Distribution maps of the extent of occurrence for each amphibian species known to inhabit the study area were downloaded from the IUCN Red List of Threatened Species, version 2010.4 (http://www.iucnredlist.org, downloaded on 1 April 2010).
DOI: 10.5061/dryad.h0p04
title: Data from: Spatial heterogeneity of plant-soil feedbacks increases per capita reproductive biomass of species at an establishment disadvantage

description: Plant–soil feedbacks have been widely implicated as a driver of plant
 community diversity, and the coexistence prediction generated by a
 negative plant–soil feedback can be tested using the mutual invasibility
 criterion: if two populations are able to invade one another, this result
 is consistent with stable coexistence. We previously showed that two
 co-occurring Rumex species exhibit negative pairwise plant–soil feedbacks,
 predicting that plant–soil feedbacks could lead to their coexistence.
 However, whether plants are able to reproduce when at an establishment
 disadvantage (“invasibility”), or what drivers in the soil might correlate
 with this pattern, are unknown. To address these questions, we created
 experimental plots with heterogeneous and homogeneous soils using
 field-collected conditioned soils from each of these Rumex species. We
 then allowed resident plants of each species to establish and added
 invader seeds of the congener to evaluate invasibility. Rumex congeners
 were mutually invasible, in that both species were able to establish and
 reproduce in the other’s resident population. Invaders of both species had
 twice as much reproduction in heterogeneous compared to homogeneous soils;
 thus the spatial arrangement of plant–soil feedbacks may influence
 coexistence. Soil mixing had a non-additive effect on the soil bacterial
 and fungal communities, soil moisture, and phosphorous availability,
 suggesting that disturbance could dramatically alter soil legacy effects.
 Because the spatial arrangement of soil patches has coexistence
 implications, plant–soil feedback studies should move beyond studies of
 mean effects of single patch types, to consider how the spatial
 arrangement of patches in the field influences plant communities.
description: Fecundity_2013Fecundity_2014soil-het-expt-patch-planRumex_soilNutsRUMEX_PlanBact_TRFLP_dataFun_TRFLP_dataTRFLP_RUMEX_PlanTemporalSoilMoistureGreenhouse_Germ
DOI: 10.5281/zenodo.18381811
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Jared Potter Kirtland, http://www.wikidata.org/entity/Q3162705. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q3162705
DOI: 10.5281/zenodo.8100987
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Jared Potter Kirtland, http://www.wikidata.org/entity/Q3162705. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q3162705
DOI: 10.25934/pr00012542.0
title: Available datapackage for study 'A Rapid Breathalyzer Diagnostics Platform for COVID-19'

description: Vivli is an independent, non-profit organization that has developed a global data-sharing and analytics platform to serve all elements of the international research community. Our mission is to promote, coordinate, and facilitate scientific sharing and reuse of clinical research data through the creation and implementation of a sustainable global data-sharing enterprise. The Vivli platform includes an independent data repository, in-depth search engine and a cloud-based, secure analytics platform.
DOI: 10.5061/dryad.s8f6h
title: Data from: Drivers of landscape evolution: multiple regimes and their influence on carbon sequestration in a sub-tropical peatland

description: Typically, restoration goals target a point in history, i.e., pre-human
 influence state, however, ecosystems are dynamic and restoration goals
 must consider the potential evolution of the system, along with primary
 causes of landscape degradation and the resultant resilience. Using the
 Everglades as a case study, known disturbances were linked to
 biogeochemical and vegetation patterns to compare the divergence of the
 anthropogenically impacted landscape from that expected during natural
 peatland evolution. Specifically, landscape soil biogeochemistry of ~ 1100
 sites was examined in context of hydroperiod, spatial and temporal trends
 in water quality from the 1940′s through present, elevation, and
 vegetation communities. This provided a link between carbon (C)
 accumulation and the influence of anthropogenic alterations. The network
 of canals created to manage water resulted in a greater ratio of surface
 water to rainfall contribution to the water budget, restored connectivity
 of groundwater to surface water, and facilitated overdrainage and mineral
 and nutrient enrichment of the ecosystem, causing multiple regime shifts
 and evidence of C loss. This study suggests that restoration can promote
 the accumulation of minerotrophic peats, but it is difficult to recreate
 the trajectory towards the ombrotrophic peatland, one of the end members
 and most C rich portions of the ecosystem, given changes in source waters
 and connectivity. In addition, a comparison with the literature and
 paleoecological data confirmed that while phosphorus (P) and C
 accumulation are positively related, even relatively small increases in P
 content reduced the proportional C content of peat soils. Overall, this
 study highlights the need to consider the potential natural trajectories
 of landscape development, the multiple coexisting resultant regimes, and
 the importance of soil biogeochemical properties when establishing and
 prioritizing restoration goals. Given the resilience and feedback loops of
 the anthropogenically impacted areas, active management of these areas may
 be necessary if we are to restore the vegetation community composition and
 biogeochemical characteristics to those of natural regimes, however, some
 legacy effects will constrain future restoration efforts.
description: Newman_etal_Ecol.Mono_DataThis file contains soils and vegetation composition data collected in 2003 from ~1100 sites throughout the Everglades wetland landscape. Sampling was restricted to marsh sites, tree islands were not sampled. Units are within the file and noted at the top of each column.Newman_etal_EcolMono_Data.csv
DOI: 10.5061/dryad.gk87k
title: Data from: It is lonely at the front: contrasting evolutionary trajectories in male and female invaders

description: Invasive species often exhibit rapid evolutionary changes, and can provide
 powerful insights into the selective forces shaping phenotypic traits that
 influence dispersal rates and/or sexual interactions. Invasions also may
 modify sexual dimorphism. We measured relative lengths of forelimbs and
 hindlimbs of more than 3000 field-caught adult cane toads (Rhinella
 marina) from 67 sites in Hawai'i and Australia (1–80 years
 post-colonization), along with 489 captive-bred individuals from multiple
 Australian sites raised in a ‘common garden’ (to examine heritability and
 reduce environmental influences on morphology). As cane toads spread from
 east to west across Australia, the ancestral condition (long limbs,
 especially in males) was modified. Limb length relative to body size was
 first reduced (perhaps owing to natural selection on locomotor ability),
 but then increased again (perhaps owing to spatial sorting) in the
 invasion vanguard. In contrast, the sex disparity in relative limb length
 has progressively decreased during the toads' Australian invasion.
 Offspring reared in a common environment exhibited similar geographical
 divergences in morphology as did wild-caught animals, suggesting a genetic
 basis to the changes. Limb dimensions showed significant heritability
 (2–17%), consistent with the possibility of an evolved response. Cane toad
 populations thus have undergone a major shift in sexual dimorphism in
 relative limb lengths during their brief (81 years) spread through
 tropical Australia.
description: Hudson_Toad
 MorphologyBody size measures from
 Wild caught and Common Garden reared cane toads. Time since colonisation
 (TSC group) indicates how long toad populations had been established at
 the time morphological measurements were made
DOI: 10.5281/zenodo.18381810
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by James Stewart Hine, http://www.wikidata.org/entity/Q1681128. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q1681128
DOI: 10.5281/zenodo.8035140
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by James Stewart Hine, http://www.wikidata.org/entity/Q1681128. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q1681128
DOI: 10.5061/dryad.np084
title: Data from: The evolution of labile traits in sex- and age-structured populations

description: Many quantitative traits are labile (e.g. somatic growth rate,
 reproductive timing and investment), varying over the life cycle as a
 result of behavioural adaptation, developmental processes and plastic
 responses to the environment. At the population level, selection can alter
 the distribution of such traits across age classes and among generations.
 Despite a growing body of theoretical research exploring the evolutionary
 dynamics of labile traits, a data-driven framework for incorporating such
 traits into demographic models has not yet been developed. Integral
 projection models (IPMs) are increasingly being used to understand the
 interplay between changes in labile characters, life histories and
 population dynamics. One limitation of the IPM approach is that it relies
 on phenotypic associations between parents and offspring traits to capture
 inheritance. However, it is well-established that many different processes
 may drive these associations, and currently, no clear consensus has
 emerged on how to model micro-evolutionary dynamics in an IPM framework.
 We show how to embed quantitative genetic models of inheritance of labile
 traits into age-structured, two-sex models that resemble standard IPMs.
 Commonly used statistical tools such as GLMs and their mixed model
 counterparts can then be used for model parameterization. We illustrate
 the methodology through development of a simple model of egg-laying date
 evolution, parameterized using data from a population of Great tits (Parus
 major). We demonstrate how our framework can be used to project the joint
 dynamics of species' traits and population density. We then develop a
 simple extension of the age-structured Price equation (ASPE) for two-sex
 populations, and apply this to examine the age-specific contributions of
 different processes to change in the mean phenotype and breeding value.
 The data-driven framework we outline here has the potential to facilitate
 greater insight into the nature of selection and its consequences in
 settings where focal traits vary over the lifetime through ontogeny,
 behavioural adaptation and phenotypic plasticity, as well as providing a
 potential bridge between theoretical and empirical studies of labile trait
 variation.
description: Vital rate data
 (survival and reproduction)See
 READMEvital_rates.csvTrait data (first egg laying date synchrony)see READMEegg_lay_sync.csvPedigree datasee READMEpedigree.csv
DOI: 10.5061/dryad.8fq4mf6
title: Data from: Speciation rate is independent of the rate of evolution of morphological size, shape, and absolute morphological specialization in a large clade of birds

description: Whether ecological differences between species evolve in parallel with
 lineage diversification is a fundamental issue in evolutionary biology.
 These processes might be connected if conditions that favor the
 proliferation of species, such as release from competitors, facilitate the
 evolution of novel ecological relationships. Despite this, phylogenetic
 studies do not consistently identify such a connection. Conversely, if
 higher diversity caused species to become increasingly specialized
 ecologically, lineage diversification might become dissociated from
 ecological diversification. In this analysis, we ask whether the rate of
 lineage diversification in a large clade of birds is correlated with
 morphological specialization and with rates of morphological evolution. We
 find that morphological variation is related to species richness within
 clades, but that the rate of morphological evolution is decoupled from the
 rate of lineage diversification. Additionally, morphological
 specialization within lineages is independent of the rate at which
 lineages diversify, with the results apparently robust against false
 negative inference. This dissociation is likely a consequence of the major
 ecomorphological differences between avian clades arising early in their
 evolutionary history, with comparatively little variation added
 subsequently, while avian diversification has been driven predominantly by
 geographic isolation and sexual selection. Accordingly, biodiversity
 appears to be limited by the extent to which taxa can subdivide exploited
 regions of ecological space, and not just overall ecological opportunity.
description: morphoFullTaxoThe morphological data, log-transformed, used in the analysis
DOI: 10.5281/zenodo.18381813
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Reinhold Wilhelm Buchholz, http://www.wikidata.org/entity/Q3423916. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q3423916
DOI: 10.5061/dryad.4jf42ct4
title: Data from: Vertical and horizontal photobiont transmission within populations of a lichen symbiosis

description: Lichens are widespread symbioses and play important roles in many
 terrestrial ecosystems. The genetic structure of lichens is the result of
 the association between fungal and algal populations constituting the
 lichen thallus. Using eight fungus- and seven alga-specific highly
 variable microsatellite markers on within-population spatial genetic data
 from 62 replicate populations across Europe, North America, Asia and
 Africa, we investigated the contributions of vertical and horizontal
 transmission of the photobiont to the genetic structure of the epiphytic
 lichen Lobaria pulmonaria. Based on pairwise comparisons of multi-locus
 genotypes defined separately for the mycobiont and for the photobiont, we
 inferred the transmission mode of the photobiont and the relative
 contribution of somatic mutation and recombination. After constraining the
 analysis of one symbiont to pairs of individuals with genetically
 identical symbiotic partners, we found that 77 % of fungal and 70 % of
 algal pairs were represented by clones. Thus, the predominant dispersal
 mode was by means of symbiotic vegetative propagules (vertical
 transmission), which dispersed fungal and algal clones co-dependently over
 a short distance, thus shaping the spatial genetic structure up to
 distances of 20 m. Evidence for somatic mutation generating genetic
 diversity was found in both symbionts, accounting for 30 % of pairwise
 comparisons in the alga and 15 % in the fungus. While the alga did not
 show statistically significant evidence of recombination, recombination
 accounted for 7.7 % of fungal pairs with identical algae. This implies
 that, even in a mostly vegetatively reproducing species, horizontal
 transmission plays a role in shaping the symbiotic association, as shown
 in many coral and other symbioses in nature.
description: DalGrande et
 al_2012Multilocus genotypes and
 coordinates for each thallus of Lobaria pulmonaria in 64
 populations
DOI: 10.5281/zenodo.18381812
title: Natural history specimens collected and/or identified and deposited.

description: Natural history specimen data collected and/or identified by Nikolay Przhevalsky, http://www.wikidata.org/entity/Q192442. Claims or attributions were made on Bionomia, https://bionomia.net using specimen data from the Global Biodiversity Information Facility, https://gbif.org.
description: http://www.wikidata.org/entity/Q192442
DOI: 10.5061/dryad.bq868sh
title: Data from: A high quality pedigree and genetic markers both reveal inbreeding depression for quality but not survival in a cooperative mammal

description: Inbreeding depression, the reduced fitness of offspring of closely related
 parents, is commonplace in both captive and wild populations and has
 important consequences for conservation and mating system evolution.
 However, because of the difficulty of collecting pedigree and life history
 data from wild populations, relatively few studies have been able to
 compare inbreeding depression for traits at different points in the life
 cycle. Moreover, pedigrees give the expected proportion of the genome that
 is identical by descent (IBDg) whereas in theory with enough molecular
 markers realised IBDg can be quantified directly. We therefore
 investigated inbreeding depression for multiple life-history traits in a
 wild population of banded mongooses using pedigree-based inbreeding
 coefficients (fped) and standardised multilocus heterozygosity (sMLH)
 measured at 35-43 microsatellites. Within an information theoretic
 framework, we evaluated support for either fped or sMLH as inbreeding
 terms and used sequential regression to determine whether the residuals of
 sMLH on fped explain fitness variation above and beyond fped. We found no
 evidence of inbreeding depression for survival, either before or after
 nutritional independence. By contrast, inbreeding was negatively
 associated with two quality related traits, yearling body mass and annual
 male reproductive success. Yearling body mass was associated with fped but
 not sMLH, while male annual reproductive success was best explained by
 both fped and residual sMLH. Thus, our study not only uncovers variation
 in the extent to which different traits show inbreeding depression, but
 also reveals trait-specific differences in the ability of pedigrees and
 molecular markers to explain fitness variation and suggests that for
 certain traits genetic markers may capture variation in realised IBDg
 above and beyond the pedigree expectation.
description: Supporting data and R
 codeContains the data (.csv)
 and R code for the analysis of inbreeding depression in juvenile survival,
 adult survival, yearling body mass, and annual reproductive success.
 Additionally it contains the genotyping data, microsatellite error rates,
 pedigree underlying these analyses, as well as code to assess
 heterozygosity bias in a pedigree generated by MasterBayes. Finally the R
 code to assess the effect of marker number and local effects on male
 annual reproductive success is also provided.Dryad_Wells_et_al_mungo_f_het_180305.zip