cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1hj56/1
title: Seed removal data in the Brazilian Cerrado

description: Data on the number of seed removed of 12 common Cerrado woody species in sites with and without foraging activity of the leaf-cutter ants Atta laevigata (Myrmecinae: Attini) in a Brazilian Cerrado area.
DOI: 10.5061/dryad.1hj56/2
title: Seedling survival data in the Brazilian Cerrado

description: Data on the survival of 1440 seedlings of 12 common Cerrado woody species planted in plots with and without exclusion of the leaf-cutter ants Atta laevigata (Myrmecinae: Attini) in a Brazilian Cerrado area.
DOI: 10.5061/dryad.326r8/83
title: Assembled scaffolds for Perca fluviatilis
DOI: 10.5061/dryad.326r8/84
title: Assembled unitigs for Perca fluviatilis
DOI: 10.5061/dryad.326r8/85
title: Assembled scaffolds for Sebastes norvegicus
DOI: 10.5061/dryad.326r8/86
title: Assembled unitigs for Sebastes norvegicus
DOI: 10.5061/dryad.326r8/87
title: Assembled scaffolds for Chaenocephalus aceratus
DOI: 10.5061/dryad.326r8/88
title: Assembled unitigs for Chaenocephalus aceratus
DOI: 10.5061/dryad.326r8/89
title: Assembled scaffolds for Borostomias antarcticus
DOI: 10.5061/dryad.326r8/90
title: Assembled unitigs for Borostomias antarcticus
DOI: 10.5061/dryad.326r8/91
title: Assembled scaffolds for Benthosema glaciale
DOI: 10.5061/dryad.4s209/1
title: Sampling data

description: Data was collected in the field.
DOI: 10.5061/dryad.4s209/2
title: Spatial data for site locations.
DOI: 10.5061/dryad.5ps58/1
title: simulation code

description: This file contains C++ code which can be compiled in order to run the simulations described in the paper.
DOI: 10.5061/dryad.815rj.2
title: Data from: Unidirectional diploid–tetraploid introgression among British birch trees with shifting ranges shown by restriction site-associated markers
DOI: 10.5061/dryad.815rj.2/1.2
title: Genotyping method (mixed ploidy dataset)

description: This script allows the genotyping of a mixed ploidy data set (including polyploids). It is based on read counts and average base quality. The algorithm calculates the most likely variant configuration at each locus using a log-likelihood model.
DOI: 10.5061/dryad.815rj.2/2.2
title: Beta-binomial model for allelic ratios

description: Function to model number of reads per SNP allele as a mixture of beta-binomial distributions. The data are censored to be between two cutoff values.
DOI: 10.5061/dryad.815rj.2/3.2
title: Analyses used in present study

description: Collection of scripts used for analyses in the present study.
DOI: 10.5061/dryad.815rj.2/4.2
title: Plotting of figures

description: Collection of scripts used for plotting figures in the present study.
DOI: 10.5061/dryad.815rj.2/5.2
title: Betula RAD reference sequence

description: These sequences were concatenated and used as a reference for the mapping of the 213 RAD individuals.
DOI: 10.5061/dryad.958mj/1
title: Hind Tibia Perfume matrix

description: Compounds in perfume (in perfect contribution) in the hind tibia of individual orchid bees used in the study
DOI: 10.5061/dryad.958mj/2
title: Labial gland compounds

description: Compounds in labial glands (in perfect contribution) of individual orchid bees used in the study
DOI: 10.5061/dryad.b1m1h/4
title: Sequence data

description: 16S alpha, beta diversity indices, and oligotrophic, copiotrophic group abundances
DOI: 10.5061/dryad.b4vg0/14
title: Figure S6 data
DOI: 10.5061/dryad.b4vg0/18
title: Figure S11 data

description: Distance matrix between interaction parameters estimated by the probabilistic modeling for the different clusters.
DOI: 10.5061/dryad.b4vg0/19
title: Figure S12 data

description: Metadata required to run the regression tree analysis
DOI: 10.5061/dryad.d9v45/5
title: DinoflagellatesMitoticIndex

description: This file contains the number of single and doublet of dinoflagellate cells, counted in several tissue sections at the four life stages (3 replicates per life stage). Total number of symbionts and corresponding mitotic index are calculated.
DOI: 10.5061/dryad.n8c57/1
title: Genetic pedigree of the southern Quebec tree swallow population

description: Genetic pedigree constructed with Cervus based on microsatellite data.
DOI: 10.5061/dryad.n8c57/2
title: Social pedigree of the southern Quebec tree swallow population

description: Social pedigree based on field observations.
DOI: 10.5061/dryad.n8c57/3
title: Empirical dataset of the southern Quebec tree swallow population

description: Empirical dataset used to estimate and simulate quantitative genetic parameters. Column headings are individual ids (ID), year (YEAR), stade (STADE),brood ids (BROOD), sex (SEX), age (AGE), female age (AGEF), wing length (WL), Julian day for wing length measurement (WLJJ), body mass (MASS), brood number for body mass measurement (MASSNCOUV), Julian day for body mass measurement (MASSJJPONTE), hour for body mass measurement (MASSHOUR), tarsus length (TARSUS), laying date (LD), clutch size (CS), incubation duration (INC),  nestling body mass (MASSJ16), nestling wing length (WLJ16), nestlong tarsus length (TARSEJ16), hour of measurement for nestling measurement (HOUR.J16), Julian day for nestling measurement (JJ.J16).
DOI: 10.5061/dryad.n8c57/4
title: Simulation results for the southern Quebec tree swallow population

description: Simulation results for the southern Quebec tree swallow population. Column headings are simulated values of genetic/environmental correlation and heritability (SIM_covA, SIM_covE, SIM_H), repetition number (N), pedigree type (PED), set of simulated data (SET; 1: simple univariate model; 2: multivariate model; 3a: univariate model with multiple sources of variance; 3b: univariation model without accounting for an important source of variance), analysis type (MOD), trait category (CAT; C1: morphological; C2: reproductive; C3: nestling), trait (TRAIT), and results from animal models (all other columns).
DOI: 10.5061/dryad.q3nn7/1
title: Data for figures 1 and 2 RSOS paper1700-1919

description: Summary data from icelandic genealogy
DOI: 10.5061/dryad.qt26f/1
title: TMC.tar

description: Here we provide executable code for TMC algorithm, instructions for usage, input/output data formats and few examples
DOI: 10.5061/dryad.s4bt7/1
title: Survival, Inflorescence production and Biomass Data for Kleynhans et. al.

description: This data was collected through a reciprocal transplant experiment conducted on Poa pratensis (Kentucky bluegrass) plants that were selected in communities of low and high species richness in ambient and elevated CO2 concentrations for 14 years. Following selection, seeds were collected from each of these treatments propagated in common garden conditions and then transplanted back into each of these treatments The experiment was conducted in BioCON at the Cedar Creek Ecosystem Science Reserve in Minnesota in 2012 and 2013. This data file contains survival, inflorescence production, aboveground, belowground and total biomass data for the transplanted Poa pratensis plants that survived for longer than the first month of the experiment and were not burned in a run away fire.
DOI: 10.5061/dryad.v176m.1
title: Data from: Genotype reconstruction of paternity in European lobsters (Homarus gammarus)
DOI: 10.5061/dryad.v176m.2
title: Data from: Genotype reconstruction of paternity in European lobsters (Homarus gammarus)
DOI: 10.5061/dryad.v176m.2/1.2
title: Microsatellite genotypes of European lobsters

description: Genotype data at up to 15 microsatellite loci for 612 lobsters from 28 locations. The first 312 samples at top comprise fine-scale samples all taken within Cornwall, UK, and have also been used to calculate regional allele frequencies in the 2015 PLOS ONE publication by Ellis et al; Genotype Reconstruction of Paternity in European Lobsters (Homarus gammarus). The next 300 individuals comprise broad-scale European population genetic samples.
DOI: 10.5061/dryad.v176m.2/2.2
title: European lobster genotypic progeny arrays

description: 34 European lobster (Homarus gammarus) progeny arrays, 10 embryo and 1 maternal sample were genotyped at 15 microsatellite loci (2 of which were discarded from the analysis due to the presence of null alleles) to reconstruct the paternal genotype(s) present in each clutch.
DOI: 10.5061/dryad.13jv6/1
title: Selection analysis and covariance among traits data

description: Total lifetime reproductive output data used to determine the strength and direction of selection on metabolic rate. Growth, longevity and age at onset of reproduction data used to determine the relationship between metabolic rate and life-history traits.
DOI: 10.5061/dryad.1cf8p/20
title: Operational sex ratio analyses (R script)

description: Analyses of Valeriana edulis operational sex ratios across the species' elevation range and over time (1978-2011).
DOI: 10.5061/dryad.1cf8p/21
title: Reproductive life expectancy (R script)

description: Analysis of sex differences in Valeriana edulis life expectancy upon reaching sexual maturity and population operational sex ratios.
DOI: 10.5061/dryad.1cf8p/22
title: Water use efficiency (R script)

description: Analysis of Valeriana edulis sex differences in integrated water use efficiency and population operational sex ratios.
DOI: 10.5061/dryad.1cf8p/23
title: Mating function (R script)

description: Estimation of the mating function – how local operational sex ratio affects female reproductive success – of Valeriana edulis. This script includes a simulation of pollen limitation across a range of operational sex ratios.
DOI: 10.5061/dryad.1cf8p/24
title: Paces of species range shifts (R script)

description: Meta-analysis of montane plant species range shifts in response to climate change.
DOI: 10.5061/dryad.1kf36/1
title: SeymourFronhoferAltermatt_RawData_Oikos_2015

description: Raw species count data file with the following columns; 1)TimePoint is a factor indicating the sequential sampling time point  2)LandscapeType is a factor indicating the microcosm network type (linear or dendritic) 3)LandscapeID is a factor indicating the unique microcosm ID 4)NetworkPair is a factor indicating the Linear/Dendritic network pair - please refer to the publication for details. 5)PatchNumber is a factor indicating the sampling location within the microcosm network - please refer to the publication for details. 6)DateSampled is the date the sampling occurred in dd.mm.yy format 7-21) are the species count numbers for each sampling event with the names corresponding to Table A1 in the publication appendix. (http://www.oikosjournal.org/sites/oikosjournal.org/files/appendix/oik-02354_0.pdf)
DOI: 10.5061/dryad.1q994/1
title: Supplementary Material

description: This file includes Supplementary Texts S1-S2, Supplementary Figures S1-S8, Supplementary Tables S1, S3-S15, and Supplementary References.
DOI: 10.5061/dryad.1q994/2
title: Supplementary Table S2

description: This file includes Supplementary Table S2.
DOI: 10.5061/dryad.1q994/3
title: Time-Calibrated Teleost Phylogeny

description: Teleost phylogeny of Figure 4 and Supplementary Figure S7 in Nexus format.
DOI: 10.5061/dryad.1q994/4
title: Supplementary Data S1

description: This file includes Supplementary Data S1.
DOI: 10.5061/dryad.326r8/92
title: Assembled unitigs for Benthosema glaciale
DOI: 10.5061/dryad.326r8/93
title: Assembled scaffolds for Rondeletia loricata
DOI: 10.5061/dryad.326r8/94
title: Assembled unitigs for Rondeletia loricata
DOI: 10.5061/dryad.326r8/95
title: Assembled scaffolds for Beryx splendens
DOI: 10.5061/dryad.326r8/96
title: Assembled unitigs for Beryx splendens
DOI: 10.5061/dryad.326r8/97
title: Assembled scaffolds for Neoniphon sammara
DOI: 10.5061/dryad.326r8/98
title: Assembled unitigs for Neoniphon sammara
DOI: 10.5061/dryad.326r8/99
title: Assembled scaffolds for Monocentris japonica
DOI: 10.5061/dryad.609hp/1
title: TableS1 Stable isotope results C. capillata

description: Latitude, Longitude, Weight, Bell diameter, stable isotope (d15N, d13C) and CN ratio for individual C. capillata sampled across the North Sea in Sept 2015
DOI: 10.5061/dryad.609hp/2
title: TableS2 Stable isotope data from herring from the North Sea

description: Locations of capture (lat, long) and stable isotope (d13C d15N) values for herring caught across the North Sea in Sept. 2011
DOI: 10.5061/dryad.7g8q2/1
title: Phenotypic selection data

description: Excel file containing standardized trait values and relative fitness for all individuals in the four treatments in the factorial experiment conducted in 2014
DOI: 10.5061/dryad.7t5r1/1
title: Most advanced oocytes recorded

description: Most advanced oocyte recorded amongst ovaries dissected from Drosophila melanogaster females subjected to dormancy inducing conditions as described in lines 341-358 in results section of manuscript.
DOI: 10.5061/dryad.7t5r1/2
title: Fecundity and viability of dormancy exposed flies and controls

description: Number of ova produced by individual Drosophila melanogaster females subjected to dormancy inducing conditions and numbers of viable F1 offspring arising from those ova ("Dormancy_exposed" worksheet), and number of ova produced / viable F1 offspring arising from unexposed control individuals ("Controls" worksheet) as described in lines 354-389 of manuscript.
DOI: 10.5061/dryad.815rj.1
title: Data from: Unidirectional diploid–tetraploid introgression among British birch trees with shifting ranges shown by restriction site-associated markers
DOI: 10.5061/dryad.815rj.2/6.2
title: Input file for STRUCTURE analysis

description: This file was used to analyse the RAD data in STRUCTURE. The first row contains loci names, the first column individual names, the second column population identifiers, missing data is encoded as "-9", and the ploidy is four.
DOI: 10.5061/dryad.815rj.2/7.2
title: Input file for PCA etc.

description: This R object is the basis of many of the analyses performed in the present study. E.g. the Principal Component Analysis and the calculation of Fst values.
DOI: 10.5061/dryad.8583t/1
title: Hilling_et_al_Table_S1

description: Details on individual sampling events for channel catfish Ictalurus punctatus in Cheat Lake, West Virginia. Dates provided were from the year 2014. Water temperatures presented were measured by the USGS water gauge on the Cheat River at Albright, West Virginia at 2400 hours. Gear was denoted as EGN (experimental gill nets), HN (hoop nets), GN (46 m gill nets) and BEF (boat electrofishing). See text for thorough explanations of net dimensions.
DOI: 10.5061/dryad.8583t/2
title: Hilling_et_al_DataA1

description: Data and working files for length-at-age, diet, relative weight and relative growth index from Cheat Lake, West Virginia channel catfish collected from 5 August to 4 December 2014.
DOI: 10.5061/dryad.bm562/1
title: Avian WZ Supplemental Table and References

description: W/Z chromosome size ratios from karyotypes, also listing number of substitutions per site from Hackett et al. (2008) and source files for karyotypes. Data presented for size ratios include length, area, and optical density ratios.
DOI: 10.5061/dryad.cq7t1/1
title: Cage Experiment

description: Contains raw survival data and models as coded in R; sequenced clones from qPCR primers; consensus DWV genomes from A and B inocula (derived from illumina libraries M2 and M1 respectively); and qPCR data
DOI: 10.5061/dryad.g2fd2/1
title: Correlation coefficients for the abundance-suitability relationship

description: In this file we provided the correlation coefficients between abundance and environmental suitability (column "best") for 450 species (column "species") obtained in thirty studies (column "author"). Sample size, type of niche (environmental or climatic), taxa (invertebrate, vertebrate or plant), family, type of method used to derive suitability (column "method"), and scale (large = &gt;50% of a species range, small = &lt;50% of a species range) are also provided.
DOI: 10.5061/dryad.g4t3s/1
title: ExperimentalNestDensity_Data

description: This file contains the data used in nest density analyses - experimental swards.A full description of the data is contained in the Readme sheet of the file.
DOI: 10.5061/dryad.g4t3s/2
title: ExperimentalSward_QuadratData_NRateTreatment

description: This file contains the quadrat-level sward data for the experimental sward nitrogen rate treatments. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/3
title: ExperimentalSward_QuadratData_SeedRateTreatment

description: This file contains the quadrat-level sward data for the experimental sward seed rate treatments. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/4
title: ExperimentalSward_SubquadratData_NRateTreatment

description: This file contains the subquadrat-level sward data for the experimental sward nitrogen rate treatments. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/5
title: ExperimentalSward_SubquadratData_SeedRateTreatment

description: This file contains the subquadrat-level sward data for the experimental sward seed rate treatments. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/6
title: ModelInputData

description: This file contains the input data for the population model. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/7
title: NestSiteSelection_Data

description: This file contains the data used for nest site selection analyses. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/8
title: NestSurvival_Data

description: This file contains the data used for nest, clutch and brood survival analyses. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.g4t3s/9
title: Renesting_Data

description: This file contains the data used for re-nesting rate analyses. A full description of the data is contained in the Readme sheet of the file
DOI: 10.5061/dryad.js880/1
title: Mitotic spindle traits in C. elegans

description: The data included in this file are the raw measurements for 19 traits associated with the first mitotic cell division.  The first column is the Species (C. elegans),  the second column is the Genotype (N2 MA line, PB306 MA line, or wild isolate); the third column is the Strain designation, the fourth column is the Treatment (MA control, MA line, or wild isolate), the fifth column is the Line number, the sixth column is the Replicate number,  and the remaining columns are the traits.  The traits are described in the Methods and Materials of the associated publication.
DOI: 10.5061/dryad.nt65q/1
title: RAD3.txt

description: Fastq data file
DOI: 10.5061/dryad.qs1h4/1
title: MARIN_Mistassini_lake trout

description: All genetic, morphological and ecological data used for analyses in Striking Phenotypic Variation Yet Low Genetic Differentiation in Sympatric Lake Trout (<i>Salvelinus namaycush<i>). The file contains genotypes, relative warp scores, total length (mm), mass (g), colour, depth (m below surface), basin and sector.</i></i>
DOI: 10.5061/dryad.rd927/1
title: 2016-08-25 Fast Walstrom Outlaw Supplemental File.docx
DOI: 10.5061/dryad.326r8/100
title: Assembled unitigs for Monocentris japonica
DOI: 10.5061/dryad.326r8/101
title: Assembled scaffolds for Acanthochaenus luetkenii
DOI: 10.5061/dryad.326r8/102
title: Assembled unitigs for Acanthochaenus luetkenii
DOI: 10.5061/dryad.326r8/103
title: Assembled scaffolds for Stylephorus chordatus
DOI: 10.5061/dryad.326r8/104
title: Assembled unitigs for Stylephorus chordatus
DOI: 10.5061/dryad.326r8/105
title: Assembled scaffolds for Spondyliosoma cantharus
DOI: 10.5061/dryad.326r8/106
title: Assembled unitigs for Spondyliosoma cantharus
DOI: 10.5061/dryad.326r8/107
title: Assembled scaffolds for Thunnus albacares
DOI: 10.5061/dryad.3kd7c/1
title: Global mammal betadiversity 1

description: R file containing values for taxonomic, phylogenetic and trait turnover calculated for all terrestrial mammals at 1-degree grid-cell resolution. Environmental dissimilarities, geographic distances and realm / biome information is also provided. The files can be combined using HJ-Split.
DOI: 10.5061/dryad.3kd7c/2
title: Global mammal betadiversity 2
DOI: 10.5061/dryad.3kd7c/3
title: Global mammal betadiversity 3
DOI: 10.5061/dryad.3kd7c/4
title: Global mammal betadiversity 4
DOI: 10.5061/dryad.3kd7c/5
title: Global mammal betadiversity 5
DOI: 10.5061/dryad.601fd/1
title: Bahl et al H9 Dataset
DOI: 10.5061/dryad.601fd/2
title: Bahl et al H3 Dataset
DOI: 10.5061/dryad.601fd/3
title: Bahl et al H6 Dataset
DOI: 10.5061/dryad.601fd/4
title: SuppDataFile2 - Sequence Metadata

description: This file contains all the associated metadata used in the ancestral reconstruction of discrete geographic states.
DOI: 10.5061/dryad.609hp/3
title: Jennings.2001

description: Stable isotope data (lipid corrected d13C, d15N) from queen scallops published in Jennings & Warr 2003 and Barnes et al., 2009
DOI: 10.5061/dryad.60s10/1
title: Figure_S1

description: Toy example illustrating the construction of the spectral density for a hypothetical phylogeny. Top: example phylogeny. Middle: computation of the MGL. Each non-diagonal element (i, j) in the MGL Λ is equal to the negative of the branch length between nodes i and j. Each diagonal element i is computed as the sum of branch lengths between node i and all other nodes j. Bottom: the spectral density is obtained by convolving the λ calculated from Λ with a smoothing function.
DOI: 10.5061/dryad.60s10/2
title: Figure_S2

description: Speciation values for diversification models. Birth-death trees were constructed according to one of six diversification models: increasing speciation, decreasing speciation, decreasing speciation below extinction; and constant speciation-extinction with (i) ancient mass-extinction (0.1 survival probability), (ii) recent mass-extinction (0.1 survival probability), or (iii) no mass-extinction. For all models, μ = 0.05.
DOI: 10.5061/dryad.60s10/3
title: Figure_S3

description: Interpreting spectral density profiles For trees simulated under a constant birth-death model (open circle), the principal λ for the MGL is a good predictor of species richness (a) and phylogenetic diversity (b); there is a significant positive relationship between skewness and the γ statistic (c) and no significant relationship between kurtosis and the Colless index (d). The principal λ for the nMGL shows no significant relationship with species richness (a, inset) and a significantly negative relationship with phylogenetic diversity (b, inset). Only significant slopes are shown.
DOI: 10.5061/dryad.60s10/4
title: Figure_S4

description: Principal components analysis of simulated trees using traditional summary statistics. (a) K-medoids and (b) hierarchical clustering on principal components derived from mean branch length, branch length standard deviation, ln species richness, ln phylogenetic diversity, the Colless index, and γ calculated for 600 trees simulated under different diversification models. Both hierarchical clustering (bootstrap probability &gt; 0.95) and k-medoids clustering (P &lt; 0.05) extract three clusters of trees. Shape and color correspond to cluster assignment.
DOI: 10.5061/dryad.60s10/5
title: Figure_S5

description: Clustering on principal components and spectral density profiles from the nMGL. (a) Hierarchical clustering on spectral density profiles and (b) k-medoids clustering on principal components are computed as in Figure 3, except based on the nMGL. In (A), hierarchical clustering on the spectral density profile identified six clusters of trees (bootstrap probability &gt; 0.95), each corresponding to a distinct underlying diversification model, whose property in terms of speciation-extinction rate variation is summarized in the left column. In (b), only four significant clusters were identified (P &lt; 0.05).