cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1q88j/4
title: Biomass_Herb_Total

description: Plot-level estimates of total above-ground biomass over the study period (1979 to 2008) for all herbaceous species (see Appendix A for species classification). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1979, 1980, 1983, 1987, 1990, 1994, 1997, 2002, and 2008. Units are Mg/ha.
DOI: 10.5061/dryad.27q59/1
title: Life-history and descriptive data on eukaryote and prokaryote multicellular species.

description: Data collected from literature search (up to Feb 2013).
DOI: 10.5061/dryad.2mc1t/1
title: Supplemental Text, Tables, and Figures

description: All supplemental text, tables, and figures, as one PDF.
DOI: 10.5061/dryad.304dn/1
title: A. pulchellus and A. krugi ND2 sequences

description: Alligned ND2 sequences in a fasta format for Anolis krugi, Anolis pulchellus and outgroups.
DOI: 10.5061/dryad.3gp32/1
title: SNP Genotypes for native and introduced populations of Mimulus guttatus and outgroups

description: SNP genotypes at 1,400,000 loci for 10 native, 20 introduced, individuals of Mimulus guttatus, as well as 5 outgroups of Mimulus sect. Simiolus.
DOI: 10.5061/dryad.41vh5/1
title: Andersen archived data

description: Abundance of each ant species at each of the 18 experimental fire plots at the Territory Wildlife Park for each sampling period (2003-2009). Data for each sampling period are provided on separate pages.
DOI: 10.5061/dryad.49k4d/1
title: Microsatellite data for Kooyers & Olsen 2013
DOI: 10.5061/dryad.55724/1
title: Experiment_1

description: Individual level consumption of protein and carbohydrate (labeled as Pcons and Ccons in the data file) was measured in which flies where exposed to 1 of 24 diets. Competitive adult fitness assays were then used to estimate male and female fitness (Comp_fitness).
DOI: 10.5061/dryad.5tp2v/1
title: F_data_earwigonto_dryad

description: Data file from the female manipulation experiment
DOI: 10.5061/dryad.5tp2v/2
title: M_data_earwigonto_dryad

description: Data from male manipulation experiment
DOI: 10.5061/dryad.6h82k/1
title: male.cov.data.dryad.final

description: Phenotypic data for the quantitative genetic analysis of male within-pair paternity success and extra-pair reproductive success.
DOI: 10.5061/dryad.6h82k/2
title: male.cov.Ainv.dryad.final

description: Inverse A matrix underpinning quantitative genetic analysis of male within-pair paternity success and extra-pair reproductive success.
DOI: 10.5061/dryad.7785h/5
title: aeb2 Arch+ alignment
DOI: 10.5061/dryad.7sn14/1
title: Chick Growth Rates

description: Growth rates of all individual chicks in the experiment with all explanatory variables tested, including treatment, productivity, rank, sex, nest etc.
DOI: 10.5061/dryad.7sn14/2
title: Brood Growth Rates

description: Growth rates of the brood as a whole (i.e. sum of all siblings) with all explanatory variables tested.
DOI: 10.5061/dryad.7sn14/3
title: FECs

description: Counts of nematode eggs in faeces of chicks in three of our experimental years with all explanatory variables tested.
DOI: 10.5061/dryad.8kk12/26
title: RNAseq_t22

description: RNA-sequencing transcriptomics data of the diel cell cycle of Prochlorococcus MED4 for timepoint 22 hours.  The compressed tar archive includes a Maq mapping file and pileup alignment.
DOI: 10.5061/dryad.8kk12/27
title: RNAseq_t24

description: RNA-sequencing transcriptomics data of the diel cell cycle of Prochlorococcus MED4 for timepoint 24 hours.  The compressed tar archive includes a Maq mapping file and pileup alignment.
DOI: 10.5061/dryad.8kk12/28
title: RNAseq_t26

description: RNA-sequencing transcriptomics data of the diel cell cycle of Prochlorococcus MED4 for timepoint 26 hours.  The compressed tar archive includes a Maq mapping file and pileup alignment.
DOI: 10.5061/dryad.8sm01/1
title: GWAS Results, PCA

description: Results from GWAS of eigenvectors (PCs) 1-5, after PCA of the bacterial and (separately) the fungal community. This tarball includes 'reports' (e.g. the top SNPs after GWAS), image files (manhattan plots), and the top GO-terms enriched in these GWAS results. The Methods section of the paper describes the procedure. Please note that files labeled '16S' correspond to the bacterial community, while files labeled 'ITS' correspond to the fungal community.
DOI: 10.5061/dryad.8sm01/2
title: GWAS Results, CCA

description: Results from GWAS of eigenvectors (CCAs) 1-5, after CCA of the bacterial and (separately) the fungal community. This tarball includes 'reports' (e.g. the top SNPs after GWAS), image files (manhattan plots), and the top GO-terms enriched in these GWAS results. The Methods section of the paper describes the procedure. Please note that files labeled '16S' correspond to the bacterial community, while files labeled 'ITS' correspond to the fungal community.
DOI: 10.5061/dryad.8sm01/3
title: GWAS Results, DCA

description: Results from GWAS of eigenvectors (DCAs) 1-4, after DCA of the bacterial and (separately) the fungal community. This tarball includes 'reports' (e.g. the top SNPs after GWAS), image files (manhattan plots), and the top GO-terms enriched in these GWAS results. The Methods section of the manuscript describes the procedure. Please note that 'decorana' (vegan's function, which was used for DCA) only returns 4 axes. Please note that files labeled '16S' correspond to the bacterial community, while files labeled 'ITS' correspond to the fungal community.
DOI: 10.5061/dryad.8sm01/4
title: GWAS Results, Presence-Absence (0/1) of Individual OTUs.

description: The presence or absence (0/1) of individual OTUs were used as phenotypes in GWAS. The Methods section of the paper describes the procedure. Please note that files labeled '16S' correspond to the bacterial community, while files labeled 'ITS' correspond to the fungal community.
DOI: 10.5061/dryad.9ct2f/1
title: Bush Baby Femur 3D Geometry

description: Galago senegalensis (NMS.Z.2002.94.2). Body mass = 0.22kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.9ct2f/2
title: Eagle Femur 3D Geometry

description: Haliaeetus albicilla (NMS.Z.2000.23). Body mass = 4.79kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.9ct2f/3
title: Flamingo Femur 3D Geometry

description: Phoenicopterus ruber (NMS.Z.2000.193.1). Body mass = 2.60kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.9ct2f/4
title: Giraffe Tibia 3D Geometry

description: Giraffa camelopardalis (NMS.Z.2001.148.3). Body mass = 1192kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.9ct2f/5
title: Guillemot Tibia 3D Geometry

description: Uria aalge (MM BB.9009.5.1). Body mass = 0.99kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.9ct2f/6
title: Hedgehog Femur 3D Geometry

description: Erinaceus europaeus (WML 1988.226). Body mass = 0.68kg. Created in GeoMagic Studio v12.
DOI: 10.5061/dryad.bg49s/1
title: Data tables

description: Data tables used in our analysis. Most of the data is originally from Blanco and Sherman (2005) Mech Ageing Dev 126: 794-803. Tables include data for maximum lifespan, presence/absence of chemical protection, and body size (snout-vent length for amphibians, total length for snakes).
DOI: 10.5061/dryad.bn00s/1
title: Data_Prokkola_et_al_2013

description: Data collected from mealworm beetles reared individually in laboratory conditions at three different temperatures; 18, 23 and 28 degrees C, indicated by treatments 1, 2 and 3 respectively. Sex is encoded by 1=male and 0=female. Development indicates the number of days from the egg-laying to the emerging of the adult beetle. Encapsulation is the normalized darkness of an encapsulated implant (higher=more encapsulated) and cuticle is the darkness of the beetle's cuticle (lower=darker).
DOI: 10.5061/dryad.bv88g/1
title: Appendix 1

description: DNA barcodes used in the barcoding gap analysis
DOI: 10.5061/dryad.bv88g/2
title: Appendix 2

description: DNA barcodes used in the test of species identification over morphological scales.
DOI: 10.5061/dryad.bv88g/3
title: Appendix 3

description: DNA barcodes used in the test of species identification over geographical scales.
DOI: 10.5061/dryad.dq7ks/2
title: cercarial_output
DOI: 10.5061/dryad.dq7ks/3
title: infection_success
DOI: 10.5061/dryad.dq7ks/4
title: survival
DOI: 10.5061/dryad.gd031k26/8
title: Supplemental Dataset 9
DOI: 10.5061/dryad.gs7s3/8
title: TreeFile_NPC1_Figure2

description: Tree data generated using the maximum likelihood method and the PhyML3.0 software. Compute these data with the SeaView program to display the NPC1 phylogenetic tree.
DOI: 10.5061/dryad.j57c0/13
title: 6_mtLSU_StochasticMaps_transitions

description: Final log of the Stochastic character mapping simulations.
DOI: 10.5061/dryad.jp596/1
title: Dumas_etal_2013_ProcB_Dryad_data

description: This Excel file contains all raw laboratory data used for the paper.
DOI: 10.5061/dryad.jp596/2
title: Dumas_etal_2013_ProcB_Dryad_simulationcode

description: This R script file contains the code for the simulation used in the paper.
DOI: 10.5061/dryad.kh466/3
title: R script file, contemporary population structure

description: R script used in the contemporary population structure analyses (general linear models).
DOI: 10.5061/dryad.kt71r/2
title: Bcanorus_GeneticDistanceMatrix

description: Bufo canorus genetic distance matrix.  Pairwise FST values for B. canorus populations, part of an example dataset for MMRR analysis.
DOI: 10.5061/dryad.kt71r/4
title: Bcanorus_EnvironmentalDistanceMatrix

description: Bufo canorus environmental distance matrix.  Pairwise environmental distances for B. canorus populations (standardized), part of an example dataset for MMRR analysis.
DOI: 10.5061/dryad.m49k6/4
title: Camera trap data from carcass and control sites

description: Grazing and visitation data collected using motion sensing camera traps at anthrax carcass or control sites (camera= Carcass or Control), for springbok (AM), plains zebra (EQ), gemsbok (OG) or blue wildebeest (CT). "gap" refers to whether the paired camera from the site was functional or not when that particular photo sequence was recorded (N=no, there was no gap in the other camera, Y=yes, there was a gap, i.e. the paired camera was not functioning). Number_grazing is the number of individuals observed grazing during the photo sequence; number_in_rocks is the number of individuals observed within the rock-defined site during the photo sequence.
DOI: 10.5061/dryad.nk470/1
title: HaponskiStepien_mtDNA_alignment

description: Mitochondrial control region sequences of walleye Sander vitreus aligned to other members of the genus Sander.
DOI: 10.5061/dryad.pv5tq/1
title: Rahman et al. Biology Letters dataset FOR SUBMISSION

description: Data set used for statistical analysis of paternity data
DOI: 10.5061/dryad.q1d7f/1
title: icu_survey_repository_s9

description: Each record is a reply to the online survey.
DOI: 10.5061/dryad.q5570/3
title: 16S alignment
DOI: 10.5061/dryad.r7j3s/1
title: Alien and native species richness and abundance

description: The file contains all data used in the statistical analyses described in the materials and methods section of the article. "Port" = name of the fifteen surveyed sites; "Trap position" = environment where the traps were placed in each of the fifteen surveyed sites (forest vs port); "Alien species richness" = mean number of alien species trapped per trap check; "Alien species abundance" =mean number of alien individuals trapped per trap check; "Native species richness" = mean number of native species trapped per trap check; "Native species abundance" =mean number of native individuals trapped per trap check.
DOI: 10.5061/dryad.rq430/1
title: Phillipsetal_MolEcol_hawksbillturtle

description: Microsoft Excel file with five sheets. Sheet 1: hatchling microsatellite genotypes. Sheet 2: female genotypes. Sheet 3: reconstructed genotypes of males. Sheet 4: list of which female pairs with which male. Sheet 5: nest data - lay dates, numbers of eggs in nests, number of undeveloped eggs.
DOI: 10.5061/dryad.st56h/1
title: Zosterops_matrix

description: Concatenated mtDNA matrix
DOI: 10.5061/dryad.st56h/2
title: AFLP_matrix

description: AFLP Zosterops matrix
DOI: 10.5061/dryad.st56h/9
title: Zosterops_Kenyan_Photos
DOI: 10.5061/dryad.t0j7s/1
title: Chionactis occipitalis microsatellite data

description: Table of microsatellite genotypes and collection location information for C/ occipitalis individuals from throughout the Mojave Desert.  In CSV format.
DOI: 10.5061/dryad.t8011/1
title: Data for Figures 2-4

description: Data for Figures 2-4
DOI: 10.5061/dryad.018g4/1
title: PICRUST_CLUSTERS.tar

description: This includes clusters of quality filtered sequances that were used for construction of OTU table. Sequences were clustered using CLUSTOM (Hwang et al. 2013, DOI: 10.1371/journal.pone.0062623). Names of sequences correspond to sample IDs in enlisted Table S1.
DOI: 10.5061/dryad.018g4/2
title: otu_table_DENOVO_CLUSTOM_R

description: This is the OTU table constructed based on CLUSTOM clustering of quality filtered sequences. Information on taxonomic assignation of individual OTUs is included. Please see the Table S1 for more details concerning individual samples.
DOI: 10.5061/dryad.018g4/3
title: mapping_vse

description: This file includes metadata for individual samples.
DOI: 10.5061/dryad.1q88j/19
title: Cover_Total_Residual

description: Plot-level values of total (summed) cover over the study period (1979 to 2008) of all residual species (see Appendix A for species classification). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1979, 1980, 1983, 1987, 1990, 1994, 1997, 2002, and 2008. Units are % (values can exceed 100%).
DOI: 10.5061/dryad.1q88j/27
title: Richness_Total_Colonist

description: Richness over the study period (1979 to 2008) of colonizing species (see Appendix A for species classification). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1979, 1980, 1983, 1987, 1990, 1994, 1997, 2002, and 2008. Units are number of species/plot.
DOI: 10.5061/dryad.1q88j/28
title: Richness_Total_Residual

description: Richness over the study period (1979 to 2008) of residual species (see Appendix A for species classification). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1979, 1980, 1983, 1987, 1990, 1994, 1997, 2002, and 2008. Units are number of species/plot.
DOI: 10.5061/dryad.1q88j/29
title: Overstory_Cover

description: Plot-level values of total (summed) tree species cover (foliage &gt;2 m tall) over the study period (1979 to 2008). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1979, 1980, 1983, 1987, 1990, 1994, 1997, 2002, and 2008. Units are % (values can exceed 100%).
DOI: 10.5061/dryad.1q88j/30
title: Overstory_Density

description: Plot-level values of tree density (&gt;1.4 m tall) over the study period (1980 to 2007). Column headings are: Plot number (first digit is watershed number, 1 or 3); the remainining columns are sampling dates (1980, 1984, 1988, 1991, 1995, 2001, and 2007. Units are trees/ha.
DOI: 10.5061/dryad.2mc1t/2
title: Supplemental Data 1: Excel file showing DEC and DEC+J weights calculations

description: This excel file shows the DEC and DEC+J weights calculations for a three-area problem. Users may change the value of the j parameter and see the resulting change in the individual per-event weights of y (sympatry), s (subset sympatry), v (vicariance), and j (jump dispersal/founder-event speciation). The conditional probabilities of each individual event, used in the calculation of the likelihood, are the individual weight divided by the sum of the weights of events allowed, conditional on a particular ancestral range.
DOI: 10.5061/dryad.2mc1t/3
title: SuppData2_all_BioGeoBEARS_inferences

description: This zipfile contains a folder and a script for each of the 53 empirical BioGeoBEARS analyses presented in the paper. Users will have to edit working directories etc. to re-run these analysis. See the BioGeoBEARS wiki page for updates to the basic example script.
DOI: 10.5061/dryad.3723v/1
title: Kasumovic_Jordan_Analyses

description: Data for the main analyses of the paper
DOI: 10.5061/dryad.3723v/2
title: Data for subsampling analyses
DOI: 10.5061/dryad.41n16/1
title: Colour_Pattern_Data_File

description: Data from colour pattern analysis of Ctenophorus decresii male throat coloration from Mt Lofty Ranges (LR), Kangaroo Island (KI), and New South Wales (NSW) populations. ProportionGrey, ProportionRed, ProportionYellow, and ProportionBlue are colour variables, while TotalPower is a measure of overall patterning.
DOI: 10.5061/dryad.43534/1
title: Reflectance&irradiance

description: Data collected by Beatriz Willink and Esteban-Brenes Mora. Date of collection: 20110701-20111112. No missing data. Data includes the mean reflectance of the dorsal and ventral skin of 99 frogs, the mean reflectance of each category of background substrates,at each population, and the mean irradiance at each population. See METHODS for details. Reflectance is a percentage of light. Units for irradiance are uW/m^2. In column headers, numbers show the frog ID. The color phenotype of each frog is included in the file Frog_color&contrast.csv
DOI: 10.5061/dryad.4bm76/2
title: ProcB dataComress

description: Inside this folder is all of the data used for the paper. The excel file has the tympanal membrane measurements. The Neuro folder is first subdivided into 'latency' and 'RMS' folders. Each folder is subdivided into 'gregarious' and 'solitarious' folders which each contain folders for every animal--with all of the raw data. The Laser data is subdivided into 'gregarious' and 'solitarious' folders. Inside each folder is all of the data with each animal having 8 files (a scan and a file per point measured).
DOI: 10.5061/dryad.67p6d/1
title: Figure 2

description: Receiver and Donor refer to plant identification numbers in the field. "r" is the estimate of relatedness between receiver and donor using Queller and Goodnight's method. Damage is the percentage of leaves on the receiver plant damaged over the growing season. "x" and "y" refer to spatial coordinates scaled so that the means are zero.  Spblock refers to the spatial block that each plant grew in.
DOI: 10.5061/dryad.7334t/3
title: TK_plant_trnL

description: Plant trnL sequences from the midden located at Truitjes Kraal, Western Cape, South Africa
DOI: 10.5061/dryad.7334t/4
title: YR_plant_trnL

description: Plant trnL sequences from the midden located at Young Range, Western Australia
DOI: 10.5061/dryad.7m6kg/3
title: Fig. 1c: ROM 59660 – Nectocaris pteryx from the Burgess Shale

description: Moderate decay reveals internal anatomy and fin structure
DOI: 10.5061/dryad.7m6kg/4
title: Fig. 1d: ROM 60089 – Nectocaris pteryx from the Burgess Shale

description: Decayed specimen, many organs are visible but no detail is preserved
DOI: 10.5061/dryad.7m6kg/64
title: Fig. 11a: HK-MF-00002 (head) — Nectocaris ?pteryx, large morph from Chengjiang

description: Denticulate chevron structure between tentacles; planar lateral surface of eye
DOI: 10.5061/dryad.7m6kg/65
title: Fig. 11a: HK-MF-00002 (posterior) — Nectocaris ?pteryx, large morph from Chengjiang

description: Dark posterior structure
DOI: 10.5061/dryad.7m6kg/69
title: Fig. 11c: SK-Z-00001 — Nectocaris ?pteryx, large morph from Chengjiang

description: Long tentacles, funnel folded laterally; bars and texture of infilling sediment apparent
DOI: 10.5061/dryad.7m6kg/70
title: Fig. 11c: ANSK-20001 — Nectocaris ?pteryx, large morph from Chengjiang

description: ANSK-20001 (=SK-Z-00001), long tentacles, funnel folded laterally; bars and texture of infilling sediment apparent
DOI: 10.5061/dryad.7m6kg/71
title: Fig. 11c: ANSK-20001 — Nectocaris ?pteryx, large morph from Chengjiang

description: Low angle lighting to accentuate relief.  Illuminated from top left when anterior of specimen is at bottom of page.
DOI: 10.5061/dryad.8339m/2
title: Level-2_Germany

description: Structure data file for level 2 analysis. C. arvensis- and U. dioica-associated populations of H. obsoletus from Germany.
DOI: 10.5061/dryad.86hf6/2
title: STRUCTURE_input_WBA_and_SA

description: STRUCTURE input file containing WBA and SA data.
DOI: 10.5061/dryad.87ds0/1
title: Data from: Short-term dispersal response of an endangered Australian lizard varies with time of year

description: These data collected during two field season in Burra in mid-North of South Australia. All data were imported to excel file. The excel file has three excel sheets. First sheet is a raw data that some of them were used in the published paper. Second sheet is the final set of data that was used in the published paper. Finally the third sheet are description of each column in two earlier sheets. In the method of the published paper we discussed how these data were recorded.
DOI: 10.5061/dryad.8c930/10
title: SNPs called from 54 individually sequenced pigs at 60-109.95 Mb on chromosome X

description: This table includes the SNP data at 60-109.95 Mb on chromosome X, and the variants are called from 54 individually sequenced pigs from 11 populations. “00” indicates the missing genotype. column 1 & 2: chromosome and position according to Sscrofa 10.2 assembly. column 3: the reference allele according to Sscrofa 10.2 assembly. column 4: the variant allele identified from sequencing data. column 5- 8: genotypes of four Duroc pigs. column 9-12: genotypes of four Meishan pigs. column 13-19 genotypes of seven Chinese wild boars. column 20-22 genotypes of three Jinhua pigs. column 23-28 genotypes of six Landrace pigs. column 29-42 genotypes of 14 Large White pigs. column 43-45 genotypes of three Neijiang pigs. column 46-48 genotypes of three Penzhou pigs. column 49-52 genotypes of four Tongcheng pigs. column 53-55 genotypes of three Wujin pigs. column 56-58 genotypes of three Yanan pigs
DOI: 10.5061/dryad.8c930/6
title: SNPs called from Tongcheng pool and seven Chinese wild boars

description: This table includes the genome-wide SNP data called from Tongcheng pool and seven Chinese wild boars. column 1 & 2: chromosome and position according to Sscrofa 10.2 assembly. column 3: the reference allele according to Sscrofa 10.2 assembly. column 4: the variant allele identified from sequencing data. column 5-11: genotypes of Chinese wild boars, and “00”means the missing genotype. column 12: count of reference allele reads identified from the Tongcheng sequencing pool. column 13: count of variant allele reads identified fromthe Tongcheng sequencing pool
DOI: 10.5061/dryad.8c930/7
title: SNPs called from 54 individually sequenced pigs at 32.475-32.775 Mb on chromosome 3

description: This table includes the SNP data at 32.475-32.775 Mb on chromosome 3, and the variants are called from 54 individually sequenced pigs from 11 populations. “00” indicates the missing genotype. column 1 & 2: chromosome and position according to Sscrofa 10.2 assembly. column 3: the reference allele according to Sscrofa 10.2 assembly. column 4: the variant allele identified from sequencing data. column 5- 8: genotypes of four Duroc pigs. column 9-12: genotypes of four Meishan pigs. column 13-19 genotypes of seven Chinese wild boars. column 20-22 genotypes of three Jinhua pigs. column 23-28 genotypes of six Landrace pigs. column 29-42 genotypes of 14 Large White pigs. column 43-45 genotypes of three Neijiang pigs. column 46-48 genotypes of three Penzhou pigs. column 49-52 genotypes of four Tongcheng pigs. column 53-55 genotypes of three Wujin pigs. column 56-58 genotypes of three Yanan pigs