cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.ff749/20
title: RaxML partition file for matrix “Allsites_noAno”, Anodendron excluded, 126,430 aligned base pairs, undetermined and ambiguously aligned sites identified by GBLOCKS removed.
DOI: 10.5061/dryad.ff749/21
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” analyzed with linked branch lengths.
DOI: 10.5061/dryad.ff749/22
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” analyzed with unlinked branch lengths.
DOI: 10.5061/dryad.ff749/23
title: Most parsimonious trees for matrix “Allsites_noAno”, Winclada format.
DOI: 10.5061/dryad.g6j76/1
title: FII and Relative Thorax Mass
DOI: 10.5061/dryad.g6j76/2
title: MANOVA 3 DAY OLD (2008)
DOI: 10.5061/dryad.g6j76/3
title: MANOVA 6 DAY OLD (2010)
DOI: 10.5061/dryad.g6j76/4
title: MANCOVA 3 DAY OLD (2008)
DOI: 10.5061/dryad.g6j76/5
title: MANCOVA  6 DAY OLD (2010)
DOI: 10.5061/dryad.g8hm9/1
title: Data of Experiment 1

description: Data of experiment 1: Density dependence of growth and development
DOI: 10.5061/dryad.g8hm9/2
title: Data of Experiment 2

description: Data of Experiment 2: Timing of the start of feeding
DOI: 10.5061/dryad.g8hm9/3
title: Data of Experiment 3

description: Data of Experiment 3: Escape performance
DOI: 10.5061/dryad.g8hm9/4
title: Data of Experiment 4

description: Data of Experiment 4: Cannibalism trials
DOI: 10.5061/dryad.h14kk/1
title: NestlingBarnSwallowCORT2010-HeritabilityMS

description: Contains data for USGS-banded nestling North American barn swallows (Hirundo rustica erythrogaster) collected at day 12 between May and July 2010. Data includes site and nest location, date banded, brood size manipulation treatment, age at data collection, sex, brood number (based on breeding adult pair), clutch size, brood size, mass, presence of mites, DNA extraction number, social and genetic assignments of parents, date and time information for baseline and stress-induced corticosterone (CORT) samples, CORT concentrations, and plumage color scores
DOI: 10.5061/dryad.h14kk/2
title: Pedigree3_070114

description: A text file containing pedigree that includes the genetic parent(s) of the nestlings that was used to determine the additive genetic variance component for calculating heritability.
DOI: 10.5061/dryad.h14kk/3
title: CORT3_070114

description: Text file containing all pertinent data for the bivariate animal model we ran to assess heritability of variation in baseline and stress-induced corticosterone (CORT) concentrations in nestling barn swallows. This file is similar to the excel file available in this datafile but in a format more easily accessible to R statistical program.
DOI: 10.5061/dryad.j7c74/1
title: Dab population genetics raw data and biomarker modelling infiles

description: This is a file containing raw information on dab, Limanda limanda, population genetic structure, contaminant exposure, age and biomarker prevalence around the British Isles (dab.popgen.biomonitoring.xlsx). Dab.genotypes: microsatellite allele size data in GenAlex format. Further information on sex, age, weight, length, inbreeding coefficients (IR and hL values) and latitude and longitude is also included where available. Pop.models: Information of sample-average age, contaminant exposure (liver concentration), prevalence (%) of external biomarkers (HYP, LY, U, EP), proxies of populations structure (ca.axis1 and ca.axis3) and sample level genetic diversity (Ho) and inbreeding coefficient (Fis). Ind.models: Individual information for 451 individuals on population membership (ca.axis1, ca.axis3), inbreeding coefficients (IR, hL), length, weight, age, sex, age-site average estimated exposure to contaminant, presence or absence of external biomarkers, presence or absence of 32 internal biomarkers classified by categories (CAT 1: healthy to CAT 5:malignant neoplasms) and liver status (lv.sts: highest category of liver damage present in an individual). For any questions in the data please contact Niklas Tysklind (ntysklind@univ.bangor.ac.uk).
DOI: 10.5061/dryad.m3h18/3
title: TTC2 BC1 Markers 1739

description: MapQTL genotype file for TTC2 population.
DOI: 10.5061/dryad.pb637/2
title: Supplemental Data 2

description: List of materials included in each of the three aporrhaid species treated in the text, organized by locality (Fig. 1) and indicating ammonoid zones. Additional materials are from museum collections.
DOI: 10.5061/dryad.pb637/3
title: Supplemental Data 3

description: Measurements of types and other specimens.
DOI: 10.5061/dryad.s8f74/1
title: Stable isotope data

description: This is a zip file containing three text files, all of which include stable isotope data used in the study. The first is for the dietary comparison between Japan Sea and Pacific Ocean anadromous sticklebacks in the Bekanbeushi catchment (bekanbeushi_gast_sia_141014.txt). The second is for the dietary comparison across the range of the Japan Sea and Pacific Ocean stickleback lineages (comparative_gasterosteus_sia_141014.txt). This file includes data from allopatric and sympatric populations of both lineages as well as from Pacific freshwater populations. Finally there is the macroinvertebrate used for estimation of dietary contributions (macroinvertebrate_sia_141014.txt). Column headers should be self explanatory but in all cases information is given on the site of capture and the species. Common columns are %N (per_N), %C (per_C), d15N, d13C and C:N ratios.
DOI: 10.5061/dryad.s8f74/2
title: Foraging efficency trial data

description: This text file contains all data collected during foraging efficiency trials using Japan Sea and Pacific Ocean anadromous fish. In order the columns denote, the individual id (Fish-id), the species (spp), the timing of the initial strike in seconds (int_strike), standard length in mm (SL), the number of vertical strikes (vert_strike), the number of strikes at prey items (prey_strike), the number of abandoned prey items (abandon_prey), the total number of prey items handled (handled), the number of prey items dropped (drop and the number of prey items consumed (consumed).
DOI: 10.5061/dryad.s8f74/3
title: Data and R scripts for comparative phylogenetic analysis

description: This zip file contains the microsatellite data, phenotypic data and R scripts used to conductive all comparative phylogenetic analyses covered in the study. For further comments on the contents of files, please see the attached README. R scripts are explained using inline comments.
DOI: 10.5061/dryad.sc88q/1
title: MER_14_0246_Rcode

description: R code for spatial principal components analysis, partial Mantel test, distance-based redundancy analysis, and redundancy analysis
DOI: 10.5061/dryad.sc88q/2
title: SimulationResults_MER_14_0246

description: Test statistics and p-values from simulated data. IBR corresponds to landscapes that had a pixel resistance of 5 or higher and all pixels had a resistance of 1 in the IBD landscapes. Results are separated by statistical test and type of landscape.
DOI: 10.5061/dryad.sc88q/3
title: SampleInputFile_CDPOP

description: Input file for CDPOP. All categories are described in the CDPOP manual.
DOI: 10.5061/dryad.sc88q/4
title: SampleResistanceFile

description: Sample Resistance File that is an input for Mantel tests and CDPOP.
DOI: 10.5061/dryad.sc88q/5
title: Coordinates

description: Sample Coordinate File that is an input for dbRDA and RDA.
DOI: 10.5061/dryad.sc88q/6
title: ExampleBufferFile

description: Example of a the percent of habitat found in a buffer around each individual. This file is an input for RDA and dbRDA.
DOI: 10.5061/dryad.sc88q/7
title: ExampleEuclideanDistance

description: Example of a Euclidean distance file that is used as an input for both CDPOP and Mantel tests.
DOI: 10.5061/dryad.sc88q/8
title: ExampleGenepopFile

description: Example of a genepop file that is the input to both Spagedi and adegenet to calculate Rousset's a and sPCA scores respectively.
DOI: 10.7925/drs1.ucdlib_31468
title: 52 Dawson Street, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground, constructed early 19th century.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31471
title: 53 Dawson Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Blockwork? structure, 4 levels above ground, constructed early 19th century.
description: Dublin City Council, Record of Protected Structures (2010), no. 2280
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31474
title: 54 Dawson Street, Dublin

description: Consists of 6 orthorectified images of the structure. The orthorectified images have been derived from one or more photographic image that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and other image layers have been extracted and saved in TIFF image files, as well as JPEG files in various resolutions to facilitate inspection.
description: RC Frame structure, 4 levels above ground, constructed 1975.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31482
title: 55 Dawson Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 4 levels above ground, constructed 1820.
description: Dublin City Council, Record of Protected Structures (2010), no. 2281
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31488
title: 57-58 Dawson Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 5 levels above ground, constructed 1902.
description: Dublin City Council, Record of Protected Structures (2010), no. 2282
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31494
title: 60-64 Dawson Street, Dublin

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: RC Frame structure, 5 levels above ground, constructed 1975.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31503
title: 6 D'Olier Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Blockwork structure, 5 levels above ground.
description: Dublin City Council, Record of Protected Structures (2010), no. 2293
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31506
title: 7 D'Olier Street, Dublin 2, Ireland

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Blockwork structure, 5 levels above ground.
description: Dublin City Council, Record of Protected Structures (2010), no. 2294
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.7925/drs1.ucdlib_31509
title: D'Olier Street 8-16

description: Consists of an orthorectified image of the structure in Adobe PhotoShop (PSD) format. The orthorectified image has been derived from one or more photographic images that are included as layers in the original Adobe PhotoShop (PSD) file. The composite and all other image layers have been extracted and saved in TIFF image files, and JPEG files in various resolutions have been derived from the flattened image layer to facilitate inspection.
description: Brickwork structure, 5 levels above ground, constructed 1991.
description: Funded by an award from the Irish Research Council for Science, Engineering and Technology (IRCSET), Embark Initiative Postgraduate Scholarship, grant identifier RS/2011/435.
DOI: 10.5061/dryad.0g0t0/1
title: Hylastes_data

description: Primary data set
DOI: 10.5061/dryad.0g0t0/2
title: Fig_1_data

description: Phenology data
DOI: 10.5061/dryad.1ph37/5
title: Raw for Table 3

description: Data Excel file containing data on average percent fertile females, average percent feeding time, and percent time spent in overlap area for each pair of groups at 3 times scales (monthly, biweekly, and weekly).  These data were used to determine which factors predicted percent time spent in overlap areas at various time scales.
DOI: 10.5061/dryad.31vb0/2
title: Hook measurements from female Echinorhynchus gadi spp. and Echinorhynchus truttae

description: Hook measurements from female Echinorhynchus gadi spp. from the North Sea and female Echinorhynchus truttae from Scotland.
DOI: 10.5061/dryad.4rp68/2
title: Dollo_mapping_withorphangenes

description: Dollo-parsimony reconstruction of duplication-loss histories across 49 genomes. Mapping includes orhpan genes
DOI: 10.5061/dryad.4rp68/3
title: Dollo_mapping_withoutorphangenes

description: Dollo-parsimony mapping without orhpan genes
DOI: 10.5061/dryad.4rp68/4
title: MCLclustering_infl2

description: MCL clustering of proteins in the 49 genomes.
DOI: 10.5061/dryad.4rp68/5
title: OrthogroupMatrix_withorphangenes

description: Nexus matrix of reconstructed orthogroups, including orphan genes
DOI: 10.5061/dryad.4rp68/6
title: OrthogroupMatrix_withoutorphangenes

description: Nexus matrix of reconstructed orthogroups, excuding orphan genes.
DOI: 10.5061/dryad.4rp68/7
title: outfile95_new

description: Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 0.95.
DOI: 10.5061/dryad.4rp68/8
title: outfile98_new

description: Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 0.98.
DOI: 10.5061/dryad.4rp68/9
title: outfile100_new

description: Nexus data file used for organismal phylogeny reconstruction under a site exclusion threshold of 1.0.
DOI: 10.5061/dryad.55t60/5
title: Figure 3

description: R script computing the equilibrium states for a susceptible host metapopulation composed of (a) 2 subpopulations, (b) 4 subpopulations and (c) 25 subpopulations (deterministic analysis). Total carrying capacity = 25,000 rats.
DOI: 10.5061/dryad.55t60/6
title: Figure 3 (a) - system dynamics with 2 subpopulations

description: System dynamics (in C language) used in figure3.r to compute the equilibrium states of a host structured susceptible population composed of 2 subpopulations.
DOI: 10.5061/dryad.55t60/7
title: Figure 3 (b) - system dynamics with 4 subpopulations

description: System dynamics (in C language) used in figure3.r to compute the equilibrium states of a host structured susceptible population composed of 4 subpopulations.
DOI: 10.5061/dryad.55t60/8
title: Figure 3 (c) - system dynamics with 25 subpopulations

description: System dynamics (in C language) used in figure3.r to compute the equilibrium states of a host structured susceptible population composed of 25 subpopulations.
DOI: 10.5061/dryad.58060/1
title: Great tit dataset

description: Phenotypic data for Bagley Wood great tits (2008-2012).
DOI: 10.5061/dryad.58060/2
title: Great tit pedigree (to 2012)

description: Great tit pedigree file used in analyses
DOI: 10.5061/dryad.58060/3
title: Great tit analyses

description: ASReml code to run the analyses of great tit plumage coloration described in the main article (when saved as a '.as' file)
DOI: 10.5061/dryad.58060/4
title: Zebra finch dataset

description: Phenotypic data for Seeweisen zebra finch population.
DOI: 10.5061/dryad.650sb/1
title: HawkmothsFieldExpt1
DOI: 10.5061/dryad.650sb/2
title: Field Experiments 2 and 3
DOI: 10.5061/dryad.650sb/3
title: Flightcage
DOI: 10.5061/dryad.9pb01/1
title: AFLP dataset

description: Amietia wittei and Amietia angolensis tissue samples were collected from sites on the southern slope of Mount Kilimanjaro, Tanzania, in 2011. Total genomic DNA was extracted with the Roche High Pure PCR Template Preparation Kit according to the manufacturer's protocol, except for an extra step after the digestion by proteinase K aiming to discard residual pigments. DNA was digested and fragments were amplified using six primer pair combinations using a modified version of Vos et al. (1995) (Appendix S1, Supporting Information). AFLP fragments were separated in an ABI 3130XL automatic capillary sequencer (Applied Biosystems) with an internal GeneScan 500 ROX size standard at the Department of Human Genetics, Biozentrum, University of Würzburg. AFLP peaks were determined using GeneMapper 4.1 (Applied Biosystems) and the final binary matrices were obtained following thw semi-automated scoring procedure described in Whitlock et al. (2008). The data include presence (1), absence (0), unscored (-1) AFLP fragments (in column) for each study site (rows) for Amietia wittei and Amietia angolensis separately.
DOI: 10.5061/dryad.9pb01/2
title: LCP distance data

description: Landscape distances and variables included in each least-cost path (LCP) between study sites of Amietia wittei and Amietia angolensis calculated in ArcGIS 10 (ESRI). For each LCP model between pairs of sites (rows) the following variables (columns) were calculated: topography-corrected route lengths (distance); weighted-average values of compound topographic index (cti), roughness (rough) and slope; proportions of cropland, homegarden, human settlements, erica shrubs, forest, disturbed forest, reforestation and grassland. A 30 x 30 m digital elevation model (DEM) produced by J.A. Ong'injo, C. Lambrechts and A. Help was use for calculating resistance surfaces. Stream network was delineated using the "flow accumulation" tool in ArcGIS 10 (ESRI). The land cover surface was modified from the original produced by T. Appelhans and T. Nauss (unpubl.). Straight-line distances (Euclidean) are also reported and used as null models.
DOI: 10.5061/dryad.9pb01/3
title: Amietia 16S aligned sequences

description: Aligned sequences of the 16S mitochondrial rRNA gene from 14 randomly selected individuals (GenBank accession numbers: KJ469265-KJ469278) of Amietia spp on Mt. Kilimanjaro (Tanzania).
DOI: 10.5061/dryad.cf87p/1
title: Perkins et al_PRSB_2013

description: This data file contains the raw data collected in the laboratory for the experiments and results described in the quoted publication. The data is in an excel file arranged in indivual sheets for each experiment in the same order as in the publication.
DOI: 10.5061/dryad.dj342/1
title: Multiple Alignment

description: Nexus file containing multiple alignment of mitochondrial DNA sequences used in phylogenetic analyses.
DOI: 10.5061/dryad.ff749/24
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” with Rhabdadenia excluded, branch lengths linked.
DOI: 10.5061/dryad.ff749/25
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” with Rhabdadenia excluded, branch lengths unlinked.
DOI: 10.5061/dryad.ff749/26
title: Most parsimonious trees for matrix “Allsites_noAno” with Rhabdadenia excluded, Winclada format.
DOI: 10.5061/dryad.ff749/27
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” with Periploca excluded, branch lengths linked.
DOI: 10.5061/dryad.ff749/28
title: Maximum likelihood bootstrap tree for matrix “Allsites_noAno” with Periploca excluded, branch lengths unlinked.
DOI: 10.5061/dryad.ff749/29
title: Most parsimonious trees for matrix “Allsites_noAno” with Periploca excluded, Winclada format.
DOI: 10.5061/dryad.ff749/30
title: RaxML input matrix “&gt;3.4_excluded”

description: RaxML input matrix “&gt;3.4_excluded”, Anodendron excluded, created from matrix “Allsites_noAno” by exclusion of sites with AIR rates &gt; 3.4, 125,871 base pairs retained, 559 base pairs excluded, Phylip format.
DOI: 10.5061/dryad.ff749/31
title: RaxML exclusion file, sites excluded from “Allsites_noAno” to create matrix “&gt;3.4_excluded”.
DOI: 10.5061/dryad.ff749/32
title: Maximum likelihood bootstrap tree for matrix “&gt;3.4_excluded” analyzed with linked branch lengths.
DOI: 10.5061/dryad.ff749/33
title: Maximum likelihood bootstrap tree for matrix “&gt;3.4_excluded” analyzed with unlinked branch lengths.
DOI: 10.5061/dryad.j697v/1
title: GSI files

description: -"GSI_assignments_labels" = cluster assignment for each individual included in this analysis- "sfro_GSI_tree.phy" = phylip file containing sequences for all individuals included in this analysis-"100rooted.tre" = 100 bootstrap trees generated using PhyML and used to calculate the gsiT
DOI: 10.5061/dryad.j697v/2
title: IM files

description: IM input file and command line:	"Sfro_2POPs_MtCR_IM" = IM input file 	"IM_command_line" = IM command line
DOI: 10.5061/dryad.j697v/3
title: R script: R_Get_sample_Depth

description: "R_Get_sample_Depth.R" = This script was used to retrieve the depth  of each sampling location.