cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.179h5/4
title: Assay 3: Effect of the physical environment on how male choice alters selection on females

description: This file contains data from Assay #3 - Effect of the physical environment on how male choice alters selection on females. Each row is the data from the females of one colour (red vs. blue) from one replicate.  Thus, each replicate is represented in two rows (once for blue females and once for red). The columns indicate the replicate label ID, the mating arena type (cage vs. vial), the treatment type (choice vs. no choice), the size of the focal females (large vs. small), the colour with which the focal females were dusted (red vs. blue), the number of surviving females (out of 17), the survival percentage, and fecundities for each of seven females, the average fecundity of these seven, and replicate type. Replicate type notes whether the arena contained females that were large only, small only, or mixed (small and large) and whether the arena was a cage or vial. Mixed vials can be RB or BR, indicating whether large females were dusted red or blue (respectively) with small females being dusted the alternate.
DOI: 10.5061/dryad.1c2d3/1
title: Friends&Family_genotypedata

description: Microsatellite genotype data of Cape buffalo (Syncerus caffer caffer) that was used in the analyses of the manuscript "Friends and Family: A software program for identification of unrelated individuals from molecular marker data".
DOI: 10.5061/dryad.1kh2n/3
title: InternalRelatedness

description: R code for inbreeding analyses
DOI: 10.5061/dryad.1kh2n/4
title: InternalRelatedness

description: Data for inbreeding analyses
DOI: 10.5061/dryad.1kh2n/5
title: GustafsonEtAl_Genotypes

description: Genotypes for pumas used in this study with location of capture.
DOI: 10.5061/dryad.230v7/1
title: Feeding Trial Data

description: Data collected from woodrats (N=16) during 8-day feeding trial in laboratory setting.  Data includes average daily food intake (g), average daily creosote resin intake (g), starting body mass (g), ending body mass (g), absolute liver size (g), and liver size as a percentage of ending body mass (%).  Data also includes animal ID number and treatment group.
DOI: 10.5061/dryad.230v7/2
title: Feeding Trial Data Analysis Notes

description: R script file including code used to analyze data from feeding trial.
DOI: 10.5061/dryad.24sq5/1
title: Net relatedness index of mixed species flocks

description: Species richness, net relatedness index, see article for site names and definitions
DOI: 10.5061/dryad.3h9k4.2
title: Data from: Forty years of seagrass population stability and resilience in an urbanizing estuary
DOI: 10.5061/dryad.3h9k4.2/1.2
title: GIS-Vegetation data

description: This is a .zip file containing the raw observations of eelgrass occurrence at each location.  Each are is included as a separate .csv file.  Site abbreviations are present in each file title and are described fully in the main text of the paper.  Included in the .zip file is a file titled "Shapefile attribute table descriptions.xlsx" which has a description of the fields and how they connect to other files.
DOI: 10.5061/dryad.3h9k4.2/2.2
title: reorderd segments

description: This is a file with reordered segments for each of the eelgrass areas.  See ReadMe file for details.
DOI: 10.5061/dryad.3h9k4.2/3.2
title: shore_midpoints_with_attributes_utm_nad83_pat-pub

description: Shoreline attribute file for 100m segments of Puget Sound, WA shoreline. Description of the columns can be found in the readme file accompanying the GIS-Vegetation data.
DOI: 10.5061/dryad.3h9k4.2/4.2
title: Example estimation code and control files
DOI: 10.5061/dryad.3p46b/6
title: R functions: PGLS correlation

description: The first function within this file calculates a phylogenetic generalized least squares (PGLS) correlation between 2 or more variables. The second function calculates the statistical significance of these correlations. The first function was derived from: Rohlf, F. J. 2006. A comment on phylogenetic correction. Evolution 60:1509-1515. See comments within the file for the appropriate use of the functions.
DOI: 10.5061/dryad.47j89/1
title: Lee et al. 2017_Dawn Chorus and Environmental Variables Data

description: This Microsoft Excel spreadsheet contains the raw values of all variables that were measured and used to identify specific environmental variables (describing vegetation structure, urban infrastructure, human activity, noise levels, light levels, and bird species) that best explained timing differences in the dawn chorus onset. This data was obtained in the Los Angeles intra-urban area by one of the coauthors (JG-HL) and a trained field assistant (S. A. Bressler) from early-July to early-August 2016. Further information pertaining to this data set and analyses is available in the published paper.
DOI: 10.5061/dryad.5cj78/1
title: Parasitism data for Tables 1 and 2

description: Data on Plasmodium infection and plumage ornaments of common yellowthroats in Saukville, WI, 2003-2014.  These data were used in the analyses in Tables 1 and 2. See Methods for more details.
DOI: 10.5061/dryad.6k630.1
title: Data from: Isolation with asymmetric gene flow during the nonsynchronous divergence of dry forest birds
DOI: 10.5061/dryad.6k630.1/1.1
title: G-PhoCS input files for Oswald et. al 2017
DOI: 10.5061/dryad.6k630.1/2.1
title: fastsimcoal2 input files for Oswald et al. 2017
DOI: 10.5061/dryad.6k630.1/3.1
title: STRUCTURE input files for Oswald et al. 2017

description: Note that the University of Florida samples are labeled with preparator numbers. These preparator numbers and associated FLMNH collection numbers and locality information for all individuals can be found in Oswald et al. 2017 Supplementary Table 1.
DOI: 10.5061/dryad.6k630.2
title: Data from: Isolation with asymmetric gene flow during the nonsynchronous divergence of dry forest birds
DOI: 10.5061/dryad.6k630.2/1.2
title: G-PhoCS input files for Oswald et. al 2017
DOI: 10.5061/dryad.6k630.2/2.2
title: fastsimcoal2 input files for Oswald et al. 2017
DOI: 10.5061/dryad.6k630.2/3.2
title: STRUCTURE input files for Oswald et al. 2017

description: Note that the University of Florida samples are labeled with preparator numbers. These preparator numbers and associated FLMNH collection numbers and locality information for all individuals can be found in Oswald et al. 2017 Supplementary Table 1.
DOI: 10.5061/dryad.6p35f/1
title: Barcodes and metadata

description: Sequencing barcodes and metadata. See Readme file for details.
DOI: 10.5061/dryad.732d5/1
title: Genetic and spatial data for Grant and Liebgold 2017

description: This file has the microsatellite scores and the x,y spatial locations of the salamanders (Plethodon cinereus) used in the analyses of Grant and Liebgold 2017.
DOI: 10.5061/dryad.7gp80/1
title: Table_S1

description: Metadata for Table S1 Passport information, genetic data and occurrence data for accessions used in analyses. The file contains three sections: a) Geographic origin, genotypes, voucher specimen and accession numbers of Pachyrhizus accessions used in molecular and landscape genetic analyses; b) Genotypic data for the 244 accessions characterized at 14 nuclear microsatellite markers. Alleles at nuclear SSR loci are coded as number of repeats (for details on markers see Delêtre et al. 2013); c) Additional occurrence data for landscape genetic analyses.
DOI: 10.5061/dryad.7gp80/2
title: GESTE_env_data

description: Mean values for the eight bioclimatic variables (ALT, BIO1, BIO3, BIO7, BIO12, BIO15, LON, LAT) retained for GESTE analyses. Means are based on 169 unique occurrence points representing 11 out of the 16 subpopulations identified. Wild populations (TW, PW), Jacatupe (Ja) and Yushpe (Yp) were not included (see Material and Methods for details).
DOI: 10.5061/dryad.7qf5f/1
title: Sample sheet for Eurema mandarina

description: Sample sheet of Eurema mandarina adults collected in Tanegashima Island, Japan, in 2015.  It contains sample codes, date of sampling, sex, latitudes and longitudes of collected sites, Wolbachia infection status (C: singly infected with wCI, CF: doubly infected with wCI and wFem, NA: not analysed), numbers of female offspring and male offspring where available, and accession numbers of Tpi, COI and COIII.
DOI: 10.5061/dryad.8ht6v/1
title: Gsub-Genome

description: Cold seep sponge symbiont SOB, assembled using genome binning method
DOI: 10.5061/dryad.8ht6v/2
title: Nsub-Genome

description: Cold seep sponge symbiont AOA, assembled using genome binning method
DOI: 10.5061/dryad.b96j3/1
title: Eye size data
DOI: 10.5061/dryad.c3k16/1
title: Fine litterfall data - Atlantic Forest

description: This file contains fine litterfall data from several sites of the Brazilian Atlantic Forest.
DOI: 10.5061/dryad.c8h50/5
title: MG_50Mio_pe.sorted.bam

description: 50 Mio random pe reads of Pool-Seq data MG (Hessen, Germany) mapped to Crip_Laufer draft genome. Raw reads available at EMBL-EBI ENA ERS1590059
DOI: 10.5061/dryad.c8h50/6
title: NMF_50Mio_pe.sorted.bam

description: 50 Mio random pe reads of Pool-Seq data NMF (Lorraine) mapped to Crip_Laufer draft genome. Raw reads available at EMBL-EBI ENA ERS1590060
DOI: 10.5061/dryad.c8h50/7
title: SI_50Mio_pe.sorted.bam

description: 50 Mio random pe reads of Pool-Seq data SI (Piemont, Italy) mapped to Crip_Laufer draft genome. Raw reads available at EMBL-EBI ENA ERS1590061
DOI: 10.5061/dryad.c8h50/8
title: SS_50Mio_pe.sorted.bam

description: 50 Mio random pe reads of Pool-Seq data MG (Andalusia, Spain) mapped to Crip_Laufer draft genome. Raw reads available at EMBL-EBI ENA ERS1590062
DOI: 10.5061/dryad.dm03d/3
title: Daily survival rate
DOI: 10.5061/dryad.dm03d/4
title: fate
DOI: 10.5061/dryad.dm03d/5
title: nest site selection
DOI: 10.5061/dryad.f0450/1
title: DatasetFloaterOccurrence

description: Dataset of floater occurrence in the 97 patches (2004-2016)
DOI: 10.5061/dryad.f0450/2
title: DatasetFloaterExtinction

description: Dataset of local population extinction
DOI: 10.5061/dryad.fh174/1
title: Niemela and Dingemanse_Journal of Animal Ecology 2017
DOI: 10.5061/dryad.g8t8k/1
title: All files for P. repens population genomics study.

description: Here we describe the various R scripts, input & output data files created for this project. Collectively, they support the results and figures presented in our AJB paper. Details on each script and associated files follow, first as a short list of each R script and data file associated with this project. Subsequent sections provide a narrative of the flow of the analysis, touching on each R script, and providing detailed metadata on each data set as it is first mentioned.
DOI: 10.5061/dryad.hd3s3/1
title: Glucosinolate and insect feeding preference data
DOI: 10.5061/dryad.hh67j/2
title: Data from: Climate and sex ratio variation in a viviparous lizard

description: This data file contains data collected at two climatically distinct sites in Tasmania from 2000 to 2015, monitoring number of male and female offspring, date of birth, environmental temperature and female identification number for populations of the spotted snow skink Niveoscincus ocellatus.
DOI: 10.5061/dryad.ht0n3/1
title: Assemblage data of stream macroinvertebrate communities at 60 sites in northeastern Japan
DOI: 10.5061/dryad.p34h3/1
title: rpl20 repeat alignment

description: MAFFT alignment used to generate phylogram.  Alignment was trimmed to exclude overhanging sequences and used to infer putative gene conversion sites.
DOI: 10.5061/dryad.p34h3/2
title: 3904 PacBio raw reads of Monsonia emarginata

description: Corrected PacBio reads greater than 1 kb
DOI: 10.5061/dryad.q2g41/1
title: Phenology data

description: The leaf-out day (LOD) and first flowering day (FFD) of 11 alpine meadow plants on the Tibetan Plateau under 3 warming treatments (C: control; W: year-round warming; WW: winter warming) in 2 years (2013 and 2014). The 11 species belong to 3 flowering functional groups (early: early spring flowering group; mid: mid-summer flowering group; late: late autumn flowering group).
DOI: 10.5061/dryad.q2g41/2
title: Environmental data

description: Air temperature, soil temperature (5 cm) and soil moisture (5 cm) under 3 warming treatments (C: control; W: year-round warming; WW: winter warming) from October, 2012 to December, 2014. (ng: non-growing season; g: growing season)
DOI: 10.5061/dryad.q8m4f/32
title: 3NP-1_S19_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/33
title: 2X-3_S18_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/34
title: 3NP-1_S19_L001_R1_001.fastq
DOI: 10.5061/dryad.q8m4f/35
title: 3NP-1_S19_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/36
title: 3NP-2_S20_L001_I1_001.fastq
DOI: 10.5061/dryad.q8m4f/37
title: 3NP-2_S20_L001_R1_001.fastq
DOI: 10.5061/dryad.q8m4f/38
title: 3NP-2_S20_L001_R2_001.fastq
DOI: 10.5061/dryad.q8m4f/39
title: 3NP-3_S21_L001_I1_001.fastq
DOI: 10.5061/dryad.s2t5t/15
title: DataFiles

description: Numerical values used to produce plots
DOI: 10.5061/dryad.tp3j5/1
title: Palau_fishdata_Dryad

description: Palau fish data
DOI: 10.5061/dryad.tp3j5/2
title: Palau_benthicdata_Dryad
DOI: 10.5061/dryad.0463n/1
title: Dataset S1: GenBank database gene accession numbers

description: GenBank database gene accession numbers for the genes used to create the phylogeny.
DOI: 10.5061/dryad.0463n/2
title: Dataset 2: Aspect ratio sources and data

description: Fish image sources and corresponding pectoral fin aspect ratio data. Cat=additional image identification. SL, TL (cm) =  the standard length and total length, respectively. In most cases, both SL and TL are given. In cases where only length is given, the number is identified as either SL or TL. AR = Aspect Ratio. L/M/H = low, medium, and high, respectively.
DOI: 10.5061/dryad.0463n/3
title: Dataset S3

description: Pectoral fin ray (ray 3) flexural stiffness data for each species at different fin ray lengths (16.67, 50, and 83.33 % fin ray length).
DOI: 10.5061/dryad.0463n/4
title: Dataset S4: electrophysiology data

description: This file contains the electrophysiology data associated with the publication. On the left: the duration of the initial burst associated with fin ray movement in response to a step-and-hold stimulus for each species. On the right: the spike rate associated with the hold portion of each step-and-hold stimulus. Each stimulus set was randomly presented and repeated four times per individual.
DOI: 10.5061/dryad.1j1f3/1
title: Sequence alignment fasta files of 634 loci from 5 Heliconius species

description: This is a compressed directory of 634 anonymous loci obtained from RNA-Seq data and aligned for phylogenetic analysis. The data come from 5 Heliconius species: Heliconius melpomene, Heliconius erato, Heliconius sara, Heliconius doris, and Heliconius charithonia. Briefly, we performed Illumina RNA sequencing followed by de novo transcriptome assembly. BLAST was used to determine orthology across species and the selected loci were aligned using Clustal W. This file contains the final 634 loci used to reconstruct the Heliconius phylogeny. The file is a zipped directory containing each locus as a separate aligned fasta file. File names include the original (arbitrary) locus number and the length of the locus, but loci themselves are anonymous (i.e., are not annotated/named). Each file contains 5 sequences labelled as so: char (Heliconius charithonia), dori (Heliconius doris), erat (Heliconius erato), melp (Heliconius melpomene), sara (Heliconius sara). See publication Methods section for a more detailed description of methodology.
DOI: 10.5061/dryad.27630/1
title: Row Data of Figure 2 to figure 6

description: Row data form figure 2 to figure 6
DOI: 10.5061/dryad.37d5m/1
title: Raw weather data

description: Raw weather data. Date and timestamp, wind speed and wind bearing.
DOI: 10.5061/dryad.3g16k/1
title: Mitochondrial physiology of sunfish hybrids

description: The mitochondrial physiology of bluegill (Lepomis macrochirus), pumpkinseed (Lepomis gibbosus), and their hybrids were assessed. Mitochondrial respiration was measured using high resolution respirometry and fluorometry (Oxygraph-2k with O2k-Fluorescence module, Oroboros Instruments, Innsbruck, Austria). Enzyme assays and lipid peroxidation were measured using a SpectraMax Plus 384 microplate reader (Molecular Devices, Sunnyvale, CA, USA).
DOI: 10.5061/dryad.3h9k4.1
title: Data from: Forty years of seagrass population stability and resilience in an urbanizing estuary
DOI: 10.5061/dryad.3h9k4.1/1.1
title: GIS-Vegetation data

description: This is a .zip file containing the raw observations of eelgrass occurrence at each location.  Each are is included as a separate .csv file.  Site abbreviations are present in each file title and are described fully in the main text of the paper.  Included in the .zip file is a file titled "Shapefile attribute table descriptions.xlsx" which has a description of the fields and how they connect to other files.
DOI: 10.5061/dryad.3h9k4.1/2.1
title: reorderd segments

description: This is a file with reordered segments for each of the eelgrass areas.  See ReadMe file for details.
DOI: 10.5061/dryad.3h9k4.1/3.1
title: shore_midpoints_with_attributes_utm_nad83_pat-pub

description: Shoreline attribute file for 100m segments of Puget Sound, WA shoreline. Description of the columns can be found in the readme file accompanying the GIS-Vegetation data.
DOI: 10.5061/dryad.3h9k4.1/4.1
title: Example estimation code and control files
DOI: 10.5061/dryad.45k67/1
title: data and script files

description: For file details see README.
DOI: 10.5061/dryad.4sn22/1
title: Rivecourt_water-sorption

description: This file corresponds to a sequence of neutron transmission images recorded during humidification of a fossil wood sample coming from Rivecourt (Parisian Basin, France, paleogene)
DOI: 10.5061/dryad.4sn22/2
title: Rivecourt_water-desorption

description: This file corresponds to an image sequence of neutron transmission images of a fossil wood during drying. The wood comes from Rivecourt (Parisian Basin, Oise, Paleogene)
DOI: 10.5061/dryad.4sn22/3
title: Angeac_water-sorption

description: This file corresponds to a sequence of neutron transmission images recorded during humidification of a fossil wood sample coming from Angeac (Aquitanian Basin, France, cretaceous:paleocene)
DOI: 10.5061/dryad.4sn22/4
title: Angeac_water-desorption

description: This file corresponds to a sequence of neutron transmission images recorded on a fossil wood during drying. The wood comes from Angeac (Aquitanian basin, Cretaceous:Paleocene)
DOI: 10.5061/dryad.7488p/1
title: Proceedings B - Truskanov & Lotem - Trial and error copying data

description: A table listing the different actions performed by the house sparrow fledglings in both training and test phases of the two action experiment.
DOI: 10.5061/dryad.79d91/1
title: Fasta and tree files used for the analyses

description: The folder contains the fasta files used to generate the ML phylogenies, the tree files generated, the scaffolds of the four fungal genomes and the fasta files used for recombination analyses. For further information see the "read me" text with explanations for each file.
DOI: 10.5061/dryad.7b2p6/1
title: Gupta-Vale-G9a-tolerance-RSOS-Experimental data

description: Survival and viral titers for individual replicate flies challenged with a range of concentrations of Drosophila C Virus.
DOI: 10.5061/dryad.7b2p6/2
title: Gene expression data

description: Expression of JAK-Stat immune genes in flies challenged with DCV
DOI: 10.5061/dryad.9ds7r/1
title: Functional response for short-term intake rate of dry matter in heifers

description: This file contains the data of the short-term intake rate of dry matter experiment published in Mezzalira et al. 2017, Journal of Animal Ecology. The objective of the study is to understand the mechanisms and implication of the type 4 functional response (dome-shaped) observed in this experiment. The readme file contains description of the variables present in the data file.
DOI: 10.5061/dryad.c5g25/1
title: NexusFile

description: Nexus file for phylogenetic analysis.
DOI: 10.5061/dryad.fn53k/1
title: KruegerHadfieldetal_EcolEvol_ploidy

description: Ploidy designation of each thallus used in this study
DOI: 10.5061/dryad.fn53k/2
title: KruegerHadfieldetal_EcolEvol_diploidstotal

description: GenAlEx file with all diploid thalli (before Psex calculation)
DOI: 10.5061/dryad.fn53k/3
title: KruegerHadfieldetal_EcolEvol_haploidstotal

description: GenAlEx file with all haploid thalli (before Psex calculation)
DOI: 10.5061/dryad.fn53k/4
title: KruegerHadfieldetal_EcolEvol_diploidspsex

description: GenAlEx file with diploid thalli where Psex &gt; 0.05
DOI: 10.5061/dryad.fn53k/5
title: KruegerHadfieldetal_EcolEvol_cox1_haplotypes

description: cox1 Haplotypes from Kim et al. (2010) and our study
DOI: 10.5061/dryad.fn53k/6
title: KruegerHadfieldetal_EcolEvol_gvseqs

description: G. vermiculophylla sequences from this study and haplotypes from Kim et al. (2010) and our study
DOI: 10.5061/dryad.fn53k/7
title: KruegerHadfieldetal_EcolEvol_cox1SNP

description: cox1 SNP (C or T) for each thallus
DOI: 10.5061/dryad.jd417/1
title: Raw data

description: Raw data from all the experiments
DOI: 10.5061/dryad.kb60v/1
title: wasp.pedigree.data

description: Pedigree and phenotype data
DOI: 10.5061/dryad.n50cr/1
title: Multivariate selection in Hyla chrysoscelis - phonotaxis data
DOI: 10.5061/dryad.nb40v/1
title: DRYAD_JHUA

description: Data for: Evolved pesticide tolerance influences susceptibility to parasites in amphibians
DOI: 10.5061/dryad.p24q3/1
title: Oenothera harringtonii microsatellite genotypes

description: Microsatellite genotypes for parental and offspring individuals included in this study. Each row represents a unique O. harringtonii individual whose identifier is given in the first column. In the "parents" sheet, the parentID column gives the unique identifier for each parental individual. In the "offspring" sheet, the offspringID column gives the unique identifier for each offspring individual, which consists of the maternal identifier followed by an indication of pollinator exclusion treatment (C = control, D = day-excluded, N = night-excluded) and an integer that distinguishes that individual from others in the same maternal sibship. In both sheets, subsequent columns contain allele sizes for each of seven diploid loci.
DOI: 10.5061/dryad.p24q3/2
title: pollinator exclusion, spatial isolation and multiple paternity

description: Pollinator exclusion treatment, individual-level spatial isolation and correlated paternity estimates for the seed families included in this study. Each row represents a sample of seeds taken from a single fruit. For a given seed family, "plantID" gives the maternal line identifier, "treatment" gives the pollinator exclusion treatment (c = control, de = day-excluded, ne = night-excluded), "isolation20" gives the sum of Euclidean distances (m) between the maternal plant and its twenty nearest neighbors, and "correlatedPaternity" gives the MLTR estimate of correlated paternity.
DOI: 10.5061/dryad.p24q3/3
title: pollen dispersal distances

description: Pollen dispersal distances analyzed in this study. Each row represents a single seed for which a high-confidence paternity assignment was obtained. For each such seed, "treatment" gives the pollinator exclusion treatment (C = control, DE = day-excluded, NE = night-excluded) and "distance" gives the straight-line distance (m) between the maternal plant and the assigned paternal plant.
DOI: 10.5061/dryad.p24q3/4
title: morning pollinator visitation

description: Pollinator visitation data for morning observation periods during our study. Each row represents the visitation frequency of a certain type of pollinator during a given observation period. For each observation period, "abundance" gives the number of foraging bouts per observed flower, and "pollinator" gives the pollinator identity (bee or moth).