cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.7p5h6/1
title: Data for:  Breeding synchrony and extrapair paternity in a species with alternative reproductive strategies

description: This excel file contains information about the levels of extrapair paternity found in clutches of a polymorphic species, the white-throated sparrow (Zonotrichia albicollis).  Levels of breeding synchrony are given for each clutch (nesting attempt).  Each line contains data on one nestling, and nestlings are grouped into clutches.  Information about male characteristics, breeding density, number of territorial neighbors, date, and clutch number (e.g., first or second nesting attempt) is also provided.  PercentW is the proportion of the population consisting of white morph (versus the alternative tan morph) males.
DOI: 10.5061/dryad.81nm9/1
title: BayesTraits

description: BayesTraits output files
DOI: 10.5061/dryad.81nm9/2
title: BioGeoBears

description: BioGeoBears output files
DOI: 10.5061/dryad.8638h/1
title: Dataset_Study1a

description: Data Study 1a
DOI: 10.5061/dryad.8638h/2
title: Dataset_Study 1b

description: Data Study 1b
DOI: 10.5061/dryad.8638h/3
title: Dataset_Study 2

description: Data Study 2
DOI: 10.5061/dryad.8h5d8/1
title: MW1B_pollen.xlsx

description: Pollen data from site MW1B.
DOI: 10.5061/dryad.8h5d8/2
title: MW1B charcoal.xlsx

description: Charcoal data from site MW1B.
DOI: 10.5061/dryad.8h5d8/3
title: MW13+14_Pollen.xls

description: Pollen data for site MW13+14.
DOI: 10.5061/dryad.8h5d8/4
title: MW13+14 charcoal.xlsx

description: Charcoal data for site MW13+14.
DOI: 10.5061/dryad.98c6c/1
title: AbovegroundMaterial_NutrientConcentrations

description: Concentrations of biogenic silica (as %SiO2 by dry weight), and nutrient ratios of Si:C and Si:N in aboveground material of tussocks (E. vaginatum) in MAT and MNT plots, plus aboveground material of gramminoids found in the WST. Values from each individual plot at each site.
DOI: 10.5061/dryad.98c6c/2
title: Blwgrnd_Tussock

description: Biogenic silica concentrations (as %SiO2 by dry weight) of belowground plant material in the tussocks for each core, at each depth, at the three MAT and one MNT site.
DOI: 10.5061/dryad.98c6c/3
title: Blwgrnd_BSi_InterTuss

description: Biogenic silica concentrations (as %SiO2 by dry weight) of belowground plant material in the inter-tussocks for each core, at each depth, at the three MAT and one MNT site.
DOI: 10.5061/dryad.9c2j1/1
title: Nyman_etal_complete_dataset

description: Behaviour and gene expression data
DOI: 10.5061/dryad.9c2j1/2
title: Explanatory_text_file_Nyman_etal

description: Abbreviations of words used in the data file Nyman_etal_complete_dataset
DOI: 10.5061/dryad.g3qh8/2
title: Otter trawl catches - Irish Sea

description: The catch composition of all species per trawl for the otter trawl catches. One or two tows of 30 min were carried out at each station with an otter trawl (distance across mouth of the net 16 m, 82 mm diamond mesh cod-end) at a speed of 3 knots between 06.00h and 17.00h. The total catch number and weight per species was measured.
DOI: 10.5061/dryad.g3qh8/3
title: D13C and D15N - Irish Sea

description: Stable isotope δ13C  and δ15N signatures for Nephrops from the Irish Sea. White muscle tissue was extracted from the first tail segment with shell, digestive and nerve tract removed. Nephrop samples were stored frozen at -18°C after capture for later analysis in the laboratory. In the laboratory all tissue samples were oven dried for 24 hours at 75°C. Each individual tissue sample was ground to a homogenous powder using an agate pestle and mortar. Subsequently, 1.5-2.0 mg of the resulting powder was weighed into tin capsules for stable isotope analysis. Tissue samples were combusted for C and N isotope compositions using continuous flow isotope ratio mass spectrometry (CF-IRMS) THERMO delta X PLUS mass spectrometer (Scientific Technical Services - University of the Balearic Islands). The isotope mass spectrometer was operating in dual mode measuring δ15N and δ13C in the same sample Additionally C/N ratios are provided.
DOI: 10.5061/dryad.g3qh8/4
title: D13C and D15N - Kattegat

description: White muscle tissue samples from 5-6 individuals of each respective study species were collected for each station.  For the flatfish, a 2 x 2 cm piece of white muscle tissue was taken with the skin removed approximately 2 cm to the right of the pectoral fin and 1 cm above the lateral line. For the Nephrops, white muscle tissue was extracted from the first tail segment with shell, digestive and nerve tract removed. Due to logistical constraints of the sampling, all samples from t were preserved in 100% pure ethanol for transport to the laboratory.  In the laboratory all tissue samples were oven dried for 24 hours at 75°C. Each individual tissue sample was ground to a homogenous powder using an agate pestle and mortar. Subsequently, 1.5-2.0 mg of the resulting powder was weighed into tin capsules for stable isotope analysis. Tissue samples were combusted for C and N isotope compositions using continuous flow isotope ratio mass spectrometry (CF-IRMS) THERMO delta X PLUS mass spectrometer (Scientific Technical Services - University of the Balearic Islands). The isotope mass spectrometer was operating in dual mode measuring δ15N and δ13C in the same sample. Additionally C/N ratios are provided.
DOI: 10.5061/dryad.g3qh8/5
title: Nephrops length weight - Irish Sea

description: Nephrops norvegicus length and weight data that was used to estimate their condition. The carapace length and the total weight was measured, and their sex recorded. Futhermore if females carried eggs. Note that body weight is clawless weight.
DOI: 10.5061/dryad.j0n62/3
title: Datafile_final

description: Participatory fishery monitoring data from the 2015 and 2016 seasons of the Sainte Luce community managed small-scale lobster fishery, Madagascar. Contains 6 csv files with all data underlying analyses, figures, tables and conclusions in the associated paper. Readme_final.txt provides detail on each file.
DOI: 10.5061/dryad.n1h4n/1
title: Translational velocity in response to the target signal and masker presented alone

description: Masker presentation started and ended 0.5 and 4.5 seconds after the onset of data acquisition respectively. Signal presentation started and ended 1.0 and 4.0 seconds after the onset of data acquisition, respectively. Data plotted in figure 2A.
DOI: 10.5061/dryad.n1h4n/10
title: Virtual walking path in response to spatially separated target signal and masker presented at different signal-to-noise ratios (SNRs).

description: The target signal was presented at 76 dB SPL while the masker intensity was varied to achieve three SNRs (-6, 0, +6 dB). ‘X’ and ‘Y’ coordinates of virtual walking paths measured from the trackball system. Data plotted in figure 4C (right).
DOI: 10.5061/dryad.n1h4n/2
title: Steering velocity in response to the target signal and noise alone

description: Masker presentation started and ended 0.5 and 4.5 seconds after the onset of data acquisition respectively. Signal presentation started and ended 1.0 and 4.0 seconds after the onset of data acquisition, respectively. Data plotted in figure 2B.
DOI: 10.5061/dryad.n1h4n/3
title: Virtual walking path in response to the target signal and masker presented alone

description: ‘X’ and ‘Y’ coordinates of virtual walking paths measured from the trackball system. Data plotted in figure 2C.
DOI: 10.5061/dryad.n1h4n/4
title: Behavioral response thresholds in response to a target signal in quiet, spatially grouped, and separated signal and masker

description: Data plotted in figure 3.
DOI: 10.5061/dryad.n1h4n/5
title: Translational velocity in response to spatially grouped target signal and masker presented at different signal-to-noise ratios (SNRs)

description: The target signal was presented at 76 dB SPL while the masker intensity was varied to achieve three SNRs (-6, 0, +6 dB). Masker presentation started and ended 0.5 and 4.5 seconds after the onset of data acquisition respectively. Signal presentation started and ended 1.0 and 4.0 seconds after the onset of data acquisition, respectively. Data plotted in figure 4A (left).
DOI: 10.5061/dryad.n1h4n/6
title: Steering velocity in response to spatially grouped target signal and masker presented at different signal-to-noise ratios (SNRs)

description: The target signal was presented at 76 dB SPL while the masker intensity was varied to achieve three SNRs (-6, 0, +6 dB). Masker presentation started and ended 0.5 and 4.5 seconds after the onset of data acquisition respectively. Signal presentation started and ended 1.0 and 4.0 seconds after the onset of data acquisition, respectively. Data plotted in figure 4B (left).
DOI: 10.5061/dryad.n1h4n/7
title: Virtual walking path in response spatially grouped target signal and masker presented at different signal-to-noise ratios (SNRs).

description: The target signal was presented at 76 dB SPL while the masker intensity was varied to achieve three SNRs (-6, 0, +6 dB). ‘X’ and ‘Y’ coordinates of virtual walking paths measured from the trackball system. Data plotted in figure 4C (left).
DOI: 10.5061/dryad.p397k/3
title: Table S1. Variance inflation factors and Pearson’s correlations among covariates in the analysis.

description: Table S1. Variance inflation factors (VIF; first column) and a matrix of pairwise correlation coefficients (Pearson r) between forest characteristics and land-use covariates in modeling patch use by fishers (Pekania pennanti) across Pennsylvania, USA, 2007-2008. Large variance inflation factors (VIF &gt; 4.00) and strong correlation coefficients (|r| &gt; 0.70) are in bold. Correlation coefficients of moderate strength (|r| &gt; 0.50) are italicized.
DOI: 10.5061/dryad.p397k/4
title: Text S1. Description of correlations among covariates

description: Text S1. Description of correlations among covariates in the analysis and other measurements of forest characteristics and land uses within the survey cells.
DOI: 10.5061/dryad.p397k/5
title: Data S1. DNA sequences of fisher

description: Data S1. DNA sequence file of samples identified as fisher (Pekania pennanti) from hair snare surveys conducted in Pennsylvania, USA from July 2007 to October 2008.
DOI: 10.5061/dryad.p46n0/1
title: Bottleneck Simulator

description: This folder contains the program files for the bottleneck simulator and a readme file that describes how the program works.
DOI: 10.5061/dryad.p46n0/5
title: Simulator_Output_Files

description: This folder contains the outputs from the simulator on bottlenecks and phase variation.
DOI: 10.5061/dryad.p46n0/6
title: Scripts_for_Figure_Preparation

description: This folder contains the scripts used for preparation of the figures in the mBio paper.
DOI: 10.5061/dryad.rh27t/1
title: Allan et al. 2017 PROC B DRYAD DATA
DOI: 10.5061/dryad.tj428/1
title: Teleocrater matrix Nesbitt 2011 dataset final with Scleromochlus

description: Phylogenetic dataset file in tnt format.
DOI: 10.5061/dryad.tj428/3
title: Teleocrater matrix Nesbitt 2011 dataset final

description: Phylogenetic dataset file in tnt format.
DOI: 10.5061/dryad.tj428/5
title: Teleocrater matrix Ezcurra 2016 dataset final with Scleromochlus

description: Phylogenetic dataset file in nexus format.
DOI: 10.5061/dryad.18bd8/1
title: supplementary_ecography-2

description: Extinction risk and ecological traits of Chinese birds.
DOI: 10.5061/dryad.3f1c8/1
title: SNP array data including linked loci (7,783 SNPs)

description: SNP array data of 527 Atlantic cod (Gadus morhua), genotyped at 7,783 loci (dataset including linked SNPs). Genepop format (http://genepop.curtin.edu.au/help_input.html): first line: datafile information; second line: loci names (dbSNP accession numbers); line 3-543 genotypes for each locus (01=A, 02=C, 03=G, 04=T), one individual per row, sampling sites are separated by “pop”. All SNPs are referred to by their database of Single Nucleotide Polymorphisms (dbSNP) accession numbers, available from: http://www.ncbi.nlm.nih.gov/SNP. First three characters of individual names correspond to population IDs: ENG, English Channel; NOR, North Sea; TVE, Tvedestrand; SOP, Soppekilen; HEL, Hellefjord; FRI/GRE, Grenland; OSL, Oslofjord; IDD, Iddefjord; SKA, Skagerrak; GUL, Gullmarsfjord; HAV, Havstensfjord; KAT, Kattegat; ORE, Öresund; BEL, Belt Sea.
DOI: 10.5061/dryad.3f1c8/2
title: SNP array data excluding linked loci (6,658 SNPs)

description: SNP array data of 527 Atlantic cod (Gadus morhua), genotyped at 6,658 loci (dataset excluding linked SNPs). Genepop format (http://genepop.curtin.edu.au/help_input.html): first line: datafile information; second line: loci names (dbSNP accession numbers); line 3-543 genotypes for each locus (01=A, 02=C, 03=G, 04=T), one individual per row, sampling sites are separated by “pop”. All SNPs are referred to by their database of Single Nucleotide Polymorphisms (dbSNP) accession numbers, available from: http://www.ncbi.nlm.nih.gov/SNP. First three characters of individual names correspond to population IDs: ENG, English Channel; NOR, North Sea; TVE, Tvedestrand; SOP, Soppekilen; HEL, Hellefjord; FRI/GRE, Grenland; OSL, Oslofjord; IDD, Iddefjord; SKA, Skagerrak; GUL, Gullmarsfjord; HAV, Havstensfjord; KAT, Kattegat; ORE, Öresund; BEL, Belt Sea.
DOI: 10.5061/dryad.406fd/4
title: provisioning
DOI: 10.5061/dryad.406fd/5
title: weather
DOI: 10.5061/dryad.4fj7r/1
title: Movie S1 Stomatopod collapse Klompmaker et al 2017
DOI: 10.5061/dryad.4fj7r/2
title: Table S1. metadata full experiment Klompmaker et al 2017
DOI: 10.5061/dryad.4fj7r/3
title: Table S2. Measurements specimens. Klompmaker et al 2017
DOI: 10.5061/dryad.4fj7r/4
title: Table S3. Full experiment data. Klompmaker et al 2017 final
DOI: 10.5061/dryad.4fj7r/5
title: Figure S1

description: Figure S1. Soft tissue presence per species per specimen.
DOI: 10.5061/dryad.4fj7r/6
title: Figure S2

description: Figure S2. Cuticle colouration per species per specimen.
DOI: 10.5061/dryad.4fj7r/7
title: Figure S3

description: Figure S3. Separation abdomen and carapace per species per specimen.
DOI: 10.5061/dryad.53v1r/1
title: Enhanced_Weathering_Public_SurveyData

description: Data was collected online using Qualtrics survey software in April 2016 from 935 participants drawn from across the UK. The source file is in EXCEL (.csv file format). Original data analysis was conducted using SPSS. File contains participant gender plus 11 items asking about enhanced weathering and climate policy. Refer to Table 1 in the published paper (Pidgeon and Spence, 2017) for full details of precise questions asked and response categories.
DOI: 10.5061/dryad.5k30c/1
title: Data used for analyses of the enzyme stability-activity relationship

description: Data were obtained from a literature search. Web of Science searches from 1968 through 2016 were performed under the topic terms (1) “enzyme stability” and “temperature” and (2) “temperature adaptation” and “protein”, respectively.To be included, data were required for three or more purified orthologous enzymes for some measure of both (1) enzyme stability and (2) enzyme kinetics assayed at a common garden temperature. For the former, this included enzyme denaturation temperature (Tm), enzyme optimal temperature (Topt), time to 50% enzyme inactivation (T50) or other estimate of residual activity, and the free energy of unfolding (GU). For the latter, this included enzyme catalytic turnover number (kcat), maximal rate of catalysis (Vmax), enzyme specific activity, and the Michaelis constant (Km), a measure of an enzyme’s substrate affinity (1/Km is related but not identical to enzyme binding affinity).
DOI: 10.5061/dryad.63030/1
title: NIRS-ECMO Database-v21_2_17

description: This database has been anonymized. It includes the demographic data of the 34 patients included in this study conducted at the Trousseau Hospital. It includes data on cerebral tissue saturation and cerebral imaging data
DOI: 10.5061/dryad.6nk15/1
title: Lamb behavioural data

description: This file contains all the data necessary to replicated all the lamb behavioural analyses.
DOI: 10.5061/dryad.6nk15/2
title: Ewe data

description: This file contains all the data necessary to replicate the analyses of female behavioural data
DOI: 10.5061/dryad.6nk15/3
title: Growth data

description: This file contains all the data necessary to replicate the analyses of early lamb growth
DOI: 10.5061/dryad.74f2r/20
title: Maximum clade credibility tree of FBDl age range

description: This is the inferred maximum clade credibility tree based on common ancestor tree heights. The tree summarizes the 1401 randomly subsampled trees of the fossilized birth-death analysis using 21 fossils, resulting from the beast2 analysis using the FBDl_ageRange.xml input-file.
DOI: 10.5061/dryad.74f2r/21
title: Subsample of trees from FBDl "age range" analysis

description: This is a set of 1401 subsampled random trees from the posterior distribution of the fossilized birth-death analysis using 21 fossils (see FBDl_ageRange.xml file for detailed settings of the Bayesian analysis).
DOI: 10.5061/dryad.74f2r/22
title: Input file for FBDl "age range" analysis

description: This is the XML file which configures all parameters for the beast2 program for the Bayesian MCMC analysis using the fossilized birth-death dating approach including 21 fossils, based on an "age range" dating approach (FBDl_ageRange). The file was generated in BEAUti 2.3.1.
DOI: 10.5061/dryad.74f2r/23
title: Maximum clade credibility tree of FBDs age range

description: This is the inferred maximum clade credibility tree based on common ancestor tree heights. The tree summarizes the 1401 randomly subsampled trees of the fossilized birth-death analysis using 14 fossils, resulting from the beast2 analysis using the FBDs_ageRange.xml input-file.
DOI: 10.5061/dryad.74f2r/24
title: Subsample of trees from FBDs "age range" analysis

description: This is a set of 1401 subsampled random trees from the posterior distribution of the fossilized birth-death analysis using 14 fossils (see FBDs_ageRange.xml file for detailed settings of the Bayesian analysis).
DOI: 10.5061/dryad.74f2r/25
title: Input file for FBDs "age range" analysis

description: This is the XML file which configures all parameters for the beast2 program for the Bayesian MCMC analysis using the fossilized birth-death dating approach including 14 fossils, based on an "age range" dating approach (FBDs_ageRange). The file was generated in BEAUti 2.3.1.
DOI: 10.5061/dryad.74f2r/26
title: Maximum clade credibility tree of NDus

description: This is the inferred maximum clade credibility tree based on common ancestor tree heights. The tree summarizes the 1401 randomly subsampled trees of the node dating analysis using 12 fossils (based on an uniform density prior), resulting from the beast2 analysis using the NDus.xml input-file.
DOI: 10.5061/dryad.74f2r/6
title: Input file for FBDs analysis

description: This is the XML file which configures all parameters for the BEAST program for the Bayesian MCMC analysis using the fossilized birth-death dating approach including 14 fossils (FBDs). The file was generated in BEAUti 2.3.1.
DOI: 10.5061/dryad.81nm9/3
title: HiSSE

description: HiSSE output files
DOI: 10.5061/dryad.81nm9/4
title: Rubiaceae Time Tree

description: BEAST setting and output files
DOI: 10.5061/dryad.81nm9/5
title: Specmacoceae Time Tree

description: BEAST setting and output files
DOI: 10.5061/dryad.8r0q8/1
title: Data from Guinand et al (2017) Metapopulation patterns of additiveandnon-additive genetic variance in the sea bass (Dicentrarchus labrax)

description: Three spreadsheets containing sire and dam data are reported. Spreadsheet 1 contains data (n = 7120 fish) used in the first model described in the paper including  data for n = 2877 fish used in the second model ("sex-ratio model") in a specific column. Spreadsheets 2 and 3 are the genotypes of the parents (both sire and dams), and the genotypes of the offspring, respectively
DOI: 10.5061/dryad.98c6c/4
title: Blwgrnd_WST_5.30.17

description: Biogenic silica concentrations (as %SiO2 by dry weight) of belowground plant material for each core, at each depth, at the WST site.
DOI: 10.5061/dryad.c0g33/1
title: PacBio assemblies from Khost et al 2017

description: Five PacBio assemblies of D. melanogaster ISO1 strain used in Khost et al 2017 (doi: https://doi.org/10.1101/054155) This paper focuses on assembly and structure of satellite DNA loci in D. mel. Please see the README for addition details.
DOI: 10.5061/dryad.d227g/1
title: AFLP data matrices

description: AFLP-profile matrices from 87 individuals of the Leucanthemum ageratifolium group. Total AFLP-dataset (aflpdata1) and dataset without putative hybrid individuals (aflpdata2).
DOI: 10.5061/dryad.d227g/2
title: DNA sequence alignments

description: DNA sequence alignments containing sequence information of individuals of the L. ageratifolium group for four nuclear (A39, C12, C33, D23) and five chloroplast (petN-psbM, psbA-trnH, trnC-petN, trnL-trnF, trnQ-rps16) loci. Datasets, providing sequence information of all populations under study are labeled by seqdata1. Datasets without individuals of putative hybrid origin are labeled by seqdata2.
DOI: 10.5061/dryad.d227g/3
title: xml files for BEAST analyses

description: xml files for BEAST analyses (DISSECT, SNAPP, Bayes Factor delimitation). File names of total datasets (seqdata1) and datasets without individuals of putative hybrid origin (seqdata2) are labeled by different species delimitation scenarios (A-H, see publication for details) or used priors (collapsing height and collapsing weight parameters, see publication for details).
DOI: 10.5061/dryad.fd0gb/1
title: R-script

description: This is the R-script needed to reproduce the analysis of drivers of compositional and phylogenetic beta-diversity in Atlantic Forest snake assemblages.
DOI: 10.5061/dryad.fd0gb/2
title: Raw data

description: This csv file contains all raw data needed to run the R-script provided in this digital repository. Briefly, the first row of this file is the heading, and the next 218 rows correspond to the values of geographic coordinates (decimal degrees), species richness (integer), phylogenetic diversity (numeric), dissimilarity matrices (based on Simpson Index and PhyloSor-sim), number of survey methods (integer), number of sampling period (integer, years), survey methods (eigth dummy variables), bioclimatic space (factor, northern-AF = 1; southern-AF = 2), environmental variables (12 predictors related to thermal, water, and topographic conditions), spatial filters (58 distance-based Moran's Eigenvector Maps), and phylogenetic structure (mean pairwise phylogenetic distance within snake assemblages).
DOI: 10.5061/dryad.g3qh8/6
title: Irish Sea otter trawl and grab positions

description: Latitude and longitude of the station sampled in the Irish Sea
DOI: 10.5061/dryad.g3qh8/8
title: DOI: http://dx.doi.org/10.5061/dryad.04dv4

description: The data presented in the publication from the Kattegat, except for the isotope (see above), data can be found in Dyrad associated to an earlier publications by the authors: 
Data from: Bottom trawling affects fish condition through changes in the ratio of prey availability to density of competitors
Hiddink JG, Moranta J, Balestrini S, Sciberras M, Cendrier M, Bowyer R, Kaiser MJ, Sköld M, Jonsson P, Bastardie F, Hinz H
Date Published: May 31, 2016
DOI: http://dx.doi.org/10.5061/dryad.04dv4
To access the Kattegat data please use the following link
http://datadryad.org/resource/doi:10.5061/dryad.04dv4
DOI: 10.5061/dryad.n1h4n/11
title: Virtual walking path in response to the target signal presented in isolation.

description: The target signal was presented at 76 dB SPL from a forward speaker. ‘X’ and ‘Y’ coordinates of virtual walking paths measured from the trackball system. Data plotted in figure 5A.