cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.gs27k/3
title: Lolium SSR genalex format

description: File containing genotype data from 12 microsatellite (SSR) loci for 412 individuals from 14 Lolium perenne ssp. multiflorum populations from California formatted for analysis with Genalex package in Excel software.
DOI: 10.5061/dryad.h9942/10
title: The functional annotation and gene expression level file of the predicted Modiolus philippinarum gene models

description: Abbreviations used in this excel table:
tpm, Transcripts Per Kilobase Million; AM, adductor muscle; F, foot; G, gill; M, mantle; and VM, visceral mass.
DOI: 10.5061/dryad.h9942/3
title: Bathymodiolus platifrons genome annotation file (gff3 format)
DOI: 10.5061/dryad.h9942/4
title: Modiolus philippinarum genome annotation file (gff3 format)
DOI: 10.5061/dryad.h9942/5
title: The predicted transcript sequences of the MAKER v3.0 annotations for the genome of Bathymodiolus platifrons (fasta format)
DOI: 10.5061/dryad.h9942/6
title: The predicted protein sequences of the MAKER v3.0 annotations for the genome of Bathymodiolus platifrons (fasta format)
DOI: 10.5061/dryad.h9942/7
title: The predicted transcript sequences of the MAKER v3.0 annotations for the genome of Modiolus philippinarum (fasta format)
DOI: 10.5061/dryad.h9942/8
title: The predicted protein sequences of the MAKER v3.0 annotations for the genome of Modiolus philippinarum (fasta format)
DOI: 10.5061/dryad.h9942/9
title: The functional annotation and gene expression level file of the predicted Bathymodiolus platifrons gene models

description: Abbreviations used in this excel table:
tpm, Transcripts Per Kilobase Million; AM, adductor muscle; F, foot; O, ovary; G, gill; M, mantle; and VM, visceral mass.
DOI: 10.5061/dryad.k029v.1
title: Data from: Implications of fidelity and philopatry for the population structure of female black-tailed deer
DOI: 10.5061/dryad.k029v.1/1.1
title: Weekly location data deer fidelity analysis

description: File contains individual deer ID as well as date, latitude, longitude and allocated season of GPS locations used to determine site fidelity of black-tailed deer in the Mendocino National Forest, California, USA.
DOI: 10.5061/dryad.k029v.1/2.1
title: Fidelity_deer_summary

description: File contains information on deer ID, age, area and period of time a deer was colalred, number of seasons (summer and winter) a deer was monitored, info on weather a deer was non-migratory (column N0 = 1) and status at the end of the monitoring period to estimate cox proportional hazards.
DOI: 10.5061/dryad.k029v.2
title: Data from: Implications of fidelity and philopatry for the population structure of female black-tailed deer
DOI: 10.5061/dryad.k029v.2/1.2
title: Weekly location data deer fidelity analysis

description: File contains individual deer ID as well as date, latitude, longitude and allocated season of GPS locations used to determine site fidelity of black-tailed deer in the Mendocino National Forest, California, USA.
DOI: 10.5061/dryad.k029v.2/2.2
title: Fidelity_deer_summary

description: File contains information on deer ID, age, area and period of time a deer was colalred, number of seasons (summer and winter) a deer was monitored, info on weather a deer was non-migratory (column N0 = 1) and status at the end of the monitoring period to estimate cox proportional hazards.
DOI: 10.5061/dryad.k71q8/1
title: Simulation of the evolution of inbreeding load under partial selfing

description: Starting with allele frequencies corresponding to the mutation-selection balance, this program simulates the evolution of independent loci under mutation and selection in populations with N monoecious individuals. These populations are run for t generations (generaciones) assuming a given selfing rate. The inbreeding load is computed as B=Σ2dpq (the addition is over loci; see article), and its value at the Mutation-Selection-Drift-Inbreeding balance must be obtained by averaging B over a number of generations well after it reached a plateau. Values were averaged over a number of simulation replicates (repeticiones).
DOI: 10.5061/dryad.kb1pk/1
title: VCF files Rad tag all lakes

description: Variant call format file holding genotype information for all individuals including in the study. Only marker with at least 10 individuals per morph are included.
DOI: 10.5061/dryad.kb1pk/2
title: VCF file used to create Site Frequency spectrum Managua-Apoyeque

description: Variant Call Format file used to create Site Frequency spectrum for Managua-Apoyeque.
DOI: 10.5061/dryad.mc1j9/1
title: Metabolic transport network of the human gut microbiota (NJS16)

description: A global interspecies metabolic interaction network of the human gut microbiota (NJS16), composed of ~570 microbial species and 3 human cell types metabolically interacting through &gt;4,400 small-molecule transport and macromolecule degradation events. The information upon which the network architecture stands is primarily from literature-based annotations.
DOI: 10.5061/dryad.nj3c0/1
title: Eisenhauer et al 2017 Sci Rep Data
DOI: 10.5061/dryad.q5tm5/4
title: Taxa partition

description: Taxa partition in nexus format for use in SVDq analysis implemented in PAUP 4a150. To be used in conjunction with RAD dataset in nexus format.
DOI: 10.5061/dryad.qq828/1
title: The data matrix for Bayesian analysis

description: The data matrix for Bayesian analysis
DOI: 10.5061/dryad.qq828/2
title: The data matrix for maximum likelihood analysis

description: The data matrix for maximum likelihood analysis
DOI: 10.5061/dryad.qq828/3
title: The data matrix for Bayesian relaxed molecular clock analysis

description: The data matrix for Bayesian relaxed molecular clock analysis
DOI: 10.5061/dryad.qq828/4
title: COI sequences for network analysis

description: COI sequences for network analysis
DOI: 10.5061/dryad.qv14t/7
title: Manihot caerulescens midrib
DOI: 10.5061/dryad.s533p.1
title: Data from: Bats (Chiroptera: Noctilionoidea) challenge a recent origin of extant neotropical diversity
DOI: 10.5061/dryad.s533p.2/7.2
title: timing_speciation

description: R script to quantify the number and timing of speciation events between extant sister species for the Quaternary and pre-Quaternary (Neogene + Paleogene) periods on a posterior sample of time-calibrated phylogenies. The code can be modified to accommodate older periods if necessary. The file "my_trees.nex" is a generic example that refers to any file including a posterior distribution of trees.
DOI: 10.15169/sci-gaia:1479909283.26
title: Data set for Plantisc application

description: Plant tissue culture is a collection of techniques used to maintain or grow plant cells, tissues or organs under sterile conditions on a nutrient culture medium of known composition. Plant tissue culture is widely used to produce clones of a plant in a method known as micropropagation. During the UNESCO-HP Brain Gain Initiative (BGI) project (2009-2013), the University of Nigeria team conducted series of plant tissue culture experiments and developed a stand-alone application, Plantisc. A Plant Tissue Culture micro propagation simulation software, which achieved over 67% predication accuracy whose result was published in a peer-reviewed journal The data set embedded is used for building the system discussed above.
DOI: 10.17632/fpn2j79b5c.1
title: MOLECULAR-CELL-D-16-01248R1

description: original data for MOLECULAR-CELL-D-16-01248R1
DOI: 10.5061/dryad.01th0/1
title: Table S4: Body temperature data

description: This .csv file contains data used in the analyses of body temperature and thermoregulation in the manuscript "It's cool to be dominant". Key to the column headings as follows: 

date: date of collection of data point.
time.round: time of collection of data point, rounded to the nearest minute.
time.deci: time.round converted to a decimal.
species: bird species (common names).
bird.id: unique colour-ring code of the bird.
Tb: body temperature of the bird.
soc.rank:	social rank of the bird (1 =  most dominant).
Ta: air temperature as recorded by the weather station.
tod: time of day: day = 6:00am – 7:59pm; night = 8:00pm - 5:59am.
mass: capture body mass of the bird.
sex: sex of the bird, m = male, f= female, u = undetermined.
DOI: 10.5061/dryad.01th0/2
title: Table S5: Behavioural data

description: This .csv file contains data used in the analyses of behavioural thermoregulatory strategies shade-seeking, activity, and panting in the manuscript "It's cool to be dominant". Key to the column headings as follows:
date: date of collection of data point.
time.round: time of collection of data point, rounded to the nearest minute.
species: bird species (common names).
bird.id: unique colour-ring code of the bird.
soc.rank: social rank of the bird (1 =  most dominant).
mass: capture body mass of the bird.
sex: sex of the bird, m = male, f= female, u = undetermined.
Ta: air temperature as recorded by the weather station.
panting: binary behaviour variable where 1 = panting, 0 = not panting.
active: binary behaviour variable where 1 = active, 0 = inactive.
shade: binary behaviour variable where 1 =in shade, 0 =in sun.
DOI: 10.5061/dryad.180nh/1
title: aligned_supermatrix_36156_x_52_phylip

description: Aligned supermatrix, 180 genes, 36,156 amino acid positions, 52 taxa. Phylip format.
DOI: 10.5061/dryad.5nk5n/1
title: TPC modelling results for littoraria sinensis

description: Results of thermal performance curve models using an exponential modified Gaussian model for Littoraria sinensis along the coast of China
DOI: 10.5061/dryad.5nk5n/2
title: TPC modelling results littorina brevicula

description: Results of thermal performance curve models using an exponential modified Gaussian model for Littorina brevicula along the coast of China
DOI: 10.5061/dryad.5nk5n/3
title: TPC modelling results Nerita yoldii

description: Results of thermal performance curve models using an exponential modified Gaussian model for Nerita yoldii along the coast of China
DOI: 10.5061/dryad.725m1/1
title: geneticdata

description: C. parasitica isolates were genotyped with  10 microsatellite markers data. The file contains genotypes of the studied isolates and the genotypes found in France
DOI: 10.5061/dryad.725m1/2
title: phenotypic data

description: The file contains mean growth rate of C.parasitica in vitro at four temperatures, and minimal and maximal temperatures at their sampling site.
DOI: 10.5061/dryad.8ff71/7
title: Additional file 5_cloned CenSol repeats

description: CenSol repeat sequences cloned from the genome of Solenopsis invicta and Solenopsis geminata
DOI: 10.5061/dryad.b68g0/2
title: mysticete body lengths

description: Body length data for fossil and extant mysticetes
DOI: 10.5061/dryad.b68g0/3
title: 2008CompilationData

description: delta^18O data from Zachos et al. used to produce proxy temperature curve
DOI: 10.5061/dryad.b68g0/4
title: BEAST 2 xml file used to infer phylogeny of mysticetes under FBD model from morphological and molecular data
DOI: 10.5061/dryad.b68g0/5
title: SizeEvolutionAnalyses

description: R script to perform macroevolutionary analyses (requires functions script)
DOI: 10.5061/dryad.b68g0/6
title: functions

description: Functions required to perform macroevolutionary analyses
DOI: 10.5061/dryad.b68g0/7
title: simulation_tests

description: Script to perform simulations examining model performance (trend shift model) and sampling bias
DOI: 10.5061/dryad.f09rh.2/1.2
title: Chaetodon_austriacus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon austriacus
DOI: 10.5061/dryad.f09rh.2/2.2
title: Chaetodon_fasciatus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon fasciatus
DOI: 10.5061/dryad.f09rh.2/3.2
title: Chaetodon_larvatus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon larvatus
DOI: 10.5061/dryad.f09rh.2/4.2
title: Chaetodon_melapterus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon melapterus
DOI: 10.5061/dryad.f09rh.2/6.2
title: Chaetodon_paucifasciatus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon paucifasciatus
DOI: 10.5061/dryad.f09rh.2/7.2
title: Chaetodon_pictus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon pictus
DOI: 10.5061/dryad.f09rh.2/8.2
title: Chaetodon_semilarvatus_denovo_batch_1_filtered.vcf

description: Filtered denovo_map.pl RAD reads in .vcf format for Chaetodon semilarvatus
DOI: 10.5061/dryad.g53d0/1
title: Myotis genotypes

description: Individual genotypes from 210 samples arising from 165 individuals of a maternity roost located in Le Bourg d'Oisans (French Alps), hosting Myotis myotis and Myotis blythii individuals. Num = sample identifier, ID = individual identifier, Sampling = Sampling date, Type = bat type (Myotis myotis, Myotis blythii or hybrid), Sex = F: females and M: males,  D15 to H23.M = fragment length for each microsatellite locus at each allele (2 alleles by column), NA = missing data.
DOI: 10.5061/dryad.kb1pk/10
title: Mouth shape differentiation between A. labiatus and A. citrinellus

description: Mouth shape differentiation between A. labiatus and A. citrinellus reared in the lab.
DOI: 10.5061/dryad.kb1pk/3
title: VCF file used to create Site Frequency spectrum Managua-Masaya

description: Variant Call Format file used to create Site Frequency spectrum for Managua-Masaya
DOI: 10.5061/dryad.kb1pk/4
title: Assortative mating experiment in laboratory

description: Assortative mating experiment between A. citrinellus and A. labiatus in laboratory
DOI: 10.5061/dryad.kb1pk/5
title: Enclosures crater lake Apoyeque

description: Testing feeding performance in situ: Enclosures in crater lake Apoyeque.
DOI: 10.5061/dryad.kb1pk/6
title: Foraging performance crater lake Apoyeque: sessile prey

description: Foraging performance on sessile prey for wild caught thick- and thin-lipped morphs in crater lake Apoyeque.
DOI: 10.5061/dryad.kb1pk/7
title: Foraging performance in the lab: sessile prey

description: Foraging performance on sessile prey for A. citrinellus (thin-lipped) and A. labiatus (thick-lipped) in laboratory conditions
DOI: 10.5061/dryad.kb1pk/8
title: Foraging performance crater lake Apoyeque: evasive prey

description: Foraging performance on evasive prey for wild caught thick- and thin-lipped morphs in crater lake Apoyeque
DOI: 10.5061/dryad.kb1pk/9
title: Normalized protruded lip area for wild caught fish (all lakes)

description: Normalized lip area of wild caught individuals from the great lakes Managua and Nicaragua and crater lakes Apoyeque and Masaya.
DOI: 10.5061/dryad.kv62d/1
title: Ad69_formal_description_2015-12-11

description: Wordfile containing a formalized description of circulatory organ features of the specimen Ad69 of the Common Garden Spider (Araneus diadematus)
DOI: 10.5061/dryad.kv62d/2
title: Ad69_formal_description_2016-10-07

description: OWL file containing a formalized description of circulatory organ features of the specimen Ad69 of the Common Garden Spider (Araneus diadematus).
DOI: 10.5061/dryad.kv62d/3
title: OArCS_2016-10-21

description: OWL file containing the Ontology of Arthropod Circulatory Systems (OArCS)
DOI: 10.5061/dryad.kv62d/4
title: Ad69_semantic_statements_12112015

description: OWL file containing semantic statements in Manchester syntax describing  circulatory features in the specimen Ad69 of the Common Garden Spider (Araneus diadematus)
DOI: 10.5061/dryad.m7j5p/1
title: Tissue expression patterns of Phf7 and G2e3 in various species

description: This file contains the Ct values of qRT-PCR reactions comparing Phf7 and G2e3 homologs in different tissues from different species
DOI: 10.5061/dryad.m7j5p/2
title: Fecundity test data

description: Fecundity test results comparing how various Phf7 and G2e3 genes could restore fertility of Phf7-mutant male fruit flies
DOI: 10.5061/dryad.md310/1
title: Data of the study on Agasicles hygrophila flea beetle

description: This dataset is deposited by authors of manuscript entitle "Manipulating two olfactory cues causes a biological control beetle to shift to non-target plant species", which would appear in Journal of Ecology. The dataset includes all raw data of table 1-3, figures 1-4, supplementary Figures S1-S3, and Supplementary Tables S1-S6 are included.
DOI: 10.5061/dryad.nm3pq/1
title: Metabarcoding pipeline and scripts

description: This folder contains all scripts used to process the raw sequence data into OTUs. Additionally, all scripts for data analysis and figure generation were included.
DOI: 10.5061/dryad.nm3pq/2
title: DNA extraction and PCR protocols

description: Raw data on laboratory protocols. Includes gel pictures, PCR sheets and scans of the laboratory protocols as well as pictures of the dried samples.
DOI: 10.5061/dryad.nm3pq/3
title: Preprocessed HTS data (144 samples)

description: Sequence data for the 144 sequenced PCR reactions. Files are PE merged, trimmed and quality filtered as described in the manuscript using the scripts also provided on dryad. The sequence files are dereplicated ready to be clustered into OTUs. For OTU sequences and counts see table S4 of the manuscript.
DOI: 10.5061/dryad.q2n68/1
title: Journal of Ecology chronosequence data

description: Each tab of this file is a different measured response variable.The response variables include: aboveground biomass, root biomass, total leaf N, percent leaf N, ectomycorrhizal colonization, seed germination and plant survival. Data from the soil conditioning experiment begin with SC and the data used in the chronosequence experiment are described with CH.
DOI: 10.5061/dryad.q3c3t/1
title: Full data-set used in the analysis

description: Id is the identification code of the fish, day is date (dd/mm/yyyy) of tracking,  the year of tagging experiment , sex is the gender of the individuals, the fish size is in total length nearest the mm of the individual, grain size and depth are the characteristics of the habitat, latitude and longitude are the locations of the centre of the home range (centre of activity) of each individual in m and refereed to the central point of the study area, rest duration (hours) is the time difference between the rest onset of the previous day and the awakening time of the current day (n= 148), wakening time is the time relative to sunrise (min) when fish started their daily active behaviour (n= 159), rest onset is the time related to sunset (min) when fish fished their daily active behaviour, and iii) (n= 159) and activity is the daily distance travelled in m (n= 159).
DOI: 10.5061/dryad.q7c00/1
title: Jansen_etal_micros_genotyping_mesocosm

description: Microsatellite genotyping results of the samples from the mesocosm populations exposed for two-years to ambient or ambient +4C. Individual ID, location and coordinates are shown. The experimental treatment to which the mesocosms were exposed (ambient and ambient+4C) is also shown. -9 indicates missing data
DOI: 10.5061/dryad.q7c00/2
title: Jansen_etal_genotyping_core_dryad

description: Microsatellite genotyping results of the samples from the sediment core populations. Individual ID, location and coordinates are shown. The age of the population as identified by dating the sediment (1955-1965; 1999-2005) are also shown. The time period 1955-1965 corresponds to the ‘old’ population and the time period 1999-2005 corresponds to ‘young’ population in the main text of the manuscript. -9 indicates missing data
DOI: 10.5061/dryad.qq828/5
title: 28S sequences for network analysis

description: 28S sequences for network analysis
DOI: 10.5061/dryad.r99p7/1
title: Appendix1_ThraupidFurnariid_SongMass

description: Appendix of phenotypic data used in this study. This is referenced by the R Scripts also included in this Dryad submission.
DOI: 10.5061/dryad.r99p7/2
title: Thraupidae and Furnariidae Supertree

description: This phylogeny is a supertree that combines the MCC trees presented in Burns et al. (2014) and Derryberry et al. (2011). The Jetz et al. (2012) phylogeny is used to calibrate the age of the node that unites these two families. This phylogeny is referenced in the R scripts also included in this Dryad submission.
DOI: 10.5061/dryad.r99p7/3
title: ExampleBAMMInputfile_NoteCount

description: This is an example input file for BAMM using the character "Note Count".
DOI: 10.5061/dryad.r99p7/4
title: BAMMsetup_v3

description: This R script generates input files for the BAMM analyses conducted in this study.
DOI: 10.5061/dryad.tc28h/1
title: SuppFig1-mass frac line supp

description: Fig. S1. Triple isotope plot (δ44/42Ca versus δ43/42Ca in ‰) of all data analysed in this study. Regression line is Y = 0.487 (± 0.022) X – 0.024 (± 0.030) with R2 = 0.974. This is in agreement with mass dependent fractionation slope of 0.507 according to exponential law.
DOI: 10.5061/dryad.tc29h/1
title: Data (part 1) underpinning "Smart wing rotation and trailing-edge vortices enable high frequency mosquito flight", Bomphrey et al, 2017.

description: Stroke-averaged wing kinematics of a mosquito (M08). The data was generated from high-speed camera images by using an automated shape-carving algorithm, and was subsequently used for computational fluid dynamic analysis. Further information is available on request.
DOI: 10.5061/dryad.tc29h/2
title: Data (part 2) underpinning "Smart wing rotation and trailing-edge vortices enable high frequency mosquito flight", Bomphrey et al, 2017.

description: Flow field from computational fluid dynamic analysis at a key instant, t1. The files are in Tecplot binary format, readable using flow visualization software such as Tecplot and Paraview. Further information is available on request.
DOI: 10.5061/dryad.tc29h/3
title: Data (part 3) underpinning "Smart wing rotation and trailing-edge vortices enable high frequency mosquito flight", Bomphrey et al, 2017.

description: Flow field from computational fluid dynamic analysis at a key instant, t2. The files are in Tecplot binary format, readable using flow visualization software such as Tecplot and Paraview. Further information is available on request.
DOI: 10.5061/dryad.18pm5/1
title: Northeastern Minnesota Tree Growth Data

description: Annual radial growth increment data for 2,291 trees located in 35 stands in and around Superior National Forest in northeastern Minnesota.  Data includes stand-level measurements including water balance variables and years since cohort initiation.
DOI: 10.5061/dryad.1j7q2/1
title: Occurrence of Rhipicephalus sp in Benin (2011)

description: This dataset includes the occurrence of Rhipicephalus sp in a cross-sectional survey on cattle in Benin in 2011. Four Rhipicephalus species were encountered during identification.  Latitude and longitude is provided in decimal degrees in the WGS84 reference system. The date of sampling has the format 'dd/mm/yyyy'.  A value ‘0’ indicates absence, ‘1’ indicates presence of a given species in the sample. The data is in a tab-delimited text file.
DOI: 10.5061/dryad.42s0c/1
title: Beak shape by species

description: A folder containing the species-averaged beak semilandmark coordinates, with each species in a separate file.
DOI: 10.5061/dryad.42s0c/2
title: Beak shape by specimen

description: A folder containing beak semilandmark coordinates by specimen, with each specimen in a separate file.
DOI: 10.5061/dryad.42s0c/3
title: Beak shape specimen list

description: A table of accession numbers and the collection source for all specimens used in this study.
DOI: 10.5061/dryad.4mt25/1
title: BEHECO-2016-0555.R1
DOI: 10.5061/dryad.4p169/1
title: Data of SaproxlyicBeetles

description: Data sheet containing information about the sampled saproxylic beetles
DOI: 10.5061/dryad.4p169/2
title: Wood Chemistry

description: Data sheet containing information about the wood compounds used for analyses in the publication.
DOI: 10.5061/dryad.83r81/1
title: survival data

description: data used for survival analyses in paper
DOI: 10.5061/dryad.83r81/2
title: predator encounter data

description: data used in predator encounter analysis