cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.67s40.3
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity
DOI: 10.5061/dryad.67s40.3/1.3
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity

description: This file contains Supplementary Data (scroll-down pdf showing SE Asia’s tectonic evolution from 160 Ma until present).
DOI: 10.5061/dryad.67s40.3/2.3
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity

description: This file contains Supplementary Data (scroll-down pdf showing tectonics in the Banda region from 30 Ma until present).
DOI: 10.5061/dryad.67s40.3/3.3
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity

description: Supplementary Text, Figures and Tables
DOI: 10.5061/dryad.67s40.3/4.2
title: Data from: Borneo and Indochina are major evolutionary hotspots for Southeast Asian biodiversity

description: Folder includes sequence files for each dataset analysis performed in the present study (*.fas), BEAST input files for relaxed clock analyses (*.xml), BEAST MCC tree files used for Lagrange (*.tre), and Lagrange input and output files including area codes (*_lagrange.py, *_codes.txt, *_results.txt) if performed for the respective dataset.
DOI: 10.5061/dryad.t120k/15
title: neuraminidase trees NA/OT xml
DOI: 10.5061/dryad.t120k/16
title: Neuraminidase trees NA/OT log
DOI: 10.5061/dryad.t120k/17
title: hemagglutinin trees NA/OT xml
DOI: 10.5061/dryad.06640/1
title: resources

description: The Zip-file include 8 Folders. Each containing phylogenetic trees and alignments for one dataset.
DOI: 10.5061/dryad.63rv4/1
title: data for dryad

description: data from publication
DOI: 10.5061/dryad.7v6q3/1
title: 100 phylogenies

description: The 100 trees used as phylogenetic hypotheses in this study were subsets of those developed by Jetz et al. (2012) and available through birdtree.org. Several species are represented by more than one record in this dataset, thus phylogeny tips for those taxa were transformed into multichotomies (i.e., polytomies) in each phylogeny. Here, 101 phylogenies are included.  Models using the 74th phylogeny failed to converge so an additional phylogeny (i.e., phylogeny 101) was added to complete a set of 100 for the analyses. For all phylogenies the tip labels are coded to match the "record_id" field code in the corresponding dataset.
DOI: 10.5061/dryad.7v6q3/2
title: Data: responses to noise, species traits, study-specific information
DOI: 10.5061/dryad.820bs/1
title: GUD_data_PLOS
DOI: 10.5061/dryad.m5n98/1
title: Dataset D1
DOI: 10.5061/dryad.m5n98/2
title: Dataset D2
DOI: 10.5061/dryad.m5n98/3
title: Dataset D3
DOI: 10.5061/dryad.sd3b0/1
title: Hawaiian Ae. j. japonicus

description: Microsatellite genotypes from the mosquito Aedes japonicus japonicus collected in Hawaii, USA in 2010-2011
DOI: 10.5061/dryad.54s81/1
title: Social status, immune response, and parasitism

description: Dataset used for a meta-analysis of the association between male social status and measures of immune response and parasitism across the vertebrate sub-phylum.
DOI: 10.5061/dryad.7fn80/1
title: Egg Thermal Reaction Norm

description: Data used to describe the thermal reaction norm, or thermal performance curve, for egg laying by red flour beetles living in wheat flour. The number of eggs were counted after beetles were in the flour for four days.
DOI: 10.5061/dryad.7fn80/2
title: Density by Fitness

description: Data from an experiment examining the effects of food, temperature, and population density on fitness of red flour beetles. The number of eggs laid were counted after the beetles were in wheat flour for four days. Eggs were then placed back in flour and allowed to develop. The time for eggs to develop into adults was measured, and the number of eggs that emerged as adults were counted.
DOI: 10.5061/dryad.s1f22/1
title: Catshark three tissue assembly

description: Trinity assembly of RNA-Seq data derived from pancreas, liver and brain. Trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/2
title: Catshark pancreas mapped transcripts

description: Transcripts mapped to the catshark pancreas, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/3
title: Catshark brain mapped transcripts

description: Transcripts mapped to the catshark brain, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/4
title: Catshark liver mapped transcripts

description: Transcripts mapped to the catshark liver, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.sd3b0/2
title: Virginia Ae. j. japonicus

description: Microsatellite genotypes from the mosquito Aedes japonicus japonicus collected in Virginia, USA in 2011
DOI: 10.5061/dryad.sd3b0/3
title: Kyoto and Tokyo Ae. j. japonicus

description: Microsatellite genotypes from the mosquito Aedes japonicus japonicus collected in Kyoto and Tokyo
DOI: 10.5061/dryad.3q7p2/1
title: Figure 1
DOI: 10.5061/dryad.3q7p2/2
title: Figure 2
DOI: 10.5061/dryad.3q7p2/3
title: Figure 3
DOI: 10.5061/dryad.3q7p2/4
title: Figure 4
DOI: 10.5061/dryad.3q7p2/5
title: Figure S1
DOI: 10.5061/dryad.s1f22/5
title: Catshark pancreas and brain mapped transcripts

description: Transcripts mapped to the catshark pancreas and brain, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/6
title: Catshark pancreas and liver mapped transcripts

description: Transcripts mapped to the catshark pancreas and liver, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/7
title: Catshark brain and liver mapped transcripts

description: Transcripts mapped to the catshark brain and liver, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.s1f22/8
title: Catshark pancreas, liver and brain mapped transcripts

description: Transcripts mapped to the catshark pancreas, liver and brain, trimmed to remove contigs &lt;300bp.
DOI: 10.5061/dryad.51sq0/1
title: np.tar

description: Alignments simulated using nucleoprotein amino acid fitness values and nucleoprotein mutation rates.
DOI: 10.5061/dryad.51sq0/2
title: yeast.tar

description: Contains alignments simulated using nucleoprotein amino acid fitness values and yeast mutation rates.
DOI: 10.5061/dryad.51sq0/3
title: polio.tar

description: Contains alignments simulated using nucleoprotein amino acid fitness values and polio mutation rates.
DOI: 10.5061/dryad.51sq0/4
title: conv.tar

description: Contains simulated alignments and associated state codon frequencies used to assess convergence.
DOI: 10.5061/dryad.51sq0/5
title: no_synsel.tar

description: Contains simulated alignments and associated state codon frequencies for datasets without synonymous codon selection.
DOI: 10.5061/dryad.51sq0/6
title: synsel.tar

description: Contains simulated alignments and associated state codon frequencies for datasets with synonymous codon selection.
DOI: 10.5061/dryad.f18k5/1
title: Dietary mOTU sequences

description: Final arthropod mOTUs used in the analysis are represented by the 16S DNA sequences in this fasta file. Sequence names in the fasta file correspond to mOTU identifiers (Table S2).
DOI: 10.5061/dryad.hc270/1
title: Final Data Set

description: Data set of 92 young women (less than 40 years go age) who presented with invasive breast cancer between the years 1998-2007 in the North Lincolnshire area in the United Kingdom. The data includes cancer characteristics and follow-up survival figures for each participant up to September 2014.
DOI: 10.5061/dryad.73b9h/1
title: Population Allele Tables and Sporophyte Sizes

description: Microsatellite allele tables for all sporophytes used in the mating systems study, one text file per population. The size (in micrometers) of each sporophyte is listed, as well as the identity of the maternal and paternal clone via the paternity script (see text). More information about each population (such as lat/long coordinates) can be found in the Appendix to the main text.
DOI: 10.5061/dryad.dj0gr/1
title: Juergens et al_Trap data

description: Microsoft Excel worksheet with trap data of insects found on different artificial traps. Experiments with white, green, and red artificial sticky traps to test the effect of: flower stalk length (2 cm vs. 8 cm) on pollinator attraction; trap positioning (on the ground, D. spatulata type, vs. upright, D. arcturi type) on prey (excluding pollinators) and pollinator capture; presence of flowers on prey and pollinator capture; and trap colour on prey and pollinator capture.
DOI: 10.5061/dryad.dj0gr/3
title: Figure 2

description: Experiments with white, green, and red artificial sticky traps to test the effect of: flower stalk length (2 cm vs. 8 cm) on pollinator attraction (A); trap positioning (on the ground, D. spatulata type, vs. upright, D. arcturi type) on prey (excluding pollinators) and pollinator capture (B, C); presence of flowers on prey and pollinator capture (D, E, F); and trap colour on prey and pollinator capture (D, E, F). S = sticky, N = non sticky
DOI: 10.5061/dryad.dj0gr/4
title: Figure 3 - Spectral reflectance

description: Spectral reflectance patterns of Drosera arcturi and D. spatulata leaves and flowers, and artificial traps (white, green, red).
DOI: 10.5061/dryad.f18k5/2
title: Metabarcode sequence data and MID tags (2 of 4)

description: Sequence data obtained DNA metabarcoding of Anolis sagrei fecal samples. The ReadMe file contains "MID" tag identifiers used to demultiplex samples with the Obitools software prior to analysis. This is sequence data file one of four used in this publication.
DOI: 10.5061/dryad.f18k5/3
title: Metabarcode sequence data and MID tags (3 of 4)

description: Sequence data obtained DNA metabarcoding of Anolis sagrei fecal samples. The ReadMe file contains "MID" tag identifiers used to demultiplex samples with the Obitools software prior to analysis. This is sequence data file one of four used in this publication.
DOI: 10.5061/dryad.f18k5/4
title: Metabarcode sequence data and MID tags (4 of 4)

description: Sequence data obtained DNA metabarcoding of Anolis sagrei fecal samples. The ReadMe file contains "MID" tag identifiers used to demultiplex samples with the Obitools software prior to analysis. This is sequence data file one of four used in this publication.
DOI: 10.5061/dryad.f18k5/5
title: Metabarcode sequence data and MID tags (1 of 4)

description: Sequence data obtained DNA metabarcoding of Anolis sagrei fecal samples. The ReadMe file contains "MID" tag identifiers used to demultiplex samples with the Obitools software prior to analysis. This is sequence data file one of four used in this publication.
DOI: 10.5061/dryad.2c972/1
title: Morphological and environmental measurements Aglais urticae

description: Field collected data using a split-brood experiment.
DOI: 10.5061/dryad.dj0gr/2
title: Figure 1

description: Drosera arcturi (A and C), D. spatulata (B and D), leaf-shape (green and red) and flower-shape (white) format of artificial model traps (E), study site at the lower end of the Bealey Valley Track, Arthur’s Pass (F).
DOI: 10.5061/dryad.dj0gr/5
title: Figure 4

description: Generalized linear model showing the effect of stalk length (2 cm vs. 8 cm) on the average number of Drosera pollinators captured on artificial sticky flowers (Fig. 2A) at two sites and two days (χ21,60 = 4.86; p &lt; 0.05)
DOI: 10.5061/dryad.dj0gr/6
title: Figure 5

description: Generalized linear model showing the effect of different colours (green vs. red) of model leaves (Figs 2D, E, F) on number of captured (A) prey (excluding Drosera pollinators) and (B) potential Drosera pollinators (All prey: χ21,90 = 11.72; p&lt;0.001; Pollinators: χ21,90 = 9.15; p&lt;0.01). The presence or absence of non-sticky flowers (2 cm and 8 cm) had no effect on capture of sticky model leaves (Pollinators: χ21,90 = 0.617; p = 0.734 All prey: χ21,90 = 1.35; p = 0.51).
DOI: 10.5061/dryad.dj0gr/7
title: Figure 6

description: Generalized linear models showing the effect of trap colour and trap positioning on pollinator capture on model leaves (A) and model flowers (B) respectively (see Figs 2B, C). (A) Effect of trap colour (χ21,60 = 10.19; p &lt; 0.01) on pollinator capture of model leaves. (B) Trap positioning (upright vs. on the ground) showed no significant effect on pollinator capture in model traps (χ21,60 = 0.245; p &lt; 0.62). (B) Effect of trap positioning (χ21,60 = 4.62; p &lt; 0.05) but not trap colour (χ21,60 = 1.85; p &lt; 0.174) on pollinator capture of model flowers.
DOI: 10.5061/dryad.r6b87/1
title: SupplementalFigure1

description: PDF figure describing relationships among Passeriformes families. Each clade that contained species from a single family was collapsed to a single terminal. Italics indicate families that were not monophyletic. The number in parentheses after the family names indicates the number of species in the full tree represented by the lineage. ML bootstrap support values are presented above branches; “*” indicates 100% bootstrap support. Support values on terminal branches indicate the support for monophyly of specific families.
DOI: 10.5061/dryad.r6b87/2
title: AllBird.NewNames.7000Taxa.phy

description: Alignment of the entire 7000-taxon supermatrix in Phylip Format.  This alignment uses the revised Clements names instead of the original GenBank names, and taxon names include the orders and families.
DOI: 10.5061/dryad.r6b87/3
title: GeneBorders

description: This file indicates the starting and ending alignment positions for each gene in the supermatrix.
DOI: 10.5061/dryad.r6b87/4
title: TotalAccessionTable

description: Tab-delimited text file that includes the Genbank ID numbers for all of the sequences in the supermatrix.  The first column has the Clements names and the second has the original GenBank names.  The other columns have the accession numbers for a specified gene.
DOI: 10.5061/dryad.r6b87/5
title: BigBird.All.NewNames.7000Taxa.tre

description: Newick strings of the maximum likelihood (ML) and ML bootstrap trees built from the original supermatrix.  The first tree in the file is the ML tree, and the other 100 trees are ML bootstrap trees.  The numbers represent molecular branch lengths.
DOI: 10.5061/dryad.r6b87/6
title: BigBird.All.NewNames.6714Taxa.tre

description: Neiwck strings of the maximum likelihood (ML) and ML bootstrap trees built from the original supermatrix, trimmed to only have one representative taxon per species and edited to correspond to the Clements taxonomy.  These are subtrees of “BigBird.All.NewNames.7000Taxa.tre”. The first tree in the file is the ML tree, and the other 100 trees are ML bootstrap trees.  The numbers represent molecular branch lengths.
DOI: 10.5061/dryad.76mg6/1
title: R script

description: R script for the analysis of data files supplied here.
DOI: 10.5061/dryad.76mg6/2
title: com_2

description: Site by species matrix for all bird species
DOI: 10.5061/dryad.76mg6/3
title: comfive2

description: Site by species matrix for bird species with 5 or more individuals
DOI: 10.5061/dryad.76mg6/4
title: hab_2

description: Habitat categories (open land, disturbed forest or primary forest) for plots
DOI: 10.5061/dryad.76mg6/5
title: largeres_2

description: Site by species matrix for large range bird species
DOI: 10.5061/dryad.76mg6/6
title: medsmallres_2

description: Site by species matrix for small and medium range bird species
DOI: 10.5061/dryad.76mg6/7
title: mengsong

description: Bird species, response (extant or extirpated) and functional trait dateframe
DOI: 10.5061/dryad.76mg6/8
title: ms_lai

description: Forest structural data for plots
DOI: 10.5061/dryad.76mg6/10
title: ms_topo

description: Topographical data for plots
DOI: 10.5061/dryad.76mg6/11
title: var3

description: Summary table of plot variables used in multivariate modeling
DOI: 10.5061/dryad.76mg6/9
title: ms_landuse

description: Landuse history for plots
DOI: 10.5061/dryad.9nc22/1
title: Periploca populations

description: Geographical location, coordinates, vouchers and collector(s) of the Periploca populations sampled in this study
DOI: 10.5061/dryad.9nc22/2
title: Periploca microsatellite data matrix

description: Genotyping of 661 Periploca individuals using 13 microsatellite nuclear loci (Genetix format). Population codes correspond with those provided in the "Periploca populations" text file
DOI: 10.5061/dryad.9nc22/3
title: Periploca cpDNA sequence data

description: Concantenated sequence data of four plastid regions (rbcL+trnTL+matK+psba-trnH) from 99 Periploca individuals (N = 33 populations)
DOI: 10.5061/dryad.k380f/1
title: Genotype and phenotype data for dormancy QTL analysis

description: Data file for use in R/qtl containing RIL genotype data and RIL mean dormancy phenotypes.
DOI: 10.5061/dryad.k380f/2
title: R/qtl script for dormancy QTL analysis

description: R/qtl analysis annotated script
DOI: 10.5061/dryad.st57b/1
title: multiG1

description: M. DUTILLEUL, J.M. BONZOM, C. LECOMTE, B. GOUSSEN, F. DAIAN, S. GALAS, D. REALE  2014  Rapid evolutionary responses of life history traits to different experimentally-induced pollution in Caenorhabditis elegansBMC Evolutionary Biology =================================File name:   multiG1.csvFile description:   measures of life history traits of Caenorhabditis elegans in different environments during a multi-generationnal experiment. -------------------------------------------------------------------------------------------------------------------------------------------------------------------------Definition of column headings:generation: generation in which the individual* was measured (1 to 22)*environment: environment where the individual* lived (control, salt, uranium, alternating)replicate: population from where the individual* was sampled (A to X)*fertility_B96: number of larvae produced by the hermaphrodite before 96h of lifefertility_A96: number of larvae produced by the hermaphrodite after 96h of lifefertility_tot: number of larvae produced by the hermaphrodite in its all lifelength_H: body length of the hermaphrodite (in mm)bend_M: number of body bend of the male in 20 secondslength_M: body length of the male (in mm). Missing data are indicated with NA*Although the data are on the same line to shorten the table, the hermaphrodite and the male measured at each line came from a same replicate but were obviously different individuals===============================Contact information: morgan.dutilleul@hotmail.fr
DOI: 10.5061/dryad.st57b/2
title: multiG2

description: M. DUTILLEUL, J.M. BONZOM, C. LECOMTE, B. GOUSSEN, F. DAIAN, S. GALAS, D. REALE
2014
Rapid evolutionary responses of life history traits to different experimentally-induced pollution in Caenorhabditis elegans
BMC Evolutionary Biology


===============================
File name:   multiG2.csv
File description:   measures of survival, sex ratio and population size of Caenorhabditis elegans populations in different environments 
during a multi-generationnal experiment.

-------------------------------------------------------------------------------------------------------------------------------------------------------------------------

Definition of column headings:

generation: generation in which population was measured (1 to 22)
environment: environment where the population lived (control, salt, uranium, alternating)
replicate: denomination of the replicate population through the generations (A to X)
survival: percentage of survival in the replicate population (%)
ratio_M: percentage of male in the replicate population (%)
pop_size: number of individuals in the replicate population

Missing data are indicated with NA

================================
Contact information:

morgan.dutilleul@hotmail.fr
DOI: 10.5061/dryad.15mk5/1
title: Mouse data - reproductive synchorny
DOI: 10.5061/dryad.4903q/1
title: WoodFrogGenotypes

description: This file includes individual microsatellite genotypes (7 loci) for wood frogs (N=888) collected from embryonic samples (one sample per eggmass) at breeding ponds (N=39) near Milford, ME. Genotypes were scored manually in PeakScanner and 0 indicates no alleles were identified at that locus. Pond locations (latitude, longitude) are included. See metadata in file for more information.
DOI: 10.5061/dryad.4903q/2
title: SpottedSalamanderGenotypes

description: This file includes individual microsatellite genotypes (8 loci) for spotted salamanders (N=1292) collected from embryonic samples (one sample per eggmass) at breeding ponds (N=56) near Milford, ME. Genotypes were scored manually in PeakScanner and 0 indicates no alleles were identified at that locus. Pond locations (latitude, longitude) are included. See metadata in file for more information.
DOI: 10.5061/dryad.4903q/3
title: LandscapeData

description: This file includes information related to all factors in the landscape-level network analysis for wood frogs and spotted salamanders at each link width (see metadata in file).
DOI: 10.5061/dryad.4903q/4
title: LocalData

description: This file includes information related to all factors in the local-level analysis for wood frogs and spotted salamanders at each buffer width (see metadata in file).
DOI: 10.5061/dryad.d6vq5/1
title: IO-CEUS vs. SE upload
DOI: 10.5061/dryad.mv32t/1
title: Table S1

description: List of valid scleractinian genera in the Paleobiology Database and their inferred symbiotic mode.
DOI: 10.5061/dryad.qp578/1
title: Aanguilla olfactory epithelium transcriptome assembly

description: This is the Trinity assembled olfactory epithelium transcriptome (Illiumna HiSeq 2000) for Anguilla anguilla.
DOI: 10.5061/dryad.qp578/2
title: Aanguilla_olfactory_expression_data

description: These are the expression data for the olfactory epithelium of freshwater (FW), seawater (SW) and sexually mature (SM) male A. anguilla. The expression values are condition means and the protein descriptions for the transcriptome assembly contigs are based on a BLAST search of RefSeq proteins. For further details, please see the associated publication
DOI: 10.5061/dryad.4cg84/1
title: Bolund et al. DATA

description: Excel file containing data used for "Effects of the demographic transition on the genetic variances and covariances of human life history traits". Full data is given for individuals born more than 100 years prior to the end of data collection. Summary data only is provided for individuals born in the last 100 years. Summaries of G and P matrices are provided for all time periods. For further information, see the ReadMe file.
DOI: 10.5061/dryad.64716/1
title: SceloporusThermalData

description: Thermal data for lizards from the Sceloporus undulatus species complex.  Data collection was led by Joseph Ehrenberger in the laboratory at Indiana State University as described in the manuscript.  Columns are as follows: state corresponding to collection site, ID for data collection, sex (M: male, F: female, J:juvenile of unknown sex), snout vent length (mm), total length (mm), critical thermal maximum (C), critical thermal minima (C), morning preferred body temperature (C), and afternoon preferred body temperature (C).
DOI: 10.5061/dryad.g2q42/2
title: BMJOpen-2014-007217R1

description: Microsoft Excel File
DOI: 10.5061/dryad.jc68d/1
title: Supplemental Data Set 2_TopHat output
DOI: 10.5061/dryad.jc68d/2
title: Supplemental Data Set 3_Cufflinks output
DOI: 10.5061/dryad.jc68d/3
title: Supplemental Data Set 4_Cuffmerge output
DOI: 10.5061/dryad.jc68d/4
title: Supplemental Data Set 5_ASTALAVISTA output
DOI: 10.5061/dryad.kk61p/1
title: Plant community and ecosystem properties in a multifactor global change experiment on Niwot Ridge, Rocky Mountains CO

description: Data are from a multifactor global change experiment, manipulating N, warming, and elevated snowpack in alpine tundra moist meadow. Data are from 2006-2012, although not every measurement was taken in all years; 2006 is pretreatment. Data collected are the following: species composition, productivity, litter mass, winter and summer N availability (resin), moisture, microbial biomass N and C, inorganic N, N mineralization, nitrification.