cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.6vp96/3
title: finalfiltered.molbru.females.recode

description: VCF file containing filtered SNPs from the C. mollis / C. brunneus female comparison.
DOI: 10.5061/dryad.846qk/3
title: fitness_data_queens
DOI: 10.5061/dryad.b631d/1
title: Trait and fitness data for both subspecies in both years

description: This file contains all data presented in the manuscript.
DOI: 10.5061/dryad.dh11k/1
title: respiration moisture and density data

description: Contains respiration, moisture and density of dead wood samples from living tree hollows, snags and logs in the rainy and dry seasons
DOI: 10.5061/dryad.dh11k/2
title: respiration and wood type and season data

description: Contains respiration rate, moisture content and wood density of individuals of tree hollows, snags and logs for different species in the rainy and dry seasons in plots.
DOI: 10.5061/dryad.gq8pk/1
title: Hepatitis B Virus Sero-profiles and Genotypes in HIV-1 Infected and Uninfected Injection and Non-Injection Drug Users from Coastal Kenya

description: Neighbour-Joining method based on 1000 bootstrap replicates and P-distances were used for generating the phylogenetic tree. HBV genotype sequences from GenBank together with their country of origin and accession numbers are presented. Wooly monkey HBV (AY226578-WMHBV) was used as the out-group. Relevant bootstrap values are indicated. HBV isolates from study participants are indicated by diamond signs. The scale bar represents 5% sequence divergence.
DOI: 10.5061/dryad.hq4gc/1
title: Maximum-likelihood (ML) tree of known PylRS homologs

description: Tree in Figure 1
DOI: 10.5061/dryad.hq4gc/10
title: Aligned SerRS and ThrRS sequences

description: MUSCLE-aligned rare and common forms of SerRS and ThrRS protein sequences sampled across 3 Domains of life.
DOI: 10.5061/dryad.hq4gc/11
title: Aligned GlyRS homodimer sequences

description: MUSCLE-aligned of GlyRS homodimer subunit protein sequences sampled across 3 Domains of life, including other aaRS outgroups
DOI: 10.5061/dryad.hq4gc/12
title: GlyRS heterodimer subunit sequences

description: Concatenation of MUSCLE-aligned GlyRS heterodimer subunit protein sequences sampled across bacterial taxa, including other aaRS outgroups.
DOI: 10.5061/dryad.hq4gc/13
title: Aligned PylRS sequences

description: MUSCLE-aligned C-terminal region homologous to C-terminal subunit in bacteria, including other aaRS outgroups.
DOI: 10.5061/dryad.hq4gc/14
title: GUIDANCE selected sites of GlyRS homodimer alignment

description: Sites from Additional File 7 identified by GUIDANCE as being well-aligned, with single-taxon insertions removed.
DOI: 10.5061/dryad.hq4gc/15
title: GUIDANCE selected sites of GlyRS heterodimer alignment

description: Sites from Additional File 8 identified by GUIDANCE as being well-aligned, with single-taxon insertions removed.
DOI: 10.5061/dryad.hq4gc/2
title: ML tree showing the common and rare types of SerRS and ThrRS

description: Tree in Figure 2
DOI: 10.5061/dryad.hv117/10
title: Data summary table of sister pairs

description: This data table contains summary information of sister pairs used in final analyses and for generating figures (see R scripts "get.stats.cooccurrence" and "get.stats.rangesize"), and includes the following columns: genus (genus); sister species A (sp.A);sister species B (sp.B);sister species A and B separated by underscore (ba);branch length (dist);posterior probability (pp);weighting factor using for data visualization (fig.weight); mating system classification of (sp.A.mate, sp.B.mate, mate.diff); range size of species A and B across 4 spatial resolutions (A.range.res1, B.range.res1, A.range.res0.5, B.range.res0.5, A.range.res0.1, B.range.res0.1, A.range.res0.05, B.range.res0.05);co-occurrence index across 4 spatial resolutions (overlap.min.res1, overlap.min.res0.5, overlap.min.res0.1, overlap.min.res0.05); latitudinal characteristics of species A and B (lat.mean.spA, lat.med.spA, lat.min.spA, lat.max.spA, lat.mean.spB,lat.med.spB, lat.min.spB, lat.max.spB);ploidy category for species A and B (ploidy.spA, ploidy.spB);life history category for species A and B (life.history.spA, life.history.spB)
DOI: 10.5061/dryad.hv117/7
title: R script for calculating sister pair range size and co-occurrence

description: This R script takes a list of sister pairs (generated using script "get.sisters"), computes their geographic range sizes across varying spatial scales, and computes various metrics of co-occurrence used in American Journal of Botany paper "No association between plant mating system and geographic range overlap".
DOI: 10.5061/dryad.hv117/8
title: R script for range size stats and figures

description: This R script performs statistical analyses and generates figures used in Ecology Letters paper "Geographic range size is predicted by plant mating system".
DOI: 10.5061/dryad.hv117/9
title: R script for co-occurrence stats and figures

description: This R script performs statistical analyses and generates figures used in Ecology Letters paper American Journal of Botany paper "No association between plant mating system and geographic range overlap".
DOI: 10.5061/dryad.nb26b/1
title: SNP data for litchi

description: This file contains genotype data at 90 SNP loci for 96 litchi accessions sampled in China.
DOI: 10.5061/dryad.r3645/1
title: Abies balsamea height:diameter allometry data
DOI: 10.5061/dryad.tv50m/1
title: Data Tartu et al. 2015

description: Reproductive performance (2012, 2013, 2014), prolactin, corticosterone and mercury concentrations (2012, 2013), corticosterone and prolactin kinetic following a corticosterone implantation (2013).
DOI: 10.5061/dryad.vr57b/2
title: Matlab script for computing the normalized spike train distance

description: The function takes as an input the spike times of the two spike trains and the Victor and Purpura cost, and returns the normalized distance (that we developed for the analysis linking neuronal activity to behavior).
DOI: 10.5061/dryad.vr57b/3
title: Eye position (in X and Y) for monkey M in the available sessions

description: For monkey M, during the sessions for which they were recorded, the X and Y position of the eye in relation to the behavioral task. The description of the file is in the main README file.
DOI: 10.5061/dryad.vr57b/4
title: README

description: Detailed explanation for all the files provided.
DOI: 10.5061/dryad.0j2k7/4
title: Trimer (III) (4044)

description: Mass spectrometry QExactive RAW data file; tryptic digest of self-crosslinked TG2 (trimer, size exclusion fraction III)
DOI: 10.5061/dryad.0j2k7/5
title: Trimer plus (III+) (4048)

description: Mass spectrometry QExactive RAW data file; tryptic digest of self-crosslinked TG2 (trimer +, size exclusion fraction III+)
DOI: 10.5061/dryad.21364/1
title: Matrices of Pairwise Genetic Distances for 339 Spider Species

description: Spiders were collected from locations across Canada by various collectors. Sequencing was performed at the Canadian Centre for DNA Barcoding, and the sequences uploaded to BOLD Systems. Sequence data was obtained by Sujeevan Ratnasingham from BOLD Systems and compiled as a matrix.
DOI: 10.5061/dryad.21364/3
title: Aligned COI Sequences for 27,269 Spider Specimens

description: Spiders were collected from locations across Canada by various collectors. Sequencing was performed at the Canadian Centre for DNA Barcoding, and the sequences uploaded to BOLD Systems. Sequence data was obtained by James Robertson from BOLD Systems and aligned using mafft with the following parameters:mafft --auto --thread 3 --op 4 --ep 2 --reorder.
DOI: 10.5061/dryad.21364/4
title: BOLD neighbour-joining tree (K2P) for all 27,269 COI sequences &gt;500 bp from spiders collected in Canada

description: Spiders were collected from locations across Canada by various collectors. Sequencing was performed at the Canadian Centre for DNA Barcoding, and the sequences uploaded to BOLD Systems. Sequence data was obtained and a Taxon ID Tree was created by Jeremy deWaard on BOLD Systems using a Kimura 2 Parameter Distance Model. Sequences were aligned using the BOLD Aligner.
DOI: 10.5061/dryad.2m15n/1
title: Life_history_data

description: Data used in the paper.
DOI: 10.5061/dryad.2pn02/1
title: Lineage distribution models for Rosauer et al 2015

description: The zip file contains 102 aligned raster files, comprising all of the lineage distribution models used in this study.
DOI: 10.5061/dryad.2pn02/2
title: Stability models for Rosauer et al 2015

description: Two raster layers giving the results of the paleo-stability analyses for rainforest.  Resolution: 2.5 minutes (0.041666 degrees)
DOI: 10.5061/dryad.2pn02/3
title: Endemism and richness results for Rosauer et al 2015

description: 4 raster layers giving the full endemism and richness results presented in figures 4 and 5.  Resolution: 0.01 degree
DOI: 10.5061/dryad.4428s/1
title: Dearlove et al_Genomes+IsolateList

description: This compressed folder contains assembled contig files for each isolate, the original alignments (one per clonal complex) and a list of all isolates used.
DOI: 10.5061/dryad.4cn66/10
title: Individual nuclear locus alignments

description: Individual locus alignments for the 277 successfully enriched loci. Labeling matches other files; hence loci are labeled by descending target length.
DOI: 10.5061/dryad.4cn66/11
title: Gene trees

description: ML gene trees (inferred in RAxML) for each of the 277 enriched loci. The gene trees are unlabeled, but they are in precisely the same order as other files (descending locus length), hence line 1 contains the tree for Locus 1, and line 277 contains the tree for Locus 278 (Locus 4 is again omitted, hence the numbering discrepancy). Gene tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/12
title: MP-EST tree

description: Tree inferred in MP-EST; the STAR tree was topologically identical. Branch labels are coalescent branch lengths. Given the lack of infraspecific sampling, it is impossible to estimate tip branch lengths; coalescent programs generally plot these as the maximum possible value (here, 9) but these should be ignored. Internal branch estimates are correct assuming gene tree discord is solely due to the coalescent. Tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/5
title: Mitochondrial genome matrix

description: Mitochondrial genome alignment, assembled in BWA and aligned with Mauve. Tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/6
title: Concatenated nuclear ML tree

description: Maximum likelihood tree inferred on the concatenated low-copy nuclear data using RAxML. Tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/7
title: Chloroplast ML tree

description: Maximum likelihood tree inferred on the chloroplast data using RAxML. Tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/8
title: Mitochondrial ML tree

description: Maximum likelihood tree inferred on the mitochondrial data using RAxML. Tree labels refer to specimen voucher numbers.
DOI: 10.5061/dryad.4cn66/9
title: Annotated target loci

description: The 278 loci for which probes were developed, with exonic and intronic regions annotated, in GenBank flatfile format. The loci are numbered in descending order of length, so that "Locus 1" is the longest and "Locus 278" the shortest. One locus was not consistently enriched and was dropped from analyses; this is labeled "Locus 4".
DOI: 10.5061/dryad.532s2/1
title: Data from: Incubation temperature influences survival in a small passerine bird

description: Description is given in the file.
DOI: 10.5061/dryad.5b5r1/7
title: Cyathea_BI_chronogram_BEAST

description: The chronogram inferred from "Cyathea_alignment.nexus", using BEAST. Three secondary calibration priors (see table 3 of the paper), a birth-death speciation prior, and the relaxed clock Log normal model were used. Three independent MCMC runs with 10,000,000 generation were carried out. The trees from the three runs were combined in LogCombiner with a 10% burn-in and summarized in TreeAnnotator.
DOI: 10.5061/dryad.5b5r1/8
title: Cyathea_biogeography_lagrange

description: The evolution of geographic range inferred from "Cyathea_BI_chronogram_BEAST.tre", using Lagrange. C: Cocos island; G: Galapagos; M: Mainland America; P: West Pacific. Disperse to Cocos island and Galapagos before the birth of Galapagos Archipelago (14.5 Ma) is prohibit.
DOI: 10.5061/dryad.5b5r1/9
title: Cyathea_vouchers

description: The voucher specimens, herbarium, geographical source of voucher, fern DNA database number (http://fernlab.biology.duke.edu), and GeneBank accession numbers for rbcL, rbcL-accD, rbcL-atpB, trnG-R, trnL-F.
DOI: 10.5061/dryad.5j4kh/46
title: S3_MA_3_MARIS0

description: A CT scan made by scanner 3 containing metal implants and reconstructed using MARIS0.
DOI: 10.5061/dryad.5j4kh/47
title: S3_MA_3_MARIS3

description: A CT scan made by scanner 3 containing metal implants and reconstructed using MARIS3.
DOI: 10.5061/dryad.5j4kh/48
title: S3_MA_3_MARIS4

description: A CT scan made by scanner 3 containing metal implants and reconstructed using MARIS4.
DOI: 10.5061/dryad.5j4kh/49
title: S3_MA_3

description: A CT scan made by scanner 3 containing metal implants and reconstructed using the standard algorithm.
DOI: 10.5061/dryad.5j4kh/50
title: S3_MA_3_MDT

description: A CT scan made by scanner 3 containing metal implants and reconstructed using the MDT.
DOI: 10.5061/dryad.5j4kh/51
title: S3_Misc

description: Miscellaneous data from scanner 1 (e.g. topogram, dose report)
DOI: 10.5061/dryad.5j4kh/52
title: S3_Ref_1

description: A CT scan made by scanner 3 containing no metal implants.
DOI: 10.5061/dryad.5j4kh/53
title: S3_Ref_2

description: A CT scan made by scanner 3 containing no metal implants.
DOI: 10.5061/dryad.6vp96/10
title: finalfiltered.bigbru.females.recode

description: VCF file with filtered SNPs from the C. biguttulus / C. brunneus female comparison
DOI: 10.5061/dryad.6vp96/11
title: Lositan files 2

description: Compressed folder containing input files for LOSITAN.  Bigbru - C. biguttulus / C. brunneus, Molbru - C. mollis / C. brunneus, Molbig - C. mollis / C. biguttulus
DOI: 10.5061/dryad.6vp96/12
title: Bayescan input files

description: Compressed folder containing input files for BayeScan.  Bigbru - C. biguttulus / C. brunneus, Molbru - C. mollis / C. brunneus, Molbig - C. mollis / C. biguttulus
DOI: 10.5061/dryad.6vp96/13
title: Structure Files

description: Compressed folder containing input files for Structure.  Bigbru - C. biguttulus / C. brunneus, Molbru - C. mollis / C. brunneus, Molbig - C. mollis / C. biguttulus
DOI: 10.5061/dryad.6vp96/4
title: finalfiltered_brumol_maf10.recode

description: VCF file containing filtered SNPs from the C. mollis / C. brunneus comparison.
DOI: 10.5061/dryad.6vp96/5
title: finalfiltered.molbig.good.recode

description: VCF file containing filtered SNPs from the C. mollis / C. biguttulus comparison.
DOI: 10.5061/dryad.6vp96/6
title: finalfiltered.molbig.good.males.recode

description: VCF file containing filtered SNPs from the C. mollis / C. biguttulus male comparison.
DOI: 10.5061/dryad.6vp96/7
title: finalfiltered.molbig.good.females.recode

description: VCF file containing filtered SNPs from the C. mollis / C. biguttulus female comparison
DOI: 10.5061/dryad.6vp96/8
title: finalfiltered_bigbru_maf10.recode

description: VCF file containing filtered SNPs for the C. biguttulus / C. brunneus comparison
DOI: 10.5061/dryad.6vp96/9
title: finalfiltered.bigbru.males.recode

description: VCF file with filtered SNPs for the C. biguttulus / C. brunneus male comparison
DOI: 10.5061/dryad.9n36s/1
title: Parasitism data for A. pisum

description: Data collected in the laboratory on the effects of facultative symbiont Hamiltonella defensa in pea aphids (Acyrthosiphon pisum) on parasitism by two parasitoid species (Aphidius ervi and Aphelinus abdominalis). ‘Block’ is the temporal block in which the experiment was carried out; ‘Clone’ is the aphid clone code; ‘Hamiltonella’ refers to the presence of the symbiont Hamiltonella defensa (‘Yes’ = present, ‘No’=cured); ‘Wasp’ gives the genus of the parasitoid; ‘Plant’ is the biotype of the aphid.
DOI: 10.5061/dryad.dh11k/3
title: Sample tree data

description: Contains height, DBH and proportion of hollow volume to stem volume for sample trees.
DOI: 10.5061/dryad.fr8sp/1
title: Species SLA and SRLs

description: Specific leaf area (SLA), specific root length (SRL) for different root branching orders, and species relative abundance data used in the analyses are included in this file.
DOI: 10.5061/dryad.gr7p0/1
title: Capture recapture data

description: This tab-delimited text file contains all capture and recapture data from 1993 until 2013. Year- year of capture, Date -	date of capture, Colony -	colony at which the individual was captured, Ring	- ring number / ID, Age -	the coded age at which an individual was captured:1-5 is juvenile, 6 is adult. The sex of most of the individuals in this data file can be found in the file 'Genotypes and sex of all individuals and their colony UTM coordinates.txt.'
DOI: 10.5061/dryad.gr7p0/2
title: Genotypes and sex of all individuals and their colony UTM coordinates

description: This tab-delimited text file contains the genotype of all (1846) individuals genotype at 17 polymorphicmicrosatellite loci. The two alleles per locus are combined into one column for each locus. The variables before the genotypes are:Ring	-	ring number / IDSex	-	the sex of the individual (M = Male, F = Female, U = Unknown)S	-	UTM southing coordinate of the colony at which the individual was capturedE	-	UTM easting coordinate of the colony at which the individual was capturedThe UTM coordinates can be used to calculate the distance between the colonies using the pythagorean theorem. UTM coordinates are measured in meters.
DOI: 10.5061/dryad.gr7p0/3
title: Genotypes sex and colony coordinates 2010

description: This tab-delimited text file contains the same information as the file 'Genotypes and sex of all individuals and their colony UTM coordinates.txt', but only for individuals captured and genotyped in 2010.
DOI: 10.5061/dryad.hq4gc/3
title: ML tree of the GlyRS homodimer subunit

description: Tree in Figure 3
DOI: 10.5061/dryad.hq4gc/4
title: Phylogenetic analyses of the GlyRS heterodimer subunits

description: Tree in Figure 4
DOI: 10.5061/dryad.k3m55/1
title: Phylogeny

description: the folder contains files which contains sequences of CCD genes and their accession numbers. it also contains alignment file and the resulting phylogenetic tree
DOI: 10.5061/dryad.kt57q/1
title: Database

description: Database with Mesozoic decapod crustacean occurrences, body sizes, and sedimentary environments. For any questions please contact .
DOI: 10.5061/dryad.m8321/1
title: Rhinoceros Auklet Feather CORT, Diet and Dive Data

description: The data contained in this package were collected in 2012 and 2013 on St. Lazaria Island and Middleton Island in Alaska and on Teuri Island in Japan. These data describe how rhinoceros auklet chick diets change between and within years, and how those changes affect adult behavior, fledging nutritional status, and whether adults carry signals of the breeding season into the post-reproductive season. Data sets include the results of assays of feathers for the avian stress hormone corticosterone.
DOI: 10.5061/dryad.n856c/1
title: Hyla arborea genome

description: Draft genome assembly for a male H. arborea from Lavigny, Switzerland, in gzipped fasta format. Assembled from 5x-depth 100bp PE Illumina reads with Abyss-PE (k=44), scaffolded with SSPACE. Whole-genome and RNAseq reads for this individual are available on NCBI SRA.
DOI: 10.5061/dryad.ng0kn/1
title: Results Mariotte et al. 2015 Func Ecol

description: Data contains soil PLFA's, soil respiration, litter decomposition, 15N isotopes measures in control plots without removal and plot with removal of subordinate species in combination with a drought treatment (watered/drought) in grasslands
DOI: 10.5061/dryad.rg68j/1
title: Priority effects_raw data

description: Raw data for growth curves and AsQ-PCR results referred to in the publication.
DOI: 10.5061/dryad.s1kg8/1
title: Head shape data of Lake Tanganyika cichlids

description: Consensus configuration of head shape for 1) sex-pooled 37 species, 2) 22 species of males, followed by 3) 26 species of females. In NTS format.
DOI: 10.5061/dryad.sj6dv/1
title: Flower_data

description: This file contains information on the ecological data collected at each patch at the three locations. In particular flower and shoot density per 40x40cm quadrat and data on herbivory, production and C and N content are provided.
DOI: 10.5061/dryad.tk43n/1
title: the dataset for asperigillus fumigatus azole resistance

description: 1st: The MIC and MGR of evolved cultures in evolutionary experiment  of seven weeks. 2nd: correction analyse between the MIC and MGR of evolved cultures.3rd: dominance test of azole resistance.4th:stability test of fungicides. 5th:The MIC and MGR of ancestor in different environments
DOI: 10.5061/dryad.vq33n/1
title: charadesGameAnalysisR

description: R code for analysis of charades game.
DOI: 10.5061/dryad.vq33n/2
title: charadesGameAnalysisPython

description: Python code for processing and analysis of the charades game.
DOI: 10.5061/dryad.vq33n/3
title: charadesGameProcessedData

description: Processed data from the charades game. Used for the R analysis.
DOI: 10.5061/dryad.vq33n/4
title: charadesGameData

description: Data from the charades game. Processed by the corresponding python code.
DOI: 10.5061/dryad.vq33n/5
title: charadesAnalysisPraat

description: Praat code for measuring charades vocalizations.
DOI: 10.5061/dryad.0g6m2/1
title: V. cardui de novo transcriptome assembly
DOI: 10.5061/dryad.0j2q8/1
title: 15N_DIN_WaterSamples

description: File contains data for d15NH4 and d15NO3 (units = per mil) of water samples, including throughfall, fog, bulk collectors, gravimetric lysimeters, and tension lysimeters, collected in California redwood forest. This file includes data from Table 1 in associated manuscript.
DOI: 10.5061/dryad.0j2q8/2
title: Roots&Leaves

description: File contains data for %N, d15N, %C, d13C and C:N of needles and roots collected from the redwood forest edge and interior. Units for d15N and d13C are per mil. This file includes data from Table 2 in associated manuscript.
DOI: 10.5061/dryad.0j2q8/3
title: ResinBags&Columns

description: File contains data for fluxes of NH4 and NO3 in resin bags and resin columns collected in California redwood forest. Units are ug N/m2/d for throughfall and ug N/g resin/day for resin bags (soil solution). This file includes data from Figure 1 in associated manuscript.
DOI: 10.5061/dryad.15nj0/1
title: Offspring counts from Nasonia vitripennis females

description: This data file contains the male and female offspring counts from Nasonia vitripennis focal females (AsymC strain). Focal females were fed either a control diet or a diet supplemented with a DNA methylation inhibitor. Females were then allowed to oviposit alone (single-foundress), with four STDR females (five foundress) or with nine STDR females (ten-foundress). This gives a total of 6 treatment combinations. Note that there are two experimental blocks. The offspring counts for both AsymC and STDR individuals are shown.