cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.94pv0/2
title: Fecundity

description: Fecundity data. Line column gives Treatment (Selection, S, or Control, C) populations. Set is the population replicate (1,2,3). Column 'offspring' gives total number of offspring produced at a given age in a given vial. Column 'alivefem' is the number of females that contributed offspring to the vial. Column 'fec' is the total number of offspring divided by the number of alive females.
DOI: 10.5061/dryad.9cs2v/3
title: Pedigree_ALEVIN

description: pedigree for offspring at stage = 02_Alevin
DOI: 10.5061/dryad.9t57q/4
title: Stegastes_partitus

description: Stegastes partitus microsatellite genotypes
DOI: 10.5061/dryad.bb33v/1
title: data-manuscript-Jourdan-Pineau-Evolution

description: This file contains the genotype data as well as the measured size of every sample. It also gives the geographic localization of the studied sites and the sampling dates.
DOI: 10.5061/dryad.f8g0m/1
title: Transcripts_TN_Kerala

description: Transcripts of in-depth interviews, Focus Group Discussions and field note of observations. Identifying information has been removed.
DOI: 10.5061/dryad.gd93s/3
title: Silene nutans and otites matK

description: Alignment of chloroplastic matK sequences
DOI: 10.5061/dryad.gr3ks/1
title: RandomizationsX1500

description: To estimate the variability within a population from the available metagenomic data, random candidatus genomes (CG) were generated as follows using a series of custom perl scripts. First, we recruited reads to each CG requiring at least 95% identity and a coverage of 95% of the entire length of the read. Each read was non-redundantly assigned and aligned to a CG using default parameters in MUSCLE. For each CG population, we generated 100 random CG sequences using the metagenomic data that were recruited to consensus sequences, with each base having a probability of being assigned from its relative abundance in the underlying metagenomic sequence data. Here we show the result of 1500 randomizations.
DOI: 10.5061/dryad.gr3ks/2
title: ANI_2_PCA

description: Matrix of ANI values as obtained from each a comparison of each candidatus genome and the reference genome. This file is used as the input to perform a PCA, which is the figure shown in the manuscript.
DOI: 10.5061/dryad.gr3ks/3
title: Viral Tagged Metagenome 454

description: This is identical to VT_MG.fna as it appears in CAM_P_0001068 in camera.
DOI: 10.5061/dryad.gr3ks/4
title: Community Metagenome

description: Identical to Comm_MG.fna under CAM_P_0001068.
DOI: 10.5061/dryad.gr3ks/5
title: GP23_Sequences

description: Gp23 Sequences amplified from the isolates, data incorporated  into table 1.
DOI: 10.5061/dryad.gr3ks/7
title: DATA-FIGURES

description: Tabulated data for all the figures in the manuscript.
DOI: 10.5061/dryad.hv01f/1
title: Characteristics of membrane feeding assay blood donors and mosquito infections

description: host = id of the host. calib_no = the calibration line number used to convert TTP (time to positivity readouts) from QT-NASBA into gametocyte density. ttp = time to positivity readout from QT-NASBA used to generate gametocyte density estimate. age = age of blood donor. asexual = asexual parasite density of blood donor (estimated using microscopy). no_dissected = number of mosquitoes dissected to determine mosquito infection. no_infected = number of mosquitoes dissected with observable oocysts
DOI: 10.5061/dryad.kc423/1
title: EVA-2012-039-OA.R1_dataset1_Hybridization
DOI: 10.5061/dryad.kc423/2
title: EVA-2012-039-OA.R1_dataset2_Jmating
DOI: 10.5061/dryad.m0n61/2
title: RAxML partitions

description: locus and codon partitions for phylogenetic analyses
DOI: 10.5061/dryad.m23c7/1
title: Transit time simulation

description: This r script simulates the number of generations until a successfully invading allele reaches polymorphic equilibrium under balancing selection. Output applies to figure 1 of the manuscript.
DOI: 10.5061/dryad.m9t12/2
title: Caithamer_et_al_2000_Sea_Ducks_in_the_Atlantic_Flyway

description: Reference S1. Caithamer DF, Otto M, Padding PI, Sauer JR, and Haas GH. 2000. Sea ducks in the Atlantic flyway: population status and a review of special hunting seasons. Laurel, Maryland: U.S. Fish and Wildlife Service.
DOI: 10.5061/dryad.mm155/1
title: Zulliger_etal_MolEcol2013

description: Data described in the ReadMe file included in the zip archive
DOI: 10.5061/dryad.nh30v/2
title: Appendix 2

description: Two matrices: (1) presence/absence using NJ, PAE, and clusters (UPGMA) analyses, and (b) with the inverse of the distribution for NJ analysis for 72 red oaks.
DOI: 10.5061/dryad.p26bp/1
title: RIL mean values for freezing tolerance

description: RIL mean freezing tolerance phenotype input file in R/qtl format.
DOI: 10.5061/dryad.p26bp/2
title: RIL genotypes

description: RIL genotype input file in R/qtl format.
DOI: 10.5061/dryad.p26bp/3
title: R/qtl annotated script

description: R/qtl analysis annotated script
DOI: 10.5061/dryad.p26bp/4
title: ParentalMeans_SummedLODTests_and_Tradeoffs

description: Excel file with individual tabs for parental mean freezing tolerance data, summed lod profiles, and data used for the trade-off analysis
DOI: 10.5061/dryad.q5903/1
title: archaea_77samples_fasta
DOI: 10.5061/dryad.q5903/2
title: archaea_77samples_quality
DOI: 10.5061/dryad.v6f1g/8
title: Pig_info

description: Pig sample info corresponding to the DG_Pig.ped and DG_Pig.stru genotypes
DOI: 10.5061/dryad.v6f1g/9
title: README

description: Short explanation of file content
DOI: 10.5061/dryad.vf33q/1
title: BogHill

description: Infectivity data, Epidemiological data, Genetic data
DOI: 10.5061/dryad.084g8/2
title: MITO data set - BEAST input
DOI: 10.5061/dryad.084g8/3
title: CDS data set - TREES output
DOI: 10.5061/dryad.0tt5k/1
title: Supplementary Table 1

description: Visual description of colonies
DOI: 10.5061/dryad.1jp26/1
title: Hufbauer_etal_bemisia_manip1

description: These are the data from the first experiment described in the paper, with one host plant (cabbage), and a factorial manipulation of founding population size and genetic background. Data were in excel, and I saved them as a comma delimited file.  Column headings are: breeding (inbred or outbred), size (4 or 20), found (number of Bemisia removed after the oviposition period), success (0, 1: did the founders reproduce?), adults (# of adults found), fem (number of females found), propfem (proportion of females), rootadults (square root of the number of adults + 1), R (the net reproductive rate: number of adults found/number put in initially), rootR (the square root of R+1)
DOI: 10.5061/dryad.277g0/6
title: EcJME_R2-part1

description: This is part 1 of the reverse raw reads from Illumina sequencing. Please download all three parts and recombine them using the following command in Terminal or Command Prompt: cat xaa2 xab2 xac2 &gt; EcJME_R2.fastqsanger
DOI: 10.5061/dryad.2cb46/5
title: fig5

description: R code for generating figure 5
DOI: 10.5061/dryad.2kt7s/1
title: MHC DQB sequences

description: Phocarctos hookeri MHC class II B (MHC-DQB) gene, exon 2.  From dead Phocarctos hookeri pups collected from the Auckland Islands.
DOI: 10.5061/dryad.2vq52/1
title: Archive of sample and SNP lists and genotype files

description: The archive contains all raw genotype files, a file with SNP IDs and their layout on a 96-well plate, as well a  list of all samples used in the paper.
DOI: 10.5061/dryad.367s2.2/10.1
title: capturedatanewpedigreedryad
DOI: 10.5061/dryad.367s2.2/16
title: README
DOI: 10.5061/dryad.367s2.2/7.1
title: skeletaldataoldpedigreedryad
DOI: 10.5061/dryad.367s2.2/8.1
title: skeletaldatanewpedigreedryad
DOI: 10.5061/dryad.367s2.2/9.1
title: capturedataoldpedigreedryad
DOI: 10.5061/dryad.3df12/4
title: Richness_analyses_05_all_cells_10records_nodata
DOI: 10.5061/dryad.4ms68/2
title: ANALYSED_RCT_Whole group_Dryad

description: Baseline (ii) and follow up (fu) data for participants followed up.
DOI: 10.5061/dryad.5255n/1
title: Sander_spp_crhaplos_wallout_aln_dryadsubmis

description: Mitochondrial control region DNA sequence alignment file for all species of Sander and outgroups
DOI: 10.5061/dryad.5c6f6/1
title: mtDNA ND4, ND4L, and tRNAs nexus File
DOI: 10.5061/dryad.5c6f6/2
title: Bi_TBP nexus file

description: TATA Box Binding protein
DOI: 10.5061/dryad.5c6f6/3
title: RAG-1 nexus file

description: Recombination Activation Gene, subunit 1
DOI: 10.5061/dryad.5c6f6/4
title: Cmos nexus file

description: Cmos proto-oncogene
DOI: 10.5061/dryad.5sc31/2
title: Empirical data

description: Empirical data concerning the four species studied in the article and the two rivers.
DOI: 10.5061/dryad.62t87/1
title: Aligned DNA sequence matrix of five nuclear genes

description: Aligned DNA sequence matrix of five nuclear genes (95 taxa, 4518 positions):Rag1 (positions 1 to 1452), Rhodopsin (positions 1453 to 2202), EGR1  (positions 2203 to 2928), EGR2 (positions 2929 to 3753), EGR3 (positions 3754 to 4518)
DOI: 10.5061/dryad.77rf2/4
title: Figure S1 Mojave clade
DOI: 10.5061/dryad.77rf2/5
title: FigS2 Sonoran clade
DOI: 10.5061/dryad.77rf2/6
title: FigS3 Colorado clade
DOI: 10.5061/dryad.77rf2/7
title: FigS4 K approximation
DOI: 10.5061/dryad.77rf2/8
title: FigS5 Geneland
DOI: 10.5061/dryad.787c0/1
title: Raw data file

description: Raw landmark coordinates as tab-delimited text file. The first column is an identifier (from the original images) and the second column contains the taxon names. Note that the file contains one landmark, the tip of the beak, that was not used in the published analyses.
DOI: 10.5061/dryad.7m6kg/30
title: Fig. 4d: ROM 60091 – Nectocaris pteryx from the Burgess Shale

description: Fine striations associated with relief, stripes not visible
DOI: 10.5061/dryad.7m6kg/33
title: Fig. 4e: ROM 60141 – Nectocaris pteryx from the Burgess Shale

description: Fine striations have distinct composition, stripes not visible
DOI: 10.5061/dryad.7m6kg/35
title: Fig. 5c: ROM 59661 — Nectocaris pteryx (lateral view) from the Burgess Shale

description: Part, lateral specimen with staining in axial canal
DOI: 10.5061/dryad.7m6kg/37
title: Fig. 6a: ROM 59660 – Nectocaris pteryx (anterior) from the Burgess Shale

description: Iterated transverse stripes with diffuse margins in twisted, partly decayed tentacle
DOI: 10.5061/dryad.7m6kg/40
title: Tentacle flexibility in Nectocaris pteryx from the Burgess Shale

description: Right tentacle (arrowed) is folded back over body
DOI: 10.5061/dryad.7m6kg/9
title: Figs. 2c, 6b & 8b: ROM 60146 — Nectocaris pteryx (head) from the Burgess Shale, crossed polars

description: Specimen with well-preserved soft tissue has smooth, unornamented tentacle margins.  Robustly lined funnel canal is surrounded by fleshy tissue.
DOI: 10.5061/dryad.93p4q/4
title: AlyrataGHSpMaQTL
DOI: 10.5061/dryad.9bb2c/1
title: All mate choice data_Dryad

description: Raw data on male and hermaphrodite choice experiments.
DOI: 10.5061/dryad.9cs2v/4
title: Pedigree_FRY

description: pedigree for offspring at stage = 03_Fry
DOI: 10.5061/dryad.bv0kr/1
title: Bertani Aviculariinae

description: Matrix for cladistic analysis having all Typhochlaena, Pachistopelma and Iridopelma (Aviculariinae) species as well as several other Theraphosidae genera
DOI: 10.5061/dryad.c5g23/16
title: Appendix 1

description: List of the species used in this study
DOI: 10.5061/dryad.c5g23/17
title: Appendix 2

description: List of primers and details of PCR protocols for gene amplifications
DOI: 10.5061/dryad.c5g23/18
title: Appendix 3
DOI: 10.5061/dryad.c5g23/19
title: Appendix 4

description: Rationales on the choice of time slices for the DEC analyses
DOI: 10.5061/dryad.c5g23/20
title: Appendix 5

description: Summary of sequencing results for the different genera of Australasian Hydroporini
DOI: 10.5061/dryad.c5g23/21
title: Appendix 6

description: Selection of the best-fitting models of sequence evolution under the Akaike (AIC/AICc) and Bayesian (BIC) information criterions
DOI: 10.5061/dryad.c5g23/22
title: Appendix 7

description: Bayes Factors (BF) estimates of BEAST dating analyses using fossil calibration on the COI dataset
DOI: 10.5061/dryad.c5g23/23
title: Appendix 8

description: Results of TreePar analyses for the Hydroporini, Paroster and Sternopriscus radiations
DOI: 10.5061/dryad.d21d8/1
title: Appendix1
DOI: 10.5061/dryad.d73k0/1
title: Amplicons_NT.tar

description: Supplementary File Archive: "Amplicons_NT.tar.gz." Multiple nucleotide sequence alignments in FASTA format of expected amplicons when applying the PCR oligonucleotide primer pairs inferred in our study. Each multiple nucleotide sequence alignment contains the nucleotide sequence of each of the nine species of Hymenoptera whose genomes we analyzed plus the position and nucleotide sequence (with IUPAC ambiguity code; complement sequence of reverse primer) of the inferred forward and reverse PCR oligonucleotide primer. Anatomy of the file names: [Identifier of ortholog group]_[Identifier of oligonucleotide primer pair specific to ortholog group]_[Identifier of recommended pair of sequencing primers].NT.fas For example, the file name "HOG2939_01_B.NT.fas" contains the nucleotide sequences expected to be amplified from the genes belonging to ortholog group "HOG2939" when using the first oligonucleotide primer pair that has been inferred for this ortholog group and the sequencing oligonucleotide primer pair B. HOG stands for "Hymenoptera Ortholog Group".
DOI: 10.5061/dryad.gr3ks/8
title: Rarefaction files

description: The zip folder includes the script and tables used to generate the rarefaction curves and richness index. The tables are structured as Read, Protein, Protein Cluster
DOI: 10.5061/dryad.gr3ks/9
title: ConsensusCGs

description: Assembly and gene predictions (CDS and aminoacid sequences) for the 26 candidatus genomes referred in the manuscript.
DOI: 10.5061/dryad.j101c/1
title: data

description: Genotypes of the individuals, ordered by rivers and cohorts.
DOI: 10.5061/dryad.j57k3/1
title: R-code for colony model and simulations

description: This title contains two "R" code modules. The first can be used to generate the worker genotypes of a colony of haplodiploid social insects from one mother and a specified number of males, assuming a certain number of loci and a certain recombination rate. The second module uses this colony algorithm to evaluate colony genetic diversity across varying numbers of males, recombination rates, and loci numbers.
DOI: 10.5061/dryad.jh0gs15j/1
title: Simulated genetic data

description: This data package contains simulated genetic marker data (diallelic SNPs) that has been used to show the effects of Isolation by Distance on several widely used statistical inferences. The data has been simulate dusing the programs Marlin (Meirmans 2011) and QuantiNemo (Neuenschwander et al. 2008). For more information on the data contents and format, please consult the ReadMe file.
DOI: 10.5061/dryad.jk82v/3
title: Test for toxin consumption by uninfected flies

description: Compare flies from Athens GA and Rochester NY. For preference column, 1=ate only toxin, 0.5 = ate both toxin and non-toxin, 0=did not eat toxin.
DOI: 10.5061/dryad.mm6f4/1
title: Dataset S1

description: Results of the literature search and the effect sizes calculated from the studies that fit the selection requirements.
DOI: 10.5061/dryad.nh30v/3
title: Appendix 3
DOI: 10.5061/dryad.q5903/3
title: archaea_3samples_fasta
DOI: 10.5061/dryad.q5903/4
title: archaea_3samples_quality
DOI: 10.5061/dryad.q5903/5
title: archaea_3samples_barcodes
DOI: 10.5061/dryad.q5903/6
title: archaea_77samples_barcodes
DOI: 10.5061/dryad.qd19h/1
title: leaf_anatomy

description: Primary measurements on leaf anatomical cross sections
DOI: 10.5061/dryad.qd19h/3
title: matK_ndhF_phyC_treedist

description: 1000 trees sampled from the BEAST posterior tree distribution, newick format
DOI: 10.5061/dryad.qd19h/4
title: matK_ndhF_phyC

description: Aligned fasta file. Genbank accession numbers can be found in Table S1.
DOI: 10.5061/dryad.qj153/1
title: Vences_Boophis_narinsi_description_TableS1

description: Table with voucher specimens and Genbank accession numbers
DOI: 10.5061/dryad.rn30d/1
title: complete dataset

description: Field data on fitness (growth rates estimated from scale circuli spacing), standard length, five morphological traits, species-diagnostic coloration, and stable isotope ratios for two species complexes of Cameroon cichlids: Barombi Mbo Stomatepia and Ejagham Tilapia.
DOI: 10.5061/dryad.rr387/3
title: mtDNA SNP genotypes

description: Genotype data for mtDNA SNPs for a subset of crickets from the Pennsylvania hybrid zone
DOI: 10.5061/dryad.v6f1g/1
title: DG_Boar_Ped

description: 88 NW European wild boar SNP genotypes in .ped format for PLINK software
DOI: 10.5061/dryad.v6f1g/3
title: DG_Pig_Ped

description: 120 Pig autosomal SNP genotypes from six breeds common in NW Europe in .ped file format for PLINK software
DOI: 10.5061/dryad.v6f1g/4
title: DG_Pig_Map

description: Info on the 45720 autosomal SNPs in .map file format corresponding to DG_Pig.ped for use in PLINK file format
DOI: 10.5061/dryad.v6f1g/5
title: DG_Boar_Stru

description: Structure file with 88 wild boar SNP genotypes from NW Europe
DOI: 10.5061/dryad.v6f1g/6
title: DG_Pig_Stru

description: Structure file with 120 Pig SNP genotypes from NW Europe
DOI: 10.5061/dryad.0mg7h/1
title: Table genotypes aLG pj2011 dryad

description: Table of the genotypes from 10 pedigrees, including parents and juveniles with known phenotypic sex. Genotypes include 47 polymorphic microsatellite markers. Genotyping was conducted with an ABI3000 Prism sequencer.
DOI: 10.5061/dryad.0mg7h/3
title: Table Genotypes LG2 adultes11 dryad

description: Table of genotypes from adults from five different populations. Genotypes include 11 polymorphic microsatellite markers.
DOI: 10.5061/dryad.0tt5k/2
title: AcAgExpt Incidental Mass 1

description: Colony morphology and selection coefficient for Anc 1
DOI: 10.5061/dryad.0tt5k/3
title: AcAgExpt Incidental Mass 2

description: Colony morphology and selection coefficient Anc 2
DOI: 10.5061/dryad.0tt5k/4
title: AcAgExpt Incidental Mass 3

description: Colony morphology and selection coefficient Anc 3
DOI: 10.5061/dryad.20r9k/11
title: Nyctimene_contigs.tar

description: Contigs assembled for common tube-nosed fruit bat
DOI: 10.5061/dryad.25kn0/1
title: Simulation code and data

description: Please see README file for full description.
DOI: 10.5061/dryad.2cb46/6
title: fig6

description: R code for generating figure 6
DOI: 10.5061/dryad.2cb46/7
title: fig7

description: R code for generating figure 7
DOI: 10.5061/dryad.40d6h/1
title: FIG S1 (Cloud-Cover forest plot)

description: Figure S1. Overall effect of precipitation asynchrony (measured from Cloud-Cover data) on genetic differentiation, as shown by the meta-analysis forest plot. From left to right: Species name; number of individuals per species; an horizontal axis where the small vertical line indicates the Mantel correlation coefficient, the horizontal line the 95% confidence interval (CI) and the size of the square the specific weight of the species' result to the overall meta analysis (based on the sample size). Exact values for the coefficient, the 95% CI and the weight percentage are given in columns to the right. The continuous vertical line displays 0 in the x axis and the vertical dotted line denotes the summary cross-species correlation coefficient; the width of the bottom diamond represents the 95% CI. For more specific details see Table S3.
DOI: 10.5061/dryad.40d6h/2
title: FIG S2 (Worldclim forest plot)

description: Figure S2. Overall effect of precipitation asynchrony (measured from WorldClim data) on genetic differentiation, as shown by the meta-analysis forest plot. From left to right: Species name; number of individuals per species; an horizontal axis where the small vertical line indicates the Mantel correlation coefficient, the horizontal line the 95% confidence interval (CI) and the size of the square the specific weight of the species' result to the overall meta analysis (based on the sample size). Exact values for the coefficient, the 95% CI and the weight percentage are given in columns to the right. The continuous vertical line displays 0 in the x axis and the vertical dotted line denotes the summary cross-species correlation coefficient; the width of the bottom diamond represents the 95% CI. For more specific details see Table S3.
DOI: 10.5061/dryad.40d6h/3
title: Fig S3 (different sample cut-offs CLoudCover)

description: Figure S3. Overall effect of precipitation asynchrony (measured from Cloud-Cover data) on genetic differentiation, as shown by the meta-analysis forest plot when excluding species with less than 5, 10 and 15 individuals. From left to right: Species name; number of individuals per species; an horizontal axis where the small vertical line indicates the Mantel correlation coefficient, the horizontal line the 95% confidence interval (CI) and the size of the square the specific weight of the species' result to the overall meta analysis (based on the sample size). Exact values for the coefficient, the 95% CI and the weight percentage are given in columns to the right. The continuous vertical line displays 0 in the x axis and the vertical dotted line denotes the summary cross-species correlation coefficient; the width of the bottom diamond represents the 95% CI.
DOI: 10.5061/dryad.40d6h/4
title: Fig S4 (different sample cut-offs WorldClim)

description: Figure S4. Overall effect of precipitation asynchrony (measured from WorldClim data) on genetic differentiation, as shown by the meta-analysis forest plot when excluding species with less than 5, 10 and 15 individuals. From left to right: Species name; number of individuals per species; an horizontal axis where the small vertical line indicates the Mantel correlation coefficient, the horizontal line the 95% confidence interval (CI) and the size of the square the specific weight of the species' result to the overall meta analysis (based on the sample size). Exact values for the coefficient, the 95% CI and the weight percentage are given in columns to the right. The continuous vertical line displays 0 in the x axis and the vertical dotted line denotes the summary cross-species correlation coefficient; the width of the bottom diamond represents the 95% CI.
DOI: 10.5061/dryad.40d6h/5
title: Table S1 (Genetic Information)

description: Table S1. Data sources, number of individuals sampled and references for each of the species used in this study.
DOI: 10.5061/dryad.40d6h/6
title: Table S2 (Monthly Cloud-Cover)

description: Table S2. Geographical coordinates for all the individuals included in analyses and their respective monthly Cloud-Cover data. Cloud-Cover data for each month are given as percentage of days in which each locality was covered with clouds, averaged over a dozen years (2000-2012).
DOI: 10.5061/dryad.40d6h/7
title: Table S3 (Mantel results)

description: Table S3. Results of partial Mantel tests examining the relationship between precipitation asynchrony and genetic distance, accounting for dispersal distance, for each species. Results based on Cloud-Cover and WorldClim data are given.
DOI: 10.5061/dryad.526t0/2
title: Link to GenBank accession numbers for phylogeny in appendix Figure B1

description: Excel file containing the link to GenBank accession numbers for phylogeny in appendix Figure B1. This figure is based on the phylogeny presented in Leijs et al. 2012, PLoS ONE, vol 7.
DOI: 10.5061/dryad.5c6f6/5
title: MyHC-2 nexus file

description: Myosin Heavy Chain, type II
DOI: 10.5061/dryad.5sh77/1
title: Supplementary Table 1

description: The species name, crural type, crural group, collection location, and repository information of all adult extant rhynchonellides used in the analyses.
DOI: 10.5061/dryad.66hc3/1
title: Cleaned sequences
DOI: 10.5061/dryad.66hc3/2
title: Alignments and Phylogenies