cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.vk7t0/16
title: R workspace for simulated cap-delta distributions (Bifurcation)

description: This contains simulated cap-delta values generated under a bifurcating cladogenesis scenario with equal branching, extinction and sampling rates.
DOI: 10.5061/dryad.vk7t0/17
title: R script for plotting cap-delta comparison figures

description: This R script, when executed with the four workspaces containing simulated cap-delta values, will generate the histogram and q-q plots shown in the supplement which compare the simulated values against different derivations of the cap-delta function.
DOI: 10.5061/dryad.11m00/1
title: Environmental and soil data from encroached/unencroached Stipa tenacissima steppes from Spain

description: Environmental (coordinates, elevation, slope, aspect, mean annual rainfall and temperature) and soil (pH, organic carbon, total nitrogen, total phosphorus, soil respiration, potassium and nitrogen mineralization) variables at the microsite and site scales for Stipa tenacissima grasslands with and without sprouting shrubs in a gradient from central to southern Spain.
DOI: 10.5061/dryad.121d03jc/4
title: Supplementary Data Read Me File
DOI: 10.5061/dryad.121d03jc/5
title: Supplementary Table1
DOI: 10.5061/dryad.121d03jc/6
title: Supplementary Table2
DOI: 10.5061/dryad.121d03jc/7
title: Supplementary Table3
DOI: 10.5061/dryad.12j03/1
title: Roche_etal_2012_maternal_predator_exposure_learning
DOI: 10.5061/dryad.15nk1/1
title: Ddelphis-Microsat-Input

description: Excel table containing individual multilocus genotypes from European common dolphin (Delphinus delphis) using 15 microsatellite loci. Data is in Genalex format, as this allows easy conversion to different population genetics software formats. Samples were obtained from biopsies, strandings and bycatch. Geographic coordinates are include in the field, though check manuscript for more detailed information. Please also check the worksheet "Notes" for more information on data format.
DOI: 10.5061/dryad.1q474/1
title: 2008 Vaejovis Life History Data Among Mountain Ranges

description: This file contains all of the life history data for each litter/female, from each mountain range in the paper.  The abbreviations are as follows: PDFM (post-dispersal female mass), FCL (female carapace length), # Days B/t B & M (number of days between birth and molt), # Days B/t M & D (number of days between molt and dispersal), Days in Lab (PreBirth) (number of days females were kept in the lab before giving birth), AOM (average offspring mass), OCL (average offspring carapace length), CVAOM (coefficient of variation in average offspring mass), CVOCL (coefficient of variation in average offspring carapace length), LS (litter size), TLM (total litter mass calculated by multiplying LS x AOM), TLM* (total litter mass calculated by adding the masses of all individual offspring), RLM (relative litter mass), and %SURV (percent of offspring that survived to dispersal).
DOI: 10.5061/dryad.21nf3/35
title: FLY dataset annotations

description: this is an EXCEL file that gives annotations by position numbers for the combined datasets (see below).Note.. the mitochondrial genes are just annotated as 'mito'.
DOI: 10.5061/dryad.21nf3/36
title: 28S.aln5.22.09

description: This is the uncut 28S rDNA file for T2+T1, with annotations about included regions. Ribosomal genes are complex to align across deep divergences (240 million years for flies). That means that divergent domains (expansion regions are excluded in most phylogenetic analyses of this gene.), so the annotations in this file (at the bottom) correspond to positions that are cut-out (excluded) in our phylogenetic analysis. If you sequenced 28S this will allow you to fit your sequence into our alignment without confusion about missing pieces. Brachyceran or only Schizophoran sequences were separated from lower Diptera for some regions in this alignment, in order to include alignable regions within these sections for just higher flies.  The cut version of this file is FLY2.28s.nex (not annotated).
DOI: 10.5061/dryad.21nf3/37
title: fly2.28s

description: 28S rDNA alignment for phylogenetic analysis with ambiguous alignment regions The cut version of 28s.aln.5.22.09.nex
DOI: 10.5061/dryad.2204v/1
title: PBR raw data archive

description: Spreadsheet of raw tadpole assiciation time data and MHC-PBR amino acid stimulus differentials.
DOI: 10.5061/dryad.33d5s/1
title: Extrinsic fitness

description: Table showing the survivorship (percentage) 3 days after heat stress essay. The data is divided into separate files for each temperature and experimental cross. BR- Bird Rock; SC- Santa Cruz; SD- San Diego.
DOI: 10.5061/dryad.33d5s/2
title: Intrinsic fitness

description: Survivorship (percentage) 14 days after hatching. The data is divided into separate files for each experimental cross and inbred parental lines. BR- Bird Rock; SC- Santa Cruz; SD- San Diego.
DOI: 10.5061/dryad.400jc8bj/1
title: GoodmanEtAl2012MicrosatelliteData

description: Microsatellite data set of 13 loci from 10 sampling locations in Genepop (3-digit allele size) format. Data were generated from samples collected across Hawaii Island. Microsatellite names follow primer names described in Goodman et al 2008, Molecular Ecology Resources 8:1436-1438.
DOI: 10.5061/dryad.5m2671qf/1
title: Results of paired choice tests.

description: See data file for description of abbreviations.
DOI: 10.5061/dryad.6sf11/1
title: Measurements of individual spermatozoa in Azores and Eurasian bullfinches

description: Measurements of head and flagellum length in 10 spermatozoa per male in 11 Azores bullfinches (P. murina) and 13 Eurasian bullfinches (P. pyrrhula) with details of sampling locality and date. (Raw data file for Table 1 in the paper)
DOI: 10.5061/dryad.6sf11/2
title: Pyrrhula pyrrhula sperm motility

description: Motility measures of individual sperm tracks analysed by Computer Assisted Sperm Ananlysis (CASA). The file lists the sperm tracks from 11 male Eurasian bullfinches (P. pyrrhula) with details of sampling locality and date. (Raw data file for Table 2 in the paper)
DOI: 10.5061/dryad.6ss84/1
title: ERROR_test_22LM

description: MorphoJ file
DOI: 10.5061/dryad.72h4m/1
title: AFLP dataset_12PK_N=68.nex
DOI: 10.5061/dryad.7pr554s8/1
title: Gladiolus_tree

description: Maximum-likelihood estimate of phylogeny obtained in RaxML v.7.2.1 (Stamatakis 2006), based on the re-analysis of the Gladiolus matrix of Valente et al. 2011 (matK, psbA-trnH, trnS-trnG, rpl32-trnL, trnQ-rps16) with indel character information added.
DOI: 10.5061/dryad.7pr554s8/2
title: Table

description: Pollination systems of the 148 species of Gladiolus sampled.
DOI: 10.5061/dryad.9sk7h/1
title: Chaffee et al codes

description: This zip file contains the MATLAB code for the models used to generate the results in Chaffee et al. (2013, Evolution).  The folder includes a readme file describing the individual .m files.
DOI: 10.5061/dryad.b267q/1
title: Number of pollen tubes in styles and ovaries after hand-pollination experiments

description: Results of the in vivo and in vitro hand-pollination, collected in the field. Excel file including two sheets, one for in vivo and another for in vitro. See the headings of the columns for the abbreviations.
DOI: 10.5061/dryad.ft5v0/2
title: kopvbov

description: Data for Figure 2 and first paragraph of the Results.
DOI: 10.5061/dryad.g792f/1
title: Data for DRYAD "Pleiotropy in the wild"

description: Phenological data collected in the field in Massachusetts.  Replicates of ifferent genotypes--near isogenic lines carryign contrasting alleles at DOG1, FLC, and CRY2--were matured under three conditions and dispersed during three seasons.  date of dispersal, date of germination, date of flowering, and total silique production (a measure of fitness) was recorded
DOI: 10.5061/dryad.jf880/1
title: An arabiensis biochemical results for submission Dryad 21 11 12

description: Biochemical data for 20 females and 20 males from the Ndja strain originating from Ndjamena in Chad and from 20 females and 20 males from the Moz strain originating from Chokwe in Mozambique. The results from the different enzyme families tested are given for each mosquito.
DOI: 10.5061/dryad.jf880/2
title: FAMILY 2 genotype file

description: Genotype data for family 2 for the different markers
DOI: 10.5061/dryad.jf880/3
title: FAMILY 3 genotype data

description: Genotype data for Family 3 used for genetic mapping.
DOI: 10.5061/dryad.jf880/4
title: Family 2.mcd

description: Family 2 mcd data file used for QTL mapping in QTL Cartographer
DOI: 10.5061/dryad.nh53j/1
title: dryad
DOI: 10.5061/dryad.p12305b2/1
title: tpc093674SupplementalDS4

description: List of Genbank accession used for the EST dataset of the article
DOI: 10.5061/dryad.p12305b2/2
title: tpc093674SupplementalDS5

description: Acession numbers for the complete genome dataset of the article
DOI: 10.5061/dryad.r058p/1
title: Common buzzard broods with parental identity and morph and timing data

description: Data on common buzzard (Buteo buteo) breeding collected in the field close to Bielefeld, North Rhine-Westphalia. Brood attempts contain data on fledging date and parental identities and melanin morphs.
DOI: 10.5061/dryad.s2np7/4
title: Auger et al F2 2D4D vs AGD input file

description: 2D to 4D digit ratio measured by semi-automatic image analysis vs relative anogenital distance (AGD) measured by a standardized method according to exposure conditions in the F2 unexposed generation sired by exposed fathers and unexposed mothers
DOI: 10.5061/dryad.121d03jc/10
title: Supplementary Table2csv
DOI: 10.5061/dryad.121d03jc/11
title: Supplementary Table3csv
DOI: 10.5061/dryad.121d03jc/12
title: Supplementary Table4csv
DOI: 10.5061/dryad.121d03jc/13
title: Supplementary Figure1
DOI: 10.5061/dryad.121d03jc/14
title: Supplementary Figure2
DOI: 10.5061/dryad.121d03jc/8
title: Supplementary Table4
DOI: 10.5061/dryad.121d03jc/9
title: Supplementary Table1csv
DOI: 10.5061/dryad.17qs8/1
title: Genetypic_data

description: Genotypic data for 15 microsatellites for weedy individuals and 24 varieties; missing data coded as NA
DOI: 10.5061/dryad.17qs8/2
title: Phenotypic_data

description: The Excel file has both the data (one worksheet per weedy population, one worksheet for phenological data of cultivated fields), and a worksheet explaining each of the columns/fields.
DOI: 10.5061/dryad.22g66/1
title: Microsatellite genotypes for temporal Attwater Prairie-chicken populations

description: Genotypes for 5 microsatellite loci used to compare genetic diversity levels among historic (1887-1948), pre-captive (1990-94) and captive (2006) Attwater's Prairie-chicken populations.
DOI: 10.5061/dryad.22g66/2
title: mtDNA control region sequence alignment for temporal Attwater's Prairie-chicken populations

description: Mitochondrial control region domain I partial sequence alignment used to compare diversity levels among historic (1987-1948), pre-captive (1990-1994) and captive (2006) Attwater's Prairie-chicken populations.
DOI: 10.5061/dryad.22g66/3
title: Microsatellite genotypes for the captive 2006 Attwater's Prairie-chicken population

description: Microsatellite genotypes (8 loci) from the captive Attwater's Prairie-chicken population used in the mixed model analyses.  All living individuals in captivity as of March 2006 were sampled.
DOI: 10.5061/dryad.2kp7q7vb/1
title: Alloprhyne_resplendens_Total
DOI: 10.5061/dryad.7mv26/1
title: Supplementary Table 1 Microsatellite loci employed for association analyses

description: Flanking and intragenic markers employed for the association analysis with KIT, their product size in numbers of base pairs, number of alleles detected and their position in KIT or in relation to KIT.
DOI: 10.5061/dryad.7mv26/2
title: Supplementary Table 2 Primer sequences

description: Primer sequences used to amplify 60 microsatellites used to adjust for population structure during association analyses.
DOI: 10.5061/dryad.7mv26/3
title: Supplementary Table 3 Polymorphism levels of markers

description: Polymorphism levels of markers used to test association of markers with the blue-eyed white phenotype. Markers 55270241 and KKDR3 were monomorphic and so not included in this table or further analyses.
DOI: 10.5061/dryad.83vj2/1
title: Genotypes_dryad

description: Genotypes of E.balteatus and S.scripta samples on 12 microsatellites markers. There are also some information on the place were the individuals are from : locality, longitude and latitude. Geneotypes were determined on the software GENEMAPPER® 4.0 (AB-life technologies), after PCR and Sanger sequencing of the microsatellite sequences.
DOI: 10.5061/dryad.89q2c/1
title: Ppunctata_microsatellite data
DOI: 10.5061/dryad.d48n3/1
title: Annonaceae matK

description: Nexus matrix of matK sequences of various Annonaceae
DOI: 10.5061/dryad.g7q12/1
title: Rscript_simdata

description: This R-script simulates data and generates plots for expected estimates of offensive sperm competitiveness and their variances in relation to true offensive competitiveness in assays using a) random rival males, and b) standardized rival males. Three different levels of variation in first-male competitiveness and male-male interaction variation are assumed, respectively. This corresponds to figure 1 a,b in the original contribution. Similar simulations assuming variation in female bias towards second males and female-male interaction variation (i.e. fig 1 c,d) can be done with minor changes only.
DOI: 10.5061/dryad.jf880/5
title: Family 3.mcd

description: Family 3 mcd file used for QTL mapping using QTL cartographer
DOI: 10.5061/dryad.jf880/6
title: combined family2+3.mcd

description: Combined mcd files for family 2 and 3 used to detect QTL when both families are combined.
DOI: 10.5061/dryad.jf880/7
title: qRTPCR data

description: qRT-PCR data and PCR efficiency of the different ptimers used.
DOI: 10.5061/dryad.jh3sb/1
title: Gecko Alignment
DOI: 10.5061/dryad.jh3sb/2
title: Draco Alignment
DOI: 10.5061/dryad.jh3sb/3
title: Rhacophorus Alignment
DOI: 10.5061/dryad.jh3sb/4
title: Chrysopelea Alignment
DOI: 10.5061/dryad.jh3sb/5
title: Squirrel Alignment
DOI: 10.5061/dryad.kh800/1
title: behavior data on gift feeding durations

description: MS Excel file, time spent feeding by females on nuptial food gifts, females originated from three groups: inbred Gryllodes (lines A-I), outbred Gryllodes (=col) and Acheta females; we recorded latency to accept gift (=latency) and time spent feeding (duration)
DOI: 10.5061/dryad.kh800/2
title: data on amino acid composition of spermatophylax

description: Excel file, variation in amino acid composition of the spermatophylax as a function of inbred line (A-I) and as determined by GC/MS
DOI: 10.5061/dryad.r058p/2
title: Genotyped nestlings with melanin morph, parental identities and morphs and brood timing

description: Genotyped for NPAS2 poly-Q, ADCYAP1 and CREB1
DOI: 10.5061/dryad.r058p/3
title: Data on common buzzard resightings after being ringed as nestlings

description: Includes distance from natal nest, genotypes for ADCYAP1, CREB1, NPAS2 own and parental melanin morphs
DOI: 10.5061/dryad.r058p/4
title: Dataset of juvenile buzzards with identified dispersal behaviour

description: Containing for each individual: distance from natal nest and days since ringing, ADCYAP1, CREB1 and NPAS2 genotypes, melanin morphs of nestlings and offspring.
DOI: 10.5061/dryad.r058p/5
title: R code for analysis of data files as performed by Chakarov et al.

description: R code for analysis of associations between parental identity, parental melanin morph and brood timing, buzzard ADCYAP1, CREB1 and NPAS2 genotype and association with timing (of own hatching) and own dispersal behavior.
DOI: 10.5061/dryad.r058p/6
title: Sequences of CLOCK, NPAS2, ADCYAP1 and CREB1  of Falconiformes

description: Edited and aligned sequences of CLOCK, NPAS2, ADCYAP1 and CREB1 repeat alleles and flanking regions of phenological candidate gene from Buteo, Accipiter, Milvus, Pernis and Falco.
DOI: 10.5061/dryad.s1674/1
title: data to Heredity HDY-12-OR0182RR

description: A reciprocal intercross of maize JB and Y53 was generated to identify segregation distortion loci (SDL).
DOI: 10.5061/dryad.1684v7t1/1
title: Infection loads of bumblebee workers

description: Infection load of bumblebee workers. Data were obtained by quantitative PCR.
DOI: 10.5061/dryad.22g66/4
title: SPSS input file for adult Attwater's Prairie-chicken Cox proportional hazards model analyses

description: SPSS input file used to conduct Cox proportional harzards model analyses to explore the effects of several potential explanatory variables simultaneously on juvenile (&gt;8 months) and adult Attwater’s Prairie-chicken survival in captivity.
DOI: 10.5061/dryad.22g66/5
title: SPSS input file for chick Attwater's Prairie-chicken Cox proportional harzards model analyses

description: SPSS input file used to conduct Cox proportional harzards model analyses to explore the effects of several potential explanatory variables simultaneously on Attwater’s Prairie-chicken chick survival in captivity to 14 and 50 days post-hatch.
DOI: 10.5061/dryad.2kp7q7vb/2
title: Alloprhyne_distances_12S
DOI: 10.5061/dryad.2kp7q7vb/3
title: Allophryne_distances_16S
DOI: 10.5061/dryad.4qk42/1
title: A Comparison of Generational Evolutionary Variation Between a Rich CPPN Genome and a Flat Seeded CPPN Genome

description: A comparison of evolutionary variation produced when evolving the “Angel with Halo” object from EndlessForms with two different CPPN representations: its original rich CPPN genome and a flat CPPN genome produced by the seeded-CPPN technique. Each picture represents a generation. The generations of objects produced by the original rich CPPN genome are in the 'production' folder while the objects produced from the seeded CPPN are in the 'seed' folder. Each file is named under the following format 'genx_y_z_w.png', which represents the object (seeded or original, depending on folder) at generation x. To reach generation x+1 (for x &lt; 15) objects from positions y, z and w were chosen randomly to be the parents. Object position is indexed at 0 and increases from left to right and top to bottom (first row is 0-4, inclusive).
DOI: 10.5061/dryad.7b2d9/1
title: NPQ_data_Dryad

description: Nonphotochemical quenching, measured using a Hansatech chlorophyll fluorometer, SigmaPlot parameter estimates for fitted data, and estimates of maximum NPQ (NPQmax) by accession and species. "E" = excess light; "L" = limiting light.
DOI: 10.5061/dryad.7b2d9/2
title: qEqZqI_data_Dryad

description: Raw chlorophyll fluorescence values (Fm, Fm'1, Fm'2), and values calculated for individual nonphotochemical quenching (NPQ) components (qE, qZ, qI). Data derived from the same tissues as used in NPQmax_data_Dryad.xlsx.
DOI: 10.5061/dryad.7b2d9/3
title: PhiPSII_data_Dryad

description: Quantum yield of photosystem II (PhiPSII) measured with a chlorophyll fluorometer using on the same tissue and under the same conditions used to measure NPQmax, qE, qI, and qZ.
DOI: 10.5061/dryad.8391t/1
title: Raw_Data

description: Seed set of manipulated flowers (Excel sheet one) and microsatellite data (Excel sheet two). Pop = population, ind = individual, rank = flower position, treat = treatment, seednb = seed set. Treatments are: (a) open-pollination of intact flowers; (b) emasculation of anthers prior to anthesis; (c) apical stigma removed before receptivity; (d) emasculation and apical stigma removed; (e) pollen supplementation using outcross pollen applied to apical stigmas.
DOI: 10.5061/dryad.911fs2b9/1
title: Bubliy_et_al_2012
DOI: 10.5061/dryad.b7093hv2/2
title: EVA-2011-182-OA.R1_Grossman and Rice_datafile

description: Excel workbook containing three spreadsheets: 1) the data associated with this study, 2) a description of the data fields, 3) a list of the accessions used in the study.
DOI: 10.5061/dryad.bv7tv/1
title: Amblyopsidae-ND2
DOI: 10.5061/dryad.bv7tv/2
title: Amblyopsidae-PLAG
DOI: 10.5061/dryad.bv7tv/3
title: Amblyopsidae-PTR
DOI: 10.5061/dryad.bv7tv/4
title: Amblyopsidae-RAG1
DOI: 10.5061/dryad.bv7tv/5
title: Amblyopsidae-SH3
DOI: 10.5061/dryad.d48n3/2
title: Annonaceae trnLF

description: Nexus matrix of trnL-F sequences of various Annonaceae.
DOI: 10.5061/dryad.d48n3/3
title: Annonaceae ycf1

description: Nexus file of ycf1 sequences of various Annonaceae.
DOI: 10.5061/dryad.fd5q0p68/1
title: Casewell_metalloproteinase_alignment.fas

description: An amino acid sequence alignment of ADAM and ADAMTS proteins isolated from the genomes of Homo sapiens, Danio rerio and Anolis carolinensis with basal snake venom metalloproteinases isolated from Elapidae and Atractaspidinae
DOI: 10.5061/dryad.g0v6h003/1
title: Grieshop & Polak_2012_Evolution
DOI: 10.5061/dryad.g12k7/1
title: FIGURE. 1. Distribution of cerato-platanin homologs in Dikarya.

description: Distribution of cerato-platanin homologs in Dikarya.
DOI: 10.5061/dryad.g12k7/2
title: All cerato-platanin mature proteins

description: FASTA file of all cerato-platanin mature proteins
DOI: 10.5061/dryad.gm29rj2f/1
title: Stelkens et al. geo morpho data

description: Data file containing raw coordinates of 13 geometric morphometric landmarks from 580 brown trout specimens and the first 3 PC scores from principal component analysis. ID = individual identity; Pop ID = poplation identity
DOI: 10.5061/dryad.q2s7h/1
title: Orchid 3'ycf1

description: Nexus matrix of 3' ycf1 sequences of various Orchidaceae
DOI: 10.5061/dryad.q2s7h/2
title: Orchid matK

description: Nexus matrix of matK sequences of various Orchidaceae
DOI: 10.5061/dryad.q2s7h/3
title: Sobralieae ITS

description: Nexus matrix of nrITS sequences of various Sobralieae (Orchidaceae)
DOI: 10.5061/dryad.q2s7h/4
title: Sobralieae matK

description: Nexus matrix of matK sequences of various Sobralieae (Orchidaceae)
DOI: 10.5061/dryad.q2s7h/5
title: Sobralieae ycf1

description: Nexus matrix of ycf1 sequences of various Sobralieae (Orchidaceae)
DOI: 10.5061/dryad.q2s7h/6
title: Vandeae ITS

description: Nexus matrix of nrITS sequences of various Vandeae (Orchidaceae)
DOI: 10.5061/dryad.q2s7h/7
title: Vandeae matK

description: Nexus matrix of matK sequences of various Vandeae (Orchidaceae)
DOI: 10.5061/dryad.rv624/1
title: Supplemental File 1

description: A spreadsheet summarizing our classification and analysis of pre-MBT and MBT gene groups. The first sheet gives an explanation for all column headings. The second sheet lists all data for all our annotated genes, including our ten custom transcripts. It includes the classifications into pre-MBT and MBT gene groups, the Pol II ChIP-seq enrichment values at the transcription start site (TSS) and transcription unit (TU) for all replicates, phastCon conservation scores, and the presence or absence of all core promoter motifs analyzed in this study, as well as the presence of the TATA element identified by de novo motif analysis.
DOI: 10.5061/dryad.s44s8/1
title: SelaginellaData_Dryad
DOI: 10.5061/dryad.2r730/1
title: PCR primer sequences for markers used

description: Primer sequences for markers used in the study, including the primers brought in from the older McGaugh et al 2012 PLoS Biology paper. Also included are the positions of the markers in the sequence assembly of the second chromosome of D. pseudoobscura.  Some markers used three primers simultaneously to differentiate the inbred lines in a single PCR.
DOI: 10.5061/dryad.2r730/2
title: Recombination rates, Diversity, and Divergence Measures

description: Data used to examine correlation of recombination rate with nucleotide diversity within D. pseudoobscura (measured as "pi") and divergence between D. pseudoobscura and D. miranda (measured as "Dxy"). Data are listed by position in the second chromosome sequence assembly of D. pseudoobscura. Measures are done for both four-fold degenerate synonymous sites and intergenic regions. Divergence between D. pseudoobscura and outgroup D. lowei are also included.