cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.vj969/1
title: Supplemental Data 2

description: Three-dimensional PDF of digitally extracted right pterygoid sinus of the extinct porpoise Semirostrum ceruttii, SDSNH 65276.
DOI: 10.5061/dryad.0q7pc/1
title: Figure 1.

description: Concatenated maximum likelihood (-Log L = 8452.31415) tree based on cyt-b and 12S haplotypes of focal taxa (Ancash, Ayacucho Cusco) and species assigned to the alticolor group and outgroups. Bootstrap ≥ 70 (*) and posterior probabilities values are shown above and below branches respectively.
DOI: 10.5061/dryad.0q7pc/2
title: Figure 2.

description: Detailed view of the cloaca region showing absence (A, D) or presence (B, C, E) of precloacal pores: (A) Ancash, (B) Ayacucho, (C) Cusco, (D) L. tacnae, and (E) L. walkeri.
DOI: 10.5061/dryad.12kh6/3
title: Phenotype measurements for all 22 traits and all individuals from four Populus hybrid zones

description: Columns: individual number; source population (Italy, Austria, Hungary, Spain); individual ID; species assignment (H, hybrid; A, P. alba; T, P. tremula); followed by phenotypes for all 22 phenotypic traits measured/calculated. Phenotype measurements represent averages over 5 leaves measured per tree.
DOI: 10.5061/dryad.12kh6/4
title: Result of Structure run for Italy, using linkage model (Input file for R code; text file)

description: Columns: individual number; individual ID; percent missing data; proportion of ancestry from cluster 1 (P. tremula); proportion of ancestry from cluster 2 (P. alba); followed by their 90% probability intervals.
DOI: 10.5061/dryad.12kh6/5
title: Result of Structure run for Italy, using linkage model, site-by-site output (Input file for R code; text file)

description: Columns: individual number; locus number; followed by 4 columns for LSA estimates (probability that both alleles are from P. alba; probability that first allele is from P. alba, second from P. tremula; probability that first allele is from P. tremula, second from P. alba; probability that both alleles are from P. tremula).
DOI: 10.5061/dryad.12kh6/6
title: Information on microsatellite markers used (Input file for R code)

description: Columns: locus number; abbreviated locus name used in this study; locus name published; chromosome; position on chromosome in bp; position in bp/200,000 as proxy for cM; marker type (dominant or co-dominant).
DOI: 10.5061/dryad.12kh6/7
title: Phenotype measurements for Italy, admixed individuals only, 8 mapping traits (Input file for R code)

description: Rows give measurements for individuals in the same order as in Structure files; columns give 8 main phenotypic traits used for admixture mapping. Phenotype measurements represent averages over 5 leaves measured per tree.
DOI: 10.5061/dryad.13jc4/1
title: AFLP genotypes from C. gigas populations
DOI: 10.5061/dryad.13jc4/2
title: SNP genotypes from C. gigas populations
DOI: 10.5061/dryad.13jc4/3
title: microsatellite genotypes from C. gigas populations
DOI: 10.5061/dryad.14hj1/1
title: DRYAD_MorphologyData

description: Morphological data on neonates. data collected in the laboratory.
DOI: 10.5061/dryad.2mg77/1
title: Boobies life history traits

description: Life history traits of male and female boobies collected in the field. Legends: cohort = natal year of each focal recruit; ssty0 = average sea surface temperature anomalies (SSTA) in the year before birth; ssty1 = SSTA in the natal year; ssty2 = SSTA in the second year of life; ssty3 = SSTA in the third year of life; motage = age of each focal recruit´s mother; motcohort = natal year of each focal recruit´s mother; sstmoy1 = SSTA in the natal year of each focal recruit´s mother; mass70 = body mass of each focal recruit at age 70 d; ulna70 = ulna length of each focal recruit at age 70 d; recage = recruiting age; sex = sex of each focal recruit (f = female, m = male); bfreq = number of breeding attempts; totfledg = total number of fledglings; long = longevity up to age 10 yrs.
DOI: 10.5061/dryad.2mg77/2
title: Laying date and annual breeding success of blue-footed boobies

description: Laying dates and breeding success of male and female boobies in the season when they recruited and during each breeding attempt up to age 10 yrs. Data collected in the field. Legends: cohort = natal year of each focal recruit; ssty0 = average sea surface temperature anomaly (SSTA) in the year before birth; ssty1 = SSTA in the natal year; ssty2 = SSTA in the second year of life; ssty3 = SSTA in the third year of life; motage = age of each focal recruit´s mother; motcohort = natal year of each focal recruit´s mother; sstmoy1 = SSTA in the natal year of each focal recruit´s mother; breedyr = year of reproduction; sstdf = SSTA in the winter of the current season; sstmay = SSTA in the winter-spring of the current season; animal = ID of each focal recruit; recage = recruiting age; sex = sex of each focal recruit (f = female, m = male); age2 = quadratic term of age of each focal recruit; zfledg = annual standardized breeding success; ldate = Julian laying date.
DOI: 10.5061/dryad.2r79q/1
title: Peptide Evidence

description: This compressed file contains a tab-delimited table listing the peptide evidence generated by processing the raw MS and MS/MS data using the MaxQuant software package, which includes a built-in database search engine called Andromeda. The spectra were searched against the UniProt Human Reference Proteome, accessed on August 2012. The table includes all instances of peptide identifications and quantitations, and their database search scores and posterior error probabilities.
DOI: 10.5061/dryad.3231b/2
title: supplementary 2

description: List of taxa used for forelimb ratios according to supplementary data of Joyce and Gauthier (2004) with added taxa.
DOI: 10.5061/dryad.3c190/1
title: seqs_rep_set_tax_assignments

description: The representative sequences for all samples: hybrids, non-hybrid species, and S. bullata fly host. Only larval microbes represented for the conventional rearing condition. Barcode identifiers found in the supplemental section online.
DOI: 10.5061/dryad.3c190/2
title: 1/15 RNAseq file

description: see readme file
DOI: 10.5061/dryad.3c190/3
title: 2/15 RNAseq file
DOI: 10.5061/dryad.3c190/4
title: 3/15 RNAseq file
DOI: 10.5061/dryad.3c190/5
title: 4/15 RNAseq file
DOI: 10.5061/dryad.3c190/6
title: 5/15 RNAseq file
DOI: 10.5061/dryad.3c190/7
title: 6/15 RNAseq file
DOI: 10.5061/dryad.3c190/8
title: 7/15 RNAseq file
DOI: 10.5061/dryad.3c190/9
title: 8/15 RNAseq file
DOI: 10.5061/dryad.4gb17/1
title: Data Sponge Loop DRYAD

description: All data of Figures 1 and 2 of the Sponge Loop publication.  For a more detailed description of the data, see also supplementary information belonging to the publication.
DOI: 10.5061/dryad.504636cd/34
title: Figure3_b_BI

description: Tree file corresponding to result of the Bayesian inference reported in Figure 3b.
DOI: 10.5061/dryad.504636cd/35
title: Figure3_b_ML

description: Tree file corresponding to result of the Maximum Likelihood inference reported in Figure 3b.
DOI: 10.5061/dryad.504636cd/36
title: Beast_inference4_E_161_tree

description: Tree file corresponding to result of the Beast inference 4 described in Figure 5.
DOI: 10.5061/dryad.6dc6k/1
title: Kuhnetal2013_DRYAD_MS

description: Individual allele lengths of ten unlinked microsatellite loci (n= 311)
DOI: 10.5061/dryad.6dc6k/2
title: Kuhnetal2013_DRYAD_Clock

description: Individual allele lengths of the avian Clock-gene locus (n= 282)
DOI: 10.5061/dryad.6dc6k/3
title: Kuhnetal2013_DRYAD_ControlRegAlign

description: Sequence alignment of control region sequences (271 bp) used for mtDNA analyses
DOI: 10.5061/dryad.6dc6k/4
title: Kuhnetal2013_DRYAD_ClockAlign

description: Sequence alignment of Clock-gene sequences (235 bp) used for population genetic analyses
DOI: 10.5061/dryad.7h5s5/1
title: Matlab Source Code

description: This is the Matlab source code for the basic model simulations corresponding to Fig. 2 of the article.
DOI: 10.5061/dryad.8041k/1
title: FBarraquand et al. J Anim Ecol 2013 Data and Code

description: Contains the field data pertaining to skua reproduction and lemming densities from the study sites at Karupelv, Traill Island, and Zackenberg (both in Greenland). See cited papers by O. Gilg and N.M. Schmidt in Barraquand et al. for a more complete description of the data and study sites characteristics. The code part of this folder includes all Matlab and Gnuplot scripts that have been used to produce the figures in the paper.
DOI: 10.5061/dryad.80ph2/1
title: Eckert_et_al_pairwise_alignments

description: The file named Eckert_et_al_pairwise_alignments.zip contains 11 directories corresponding to pairwise alignments between loblolly pine and one of the eleven focal species. Within each directory are 192 fasta formatted alignment files (except for Pinus strobiformis which contains 191 alignment files). Alignment files are named by locus as defined in the manuscript associated with this Dryad entry. Within each alignment file are aligned sequences for the focal species and Pinus taeda (= loblolly pine). Sequences are identified to species using the following codes: Pial: Pinus albicaulis, Piar: Pinus aristata, Piay: Pinus ayacahuite, Pibf: Pinus balfouriana, Pifl: Pinus flexilis, Pila: Pinus lambertiana, Pilo: Pinus longaeva, Pimn: Pinus monticola, Pimo: Pinus monophylla, Pisb: Pinus strobiformis, Pist: Pinus strobus, Pita: Pinus taeda. Please note that a subset of 167 alignments was used in the final analysis. These can be identified using the online supplemental file available at the journal website.
DOI: 10.5061/dryad.8gs3n/1
title: Standardized abundances of carabid species caught in every sites

description: This table contains the standardized abundances of each carabid species captured in each of the 192 sites. Carabids were collected using three pitfall traps in each site and beetle abundances were divided by the number of days each trap was active to remove the effect of trap disturbance. The code for each species is available in table E1 of the associated publication (Blanchet et al. Consensus RDA across dissimilarity coefficients for canonical ordination of community composition data, Ecological Monographs) as well as the detailed description of sampling protocol. More details about sampling and analysis of this data may be found in: Blanchet FG, JAC Bergeron, JR Spence, F He, 2013. Landscape effects of disturbance, habitat heterogeneity and spatial autocorrelation for a ground beetle (Carabidae) assemblage in mature boreal forest. Ecography, 36(5): 636-647; Bergeron JAC, GF Blanchet, JR Spence, WJA Volney, 2012. Ecosystem classification and inventory maps as surrogates for ground-beetle assemblages in boreal forest, Journal of Plant Ecology, 5(1): 97-108; and Bergeron JAC, JR Spence, WJA Volney, 2011. Landscape patterns of species-level association between ground-beetles (Coleoptera: Carabidae) and overstory trees in boreal forests of western Canada, Zookeys, 147: 577-600. This data and the analysis procedures associated with this paper are also available in the R package ordiconsensus  (https://r-forge.r-project.org/R/?group_id=68).
DOI: 10.5061/dryad.8gs3n/2
title: Relative basal area for each tree species recorded in every sites

description: This table contains the relative basal area for each tree species sampled at each site. In each of the 192 sites, the diameter at breast height (dbh) and species of the 25 trees closest to the centre of the plot and over 5 cm bdh were recorded. Total basal area was calculated for each species in each site and divided by the total basal area of all species in each site to produce the relative basal area. Refer to the associated publication (Blanchet et al. Consensus RDA across dissimilarity coefficients for canonical ordination of community composition data, Ecological Monograph) for more details on sampling protocol and table E2 of this same publication for the abbreviation of the tree species. More details about sampling and analysis of this data may be found in: Blanchet FG, JAC Bergeron, JR Spence, F He, 2013. Landscape effects of disturbance, habitat heterogeneity and spatial autocorrelation for a ground beetle (Carabidae) assemblage in mature boreal forest. Ecography, 36(5): 636-647; Bergeron JAC, GF Blanchet, JR Spence, WJA Volney, 2012. Ecosystem classification and inventory maps as surrogates for ground-beetle assemblages in boreal forest, Journal of Plant Ecology, 5(1): 97-108; and Bergeron JAC, JR Spence, WJA Volney, 2011. Landscape patterns of species-level association between ground-beetles (Coleoptera: Carabidae) and overstory trees in boreal forests of western Canada, Zookeys, 147: 577-600. This data and the analysis procedures associated with this paper are also available in the R package ordiconsensus  (https://r-forge.r-project.org/R/?group_id=68).
DOI: 10.5061/dryad.8n6t5/1
title: final Rscript Rinjani

description: R script for analyses
DOI: 10.5061/dryad.8n6t5/2
title: Rinjani Elevation Database

description: Spreadsheet with all data
DOI: 10.5061/dryad.8n6t5/3
title: Supplementary material.zip

description: Compressed file supplementary figures and tables
DOI: 10.5061/dryad.8v0c3/1
title: Dryad - Rangewide alewife microsatellite data

description: This tab-delimited text file contains the raw microsatellite data (15 loci) for alewife (A. pseudoharengus) used by Palkovacs et al. (2013) 'Combining genetic and demographic information to prioritize conservation efforts for anadromous alewife and blueback herring' to examine genetic population structure, and by Hasselman et al. (2014) 'Human disturbance causes the formation of a hybrid swarm between two naturally sympatric fish species' to examine rangewide frequency of hybridization in river herrings.
DOI: 10.5061/dryad.8v0c3/2
title: Dryad - Rangewide blueback microsatellite data

description: This tab-delimited text file contains the raw microsatellite data (15 loci) for blueback herring (A. aestivalis) used by Palkovacs et al. (2013) 'Combining genetic and demographic information to prioritize conservation efforts for anadromous alewife and blueback herring' to examine genetic population structure, and by Hasselman et al. (2014) 'Human disturbance causes the formation of a hybrid swarm between two naturally sympatric fish species' to examine rangewide frequency of hybridization in river herrings.
DOI: 10.5061/dryad.g2m0j/1
title: Crude Protein content of Plains zebras in Hwange National Park, Zimbabwe

description: This file contains the Crude Protein content of faeces of plains zebras and the data associated to this index of diet quality : Distance to lions (two classes : far and close from lions) ; Sex of of the individual ; Harem affiliation and Individual Identity of the zebra ; Date of faeces collection.
DOI: 10.5061/dryad.g625b/2
title: Jennings_Nootkacypress_PrimerSeqs

description: This comma-delimited file provides information for 144 primers that were screened on four Nootka cypress populations. Included are the primer name, forward and reverse primer sequence, the original sequence name from Illumina sequencing, and the nucleotide sequence of the microread (2 x 80 bp, with read 1 and read 2 separated by 8 N's).
DOI: 10.5061/dryad.g90hd/1
title: EjaculateTraits

description: Ejaculate traits for each Male. Longevity: time of motility from activation until no longer motile (in seconds), 2 replicates per male. Density: sperm counts of visible field (2 per Male). Volume: Ejaculate volume (microliter) A: before setup of experiment, B: at IVF, C: 2 weeks after end of experiment.
DOI: 10.5061/dryad.g90hd/2
title: SpermMotility

description: Number of total sperm and motile sperm recorded, 10 seconds post activation.
DOI: 10.5061/dryad.g90hd/3
title: SpermVelocity

description: Sperm swimming speed parameters recorded (VCL, VAP, VSL) at 4 time points (10 / 20/30/40 seconds post activation).
DOI: 10.5061/dryad.g90hd/4
title: LarvalSurvival

description: Survival at 4 points (from 3h post fertilisation to 1 week of age).Reported are numbers of offspring alive / dead for each clutch.
DOI: 10.5061/dryad.h61v0/1
title: DataDescriptionRunemark et al

description: This file describes the contents of the other files associated with this manuscript uploaded to Dryad. It also contains general information about the manuscript.
DOI: 10.5061/dryad.hq564/1
title: Gene features in Drosophila pseudoobscura
DOI: 10.5061/dryad.j4n82/1
title: Individual data
DOI: 10.5061/dryad.k1t1f/1
title: Alignments and Partition Files

description: Alignments and partition files
DOI: 10.5061/dryad.k1t1f/2
title: Bootstrap Consensus Trees

description: Bootstrap Consensus Trees
DOI: 10.5061/dryad.k1t1f/3
title: MLTreeswBLandBS
DOI: 10.5061/dryad.k68n1/3
title: Alliaria_data

description: Leaf and tiller number and leaf width data for Alliaria plants from both years (year [1,2]) of the experiment. Rows represent data from pots. There are column headers in row 1 plus 2970 rows of data. See ReadMe file for details.
DOI: 10.5061/dryad.m64hs/1
title: Ressource Competition Experiment

description: The table "Resource Competition Experiment.csv" corresponds to the manuscript sections of the same name. It contains the number of food items taken by workers of each species during resource competition experiments between the invasive Argentine ant and three different competing species (the native Monomorium antarcticum, the introduced Ochetellus glaber and the introduced Technomyrmex jocosus) while treated with synthetic phermone. The experimental design is explained in the publication in the methods section with the same name as the datafile, further description of the datafile can be found in the ReadMe.txt.
DOI: 10.5061/dryad.m64hs/2
title: Behavioural Scoring

description: The table "Behavioural Scoring.csv" corresponds to the manuscript sections  of the same name. It contains he behaviour displayed by Argentine ant workers and one of the corresponding competing species (the native Monomorium antarcticum, the introduced Ochetellus glaber and the introduced Technomyrmex jocosus) during ressource competition, while treated with synthetic pheromone. The experimental design is explained in the publication in the methods section with the same name as the datafile, further description of datafile can be found in the ReadMe.txt.
DOI: 10.5061/dryad.mm18b/1
title: Alignment_Fig.5_Mojib_et_al

description: Phylogenetic relationships of β-carotene hydroxylases from various organisms.
DOI: 10.5061/dryad.mm18b/2
title: Tree_Fig_5_Mojib_et_al.nexus.con

description: Phylogenetic relationships of β-carotene hydroxylases from various organisms
DOI: 10.5061/dryad.mm18b/3
title: Alignment_Fig_6_Mojib_et_al

description: Phylogenetic analysis of lipocalin superfamily proteins from various organisms.
DOI: 10.5061/dryad.mm18b/4
title: Tree_Fig_6_Mojib_et_al.nexus.con

description: Phylogenetic analysis of lipocalin superfamily proteins from various organisms.
DOI: 10.5061/dryad.nh31f/1
title: BiolJLinnSoc_Dryad

description: Nexus files for all alignments used in this study (by gene and concatenated, raw and sequence-masked). Newick-formatted trees with nodal resampling support values for implied-weights and unweighted parsimony analyses, maximum likelihood analyses, and representative BayesPhylogenies chains for both Matrix A and Matrix B.
DOI: 10.5061/dryad.pv28c/1
title: Microsatellite genotypes of Laminaria digitata individuals in GeneAlex format
DOI: 10.5061/dryad.pv28c/2
title: Microsatellite genotypes of Laminaria hyperborea individuals in GeneAlex format
DOI: 10.5061/dryad.r2170/18
title: High-resolution Text-fig. 3

description: Text-fig. 3  The SEM image of topotype specimen (RV) of Cytheropteron vespertilio (Reuss 1850) from the former clay pit of Baden-Sooss in Lower Austria (stratotype of the Badenian), Vienna Basin, Miocene, Lower Badenian, Upper Lagenidae Zone (Rögl et al. 2008). Courtesy of Dr. Irene Zorn. Scale bar represents 0.5 mm.
DOI: 10.5061/dryad.r2170/19
title: Appendix 1

description: Appendix 1. Detailed information of the specimens used for the present study. USNM: accession number. T: type (P: paratype. H: holotype). V: valve (L: left. R: right). A: adult. A-1: last juvenile instar (adult minus one). F: female. M: male.
DOI: 10.5061/dryad.r2170/20
title: Table 1

description: Table 1. Sample list. Lat: latitude. Long: longitude. WD: water depth (m).
DOI: 10.5061/dryad.r2170/21
title: Table 2

description: Table 2. Size of selected ostracod specimens. USNM: accession number. T: type (P: paratype. H: holotype). V: valve (L: left. R: right). A: adult. F: female. M: male. L: Length (mm). H: Height (mm).
DOI: 10.5061/dryad.s7v4b/1
title: observations_matrix

description: matrixes of visits and repeated visits within the same occasion. Correspond  to two 229*11 matrixes (nsite x nyear), first eleven rows correspond to visits and next eleven rows correspond to repeated visits within the same occasion.
DOI: 10.5061/dryad.s7v4b/2
title: propagule_pressure

description: Covariates year and site-specific (nsite x (n-1)year). Corresponds to the propagule pressure index.
DOI: 10.5061/dryad.s7v4b/3
title: site_specific_covariates

description: Covariates site-specific (nsite x n site-specific covariates). S = site size; V = vegetation cover; C = site connectivity; Stab = site stability
DOI: 10.5061/dryad.s7v4b/4
title: site_state_matrix

description: Matrix (nsite x nyear) of site state. 0 = non visited site or missing data; 1 = site in state W (Wet); 2 = site in state D (Dry).
DOI: 10.5061/dryad.sd1sr/1
title: Cäsar et al 2013_BL

description: Description of data collected in the field
DOI: 10.5061/dryad.tm33d/10
title: Lade_sample_data

description: Tree by tree environmental data for Larix decidua samples.
DOI: 10.5061/dryad.tm33d/11
title: Pice_sample_data

description: Tree by tree environmental data for Pinus cembra samples.
DOI: 10.5061/dryad.tm33d/3
title: Pice_mapping_OPA_analysed.annot

description: Genotyped SNPs in Pinus cembra with their flanking sequences
DOI: 10.5061/dryad.tm33d/4
title: Pimg_mapping_OPA_analysed.annot

description: Genotyped SNPs in Pinus mugo with their flanking sequences
DOI: 10.5061/dryad.tm33d/5
title: Abal_matrix_249

description: SNP by sample matrix of the genotyped SNPs in Abies alba.
DOI: 10.5061/dryad.tm33d/6
title: Lade_matrix_267

description: SNP by sample matrix of the genotyped SNPs in Larix decidua
DOI: 10.5061/dryad.tm33d/7
title: Pice_matrix_459

description: SNP by sample matrix of the genotyped SNPs in Pinus cembra
DOI: 10.5061/dryad.tm33d/8
title: Pimg_matrix_694

description: SNP by sample matrix of the genotyped SNPs in Pinus mugo
DOI: 10.5061/dryad.tm33d/9
title: Abal_sample_data

description: Tree by tree environmental data for Abies alba samples.
DOI: 10.5061/dryad.v4p20/1
title: Banff_Occupancy_2012
DOI: 10.5061/dryad.vj969/2
title: Supplemental Data 3

description: Three-dimensional PDF of digitally extracted left pterygoid sinus of the extinct porpoise Semirostrum ceruttii, SDSNH 65276.
DOI: 10.5061/dryad.vj969/3
title: Supplemental Data 4

description: Three-dimensional pdf of digitally extracted whole cranial endocast of the extinct porpoise Semirostrum ceruttii, SDSNH 65276.
DOI: 10.5061/dryad.vj969/4
title: Supplemental Data 1

description: Measurements of the pterygoid sinuses of the extinct porpoise Semirostrum ceruttii, SDSNH 65276, in mm unless otherwise indicated.
DOI: 10.5061/dryad.0q7pc/10
title: Figure 10.

description: Lateral (A), dorsal (B), and ventral (C) views of the holotype of Liolaemus wari sp. n. (D) Type locality.
DOI: 10.5061/dryad.0q7pc/11
title: Figure 11.

description: Geographic distribution of L. chavin, L. pachacutec, L. tacnae, L. walkeri, and L. wari.
DOI: 10.5061/dryad.0q7pc/3
title: Figure 3.

description: Ventral view showing the color patterns of the belly and tail: (A) Ancash, (B) Ayacucho, (C) Cusco, (D) L. tacnae, and (E) L. walkeri.
DOI: 10.5061/dryad.0q7pc/4
title: Figure 4.

description: Lateral view showing the color patterns of (A) Ayacucho, (B) Cusco, and (C) L. walkeri.
DOI: 10.5061/dryad.0q7pc/5
title: Figure 5.

description: First and second principal components (PC) and correspondence axes (CA) of morphometric (A) and meristic (B) data of Ancash, Ayacucho, Cusco, L. tacnae and L. walkeri respectively.