cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.4g1n8/1
title: Supplemental_Data_JFWM-108R

description: Table A1.  The results of a fall Chinook salmon (Oncorhynchus tshawytscha) passage and handling study conducted in November, 2014, at the Priest Rapids Salmon Hatchery, Mattawa, Washington.  Each adult salmon was given a Passive Integrated Transponder (PIT) tag with a unique identification code (column: PIT tag number).  Their gender was determined (column: Sex with M = male and F = female).  Fork length was measured in cm (column: Length), body circumference was measured in cm (column: Circumference), and body weight taken in kg (column: Weight).  Fish were divided into one of four treatment groups (column: Treatment) – Whoosh Fish Transport System (WFTS) 77 m tube (WFTS-77), WFTS 12 m tube (WFTS-12), trap and haul (T&H), or control.  Treatment dates (column: Treatment date) ranged from November 4-6, 2014 and mortality dates (column: Mortality date) ranged from November 4-11, 2014.  The following information was collected on a subset of fish – column: Spleen IL1-β normalized with 18s (n = 65); column: Spleen IgM normalized with 18s (n = 65); column: Cortisol concentration (ng/mL) (n = 41); column: Day 3 vitellogenin concentration (mg/mL) (n = 63); and column: Percent epithelial injury (%) (n = 42).  In all columns, NR represents no data were recorded.
Table A2.  The gamete survival results from a study on the effects of passage and handling conducted in 2014 with adult fall chinook salmon (Oncorhynchus tshawytscha) that were captured at Priest Rapids Salmon Hatchery, Mattawa, Washington.  Each fish was given a Passive Integrated Transponder (PIT) tag with a unique identification code (column: PIT tag number).  Fish were divided into one of four treatment groups (column: Treatment) – Whoosh Fish Transport System (WFTS) 77 m tube (WFTS-77), WFTS 12 m tube (WFTS-12), trap and haul (T&H), or control.  Their gender was determined (column: Sex with M = male and F = female).  One female’s eggs were fertilized with sperm from one male (column: Pair number) for a total of 37 pairings (i.e., sib family).  The fertilized eggs were divided into three sub-samples per family (approximately 100 eggs per sub-sample) and randomly assigned to a stack, tray and cell in vertical flow incubators. Fertilized eggs were held in incubation trays at ~10°C until they reached the eyed egg stage (December 17, 2014, or approximately 40 days post-fertilization), at which time the number of live and dead eggs were counted to determine gamete survival by cell (columns labeled 1st cell survival, 2nd cell survival, and 3rd cell survival, all percentages).  Data analysis was done on the average embryo survival to the eyed stage (subsamples were averaged per sib family) (column: Average survival %).
DOI: 10.5061/dryad.4v937/1
title: Molecular phylogeography reveals west-east diversification in Stejneger’s pitviper Viridovipera stejnegeri (Schmidt, 1925) (Reptilia: Serpentes: Viperidae)
DOI: 10.5061/dryad.529p4/1
title: dataaccessibility_FINAL
DOI: 10.5061/dryad.5jk4d/1
title: AM1_KO

description: Metabolic model of Methylobacterium extorquens mutant
DOI: 10.5061/dryad.6gj64/1
title: Piscivore_addition_zooplanktonData_160323

description: Zooplankton data collecting for the study as described in Rudman et al. 2016.
DOI: 10.5061/dryad.6gj64/2
title: Piscivore_addition_phytoplanktonData_160323

description: Phytoplankton data used collected from experiment described by Rudman et al. 2016.
DOI: 10.5061/dryad.6gj64/3
title: Piscivore_addition_EmergingInsects_160323

description: Emerging insect data from Rudman et al. 2016.
DOI: 10.5061/dryad.6gj64/4
title: Piscivore_addition_CascadeCorrelates_160323

description: Data file with calculated strength of trophic cascade, measure of consumptive, and non-consumptive effects from Rudman et al. 2016.
DOI: 10.5061/dryad.6m780/1
title: nexus file

description: Concatenated alignment of 40 taxa and 2447 characters from six gene regions. Includes MrBayes block.
DOI: 10.5061/dryad.77rn2/1
title: dataset_MonteroCastaño&Vila_FunctionalEcology_2016
DOI: 10.5061/dryad.7qv72/10
title: 05_collapse_to_best_evalue

description: Python script to identify the blast result with the highest e-value from a set of multiple blast results on a single contig (different input data formats)
DOI: 10.5061/dryad.7qv72/11
title: 06_filter_vcf_for_targets

description: Python script to strip out pre-identified targets from a variant call format file
DOI: 10.5061/dryad.7qv72/12
title: all_master_work_wSNPs

description: An Excel spreadsheet showing all blast-annotated non-redundant transcripts with eXpress abundance data for each transcriptome and a final column showing which of these transcripts contain passing SNPs based on analyses described in the paper
DOI: 10.5061/dryad.7qv72/13
title: edgeR_mar2016

description: R script used to identify differentially expressed genes between samples coded as Bryoria tortuosa and those coded as B. fremontii
DOI: 10.5061/dryad.7qv72/8
title: 004_add_taxa_to_abundance_table

description: Python script to link taxon lineage information with an eXpress gene abundance output
DOI: 10.5061/dryad.7qv72/9
title: 04_add_taxon_to_SNPs

description: Python script to annotate a transcript SNP table with taxon information from a blast result
DOI: 10.5061/dryad.92q55/1
title: Attack counts

description: ReadMe details for “Bolnick_data.csv” for Bolnick et al. Biology Letters 2016The file Bolnick_data.csv is a comma-delimited ..csv text file. This file contains columns necessary to recreate analyses presented in the Biology Letters paper. The data in this table is a synthesis of a raw data file containing the exact time of each interaction, obtained from the original videos that are available upon request from the author (large files).Each column is distinct information regarding individual fish (rows). These columns are:A) Lake: Blackwater Lake or Gosling LakeB) Fish: an ID number corresponding to the camera used to uniquely video tape each interactionC) Model_color: Red, Blue, or Control_object (a cylinder the same size as our models)D) depth: Resident males’ nest depth (cm)E) N_bites: Number of bites directed at the model over a 1 hour videoF) N_inspects: Number of inspections of the model (focal fish approaching the model to within one body length while facing the model)G) Aggressive_interactions: Sum of bites and inspectionsH) Date: date of experimentI) Mean.interval.between.bites: the mean duration of time between successive bites. Not calculated for Blackwater Lake because too few fish conducted more than 2 bites. Measured in seconds.J) Median.interval.between.bites: the median duration of time between successive bites. Not calculated for Blackwater Lake because too few fish conducted more than 2 bites. Measured in seconds.K) SD.interval: the standard deviation of the duration of time between successive bites. Not calculated for Blackwater Lake because too few fish conducted more than 2 bites. Measured in seconds.
DOI: 10.5061/dryad.c36k6/1
title: Duration of Tail Vibration Behavior in Different Snake Species

description: This spreadsheet describes the average duration, in seconds, of tail vibration behavior in the snake species filmed for this project. The spreadsheet also lists each species' distance to the monophyletic rattlesnake node. Our research found that the more closely related a species was to rattlesnakes, the more similar the duration of its tail vibration was to rattlesnakes.
DOI: 10.5061/dryad.c36k6/2
title: Probability of Tail Vibration Behavior in Different Snake Species

description: This spreadsheet describes the average probability of a snake species engaging in tail vibration behavior among the snakes filmed for this project. The spreadsheet also lists each species' distance to the monophyletic rattlesnake node. Our research did not find a significant relationship between degree of taxonomic relatedness to rattlesnakes and propensity to engage in tail vibration behavior.
DOI: 10.5061/dryad.c36k6/3
title: Rate of Tail Vibration Behavior in Different Snake Species

description: This spreadsheet describes the average rate, in vibrations per second, of tail vibration behavior in the snake species filmed for this project. The spreadsheet also lists each species' distance to the monophyletic rattlesnake node. Our research found that the more closely related a species was to rattlesnakes, the more similar the rate of its tail vibration was to rattlesnakes.
DOI: 10.5061/dryad.dd490/1
title: Field, Experimental plot, and AOB data for JEcol-2015-0504.R1

description: Microsoft Excel file, multiple tabs.  Includes all all field collected, experimental plot, and AOB data for JEcol-2015-0504.R1.
DOI: 10.5061/dryad.j5v32/10
title: Neutrophilia by settlement

description: Data necessary to run analysis on the influence of settlement on Neutrophilia. Given small population sizes all data have been randomised to protect individuals identity.
DOI: 10.5061/dryad.j5v32/11
title: Parasite load

description: Data necessary to run analysis on the influence of settlement on parasite burden
DOI: 10.5061/dryad.j5v32/12
title: Reproductive success and foraging

description: Data necessary to run analysis on the influence of foraging on RS. Given small population sizes all data have been randomised to protect individuals identity.
DOI: 10.5061/dryad.j5v32/13
title: Reproductive success and settlement

description: Data necessary to run analysis on the influence of settlement on RS. Given small population sizes all data have been randomised to protect individuals identity.
DOI: 10.5061/dryad.m00v5/2
title: Longitudinal Study infection data for enviromental exposure

description: Trichostrongyle nematode counts (from genetic identification of cultured larvae) and capture dates from a longitudinal study of African buffalo.
DOI: 10.5061/dryad.md7ph/1
title: Ramstack Hobbs_Ecological Applications_2016

description: This file contains diatom species data from eleven shallow lake sediment cores from the Prairie Pothole Region of Minnesota, USA. The file also contains diatom species and environmental data for a 145-lake calibration set from the state of Minnesota. The first sheet of this spreadsheet gives a full description of the data.
DOI: 10.5061/dryad.n2g80/10
title: birdtree_workspace_03-07-2016

description: Saved R Environment from executing RMarkdown script.
DOI: 10.5061/dryad.n2g80/11
title: birdtreecomparison_03-07-16

description: PDF created by executing RMarkdown script.
DOI: 10.5061/dryad.n2g80/12
title: birdtreecomparison_03-07-16

description: RMarkDown script containing all post-inference analyses.
DOI: 10.5061/dryad.n2g80/7
title: B2SA_majrule_burn03

description: Half-compatibility summary for SA BEAST2 analysis
DOI: 10.5061/dryad.n2g80/8
title: B2SA_mcc_burn03

description: Maximum clade credibility summary for SA BEAST2 analysis
DOI: 10.5061/dryad.n2g80/9
title: B2SA_treelog

description: Posterior sampled tree file from BEAST2 SA analysis
DOI: 10.5061/dryad.n34s9/1
title: Fryxell_et_al_2016_Oecologia_Dryad_data

description: All data which appears in the article
DOI: 10.5061/dryad.n4m05/1
title: Flight durations of white-fronted geese in the Netherlands in Feb-Mar 2015

description: Flight durations of nine focal geese on two full days each as recorded by accelerometry
DOI: 10.5061/dryad.n5328/1
title: Acacia dry weights

description: Dry weights of replicant plants belonging to nine acacia species in response to inoculation with 31 different rhizobial strains
DOI: 10.5061/dryad.q530s/1
title: pgra_genome_v1.0
DOI: 10.5061/dryad.q530s/2
title: pgra_OGSv1.0_CDS

description: CDS from annotation version 1.0.
DOI: 10.5061/dryad.q530s/3
title: pgra_OGSv1.0_pep

description: Protein sequences from version 1.0 of the annotation.
DOI: 10.5061/dryad.q530s/4
title: pgra_OGSv1.0_genes

description: GFF from version 1.0 of the annotation.
DOI: 10.5061/dryad.s84v4/1
title: Data base of EOPYY insurees' COPD prescriptions

description: Data base of prescriptions collected by the largest social insurance fund, EOPYY during the first and last trimester of 2012. Extracted information included active substance, strength, pharmaceutical form and number of packages prescribed, diagnosis, time of dispensing, as well as insurees’ age, gender, percentage of co-payment and social security unique number.
DOI: 10.5061/dryad.sg02c/1
title: Sperm measurements

description: Sperm measurements: total sperm length (Sperm length), head length (Head) and tail length (Tail) of sperms.
DOI: 10.5061/dryad.sg3nj/1
title: 1260SNP_genepop

description: Genepop data file containing all SNP marker genotyped with RADseq
DOI: 10.5061/dryad.sg3nj/2
title: 981SNPNeutrales6pop

description: Genepop data file containing the 981 Neutral SNP markers
DOI: 10.5061/dryad.sg3nj/3
title: 58SNPOutlier_genepop

description: Genepop data file containing the Fst outlier SNP panel for scenario 1
DOI: 10.5061/dryad.sg3nj/4
title: 34SNPOutlier5pop_genepop

description: Genepop data file containing the Fst outlier SNP panel for scenario 2
DOI: 10.5061/dryad.sg3nj/5
title: 24SNPOutlier4pop_genepop

description: Genepop data file containing the Fst outlier SNP panel for scenario 3
DOI: 10.5061/dryad.tj4tn/4
title: Dsaltans_foretarsi_ablation_AB

description: Results of ablating foretarsi
DOI: 10.5061/dryad.tj4tn/5
title: Dsaltans_light_dark_AB

description: Results from keeping flies in continuous darkness
DOI: 10.5061/dryad.tj4tn/6
title: Dsaltans_midtarsi_ablation_AB

description: Results of midtarsi ablation
DOI: 10.5061/dryad.tj4tn/7
title: Dsaltans_wing_ablation_AB

description: Results of wing ablation
DOI: 10.5061/dryad.1781h/1
title: Data for manuscript ECE-2015-11-00758.R1

description: Sea surface temperature (Celsius), and time of recruitment of the shipworm Teredo navalis (individuals/area) onto wooden test panels at the Swedish west coast 1971 - 1973 and 2004 - 2006.
DOI: 10.5061/dryad.1j6b6/1
title: Supplementary_table_1

description: Summary of all dogs analysed in this study. “AMY2B copy numbers”:  Rounded AMY2B copy number of individual; “Name”: name of dog lineage (breed name or name of native dog population if applicable); “Native/Breed”: states whether the individual was analysed as a breed or a native dog; “Country of origin” and “Region of origin”: see Methods section for information on how geographical origin was set,: “Culture”:  set to agrarian or non-agrarian depending on whether region of origin overlaps with  the approximate spread of pre-historic agriculture.
DOI: 10.5061/dryad.1j6b6/2
title: Supplementary_table_2

description: Summary of other canids analysed in this study. “AMY2B copy numbers”:  Rounded AMY2B copy number of individual.
DOI: 10.5061/dryad.1j6b6/3
title: Supplementary_table_3

description: Summary statistics of AMY2B copy number distribution in dogs. AMY2B copy number distribution in breeds for which at least two individuals were genotyped and in all native dogs grouped into 8 geographical regions (Africa, South West Asia (S. W. Asia), South Asia (S. Asia), East Asia (E. Asia), South East Asia (S. E. Asia), Australia, Arctic America and Arctic Asia). “min” and “max” shows the minimum and maximum copy number observed through out “n” dogs analysed. “sd” shows standard deviation.
DOI: 10.5061/dryad.2680t/1
title: Kluess-plasma DPPIV-data

description: all data
DOI: 10.5061/dryad.2v1p6/1
title: datafiles_SFS_aSFS_geno

description: Unlinked SNP data used in population-level (SFS) and multi-population (aSFS) demographic analyses, in .geno format.
DOI: 10.5061/dryad.2v1p6/2
title: datafiles_SFS_aSFS_phylip

description: Unlinked SNP data used in population-level (SFS) and multi-population (aSFS) demographic analyses, in .phy format.
DOI: 10.5061/dryad.2v1p6/3
title: datafiles_SVDQ_sNMF_geno

description: Unlinked SNP data used in phylogenetic (SVD Quartets) and genetic clustering (sNMF) analyses, in .geno format.
DOI: 10.5061/dryad.2v1p6/4
title: datafiles_SVDQ_sNMF_phylip

description: Unlinked SNP data used in phylogenetic (SVD Quartets) and genetic clustering (sNMF) analyses, in .phy format.
DOI: 10.5061/dryad.2v1p6/5
title: Dataset S1

description: Phylogenetic tree of A. punctatus, including outgroups and support values.
DOI: 10.5061/dryad.2v1p6/6
title: Dataset S2

description: Phylogenetic tree of A. ortonii, including outgroups and support values.
DOI: 10.5061/dryad.2v1p6/7
title: Dataset S3

description: Phylogenetic tree of P. marmoratus, including outgroups and support values
DOI: 10.5061/dryad.2v1p6/8
title: Dataset S4

description: Sampling schemes used in population-level and aSFS analyses (columns A–E) and posterior estimates of the populationlevelanalyses (columns F–AL).
DOI: 10.5061/dryad.2v1p6/9
title: Dataset S5

description: Posterior estimates of ζ, DI, time of population size change among populations responding synchronously, andcorresponding cross-validation results based on hABC analyses and the aSFS.
DOI: 10.5061/dryad.305s0/1
title: McKain_etal_2016_Poales_WGD_GC.tar.gz

description: All data for project.  See ReadMe.
DOI: 10.5061/dryad.3jr62/1
title: Grid cell characteristics

description: Description of the characteristics of the coastal grid cells used in simulations
DOI: 10.5061/dryad.3jr62/2
title: Generic particle abundances

description: Gridded spatial data of particle abundances according to the generic larval drift model
DOI: 10.5061/dryad.3jr62/3
title: Cod larvae abundances

description: Gridded spatial data of abundances of Northeast Arctic cod eggs and larvae according to the larval drift model
DOI: 10.5061/dryad.3jr62/4
title: Herring larvae abundances

description: Gridded spatial data of abundances of Norwegian spring-spawning herring larvae according to the larval drift model
DOI: 10.5061/dryad.4bg42/1
title: Microsatellite genetic and location data for Murray cod across the Murray-Darling Basin
DOI: 10.5061/dryad.5c409/1
title: Data from Body Mass and feeding habits of Pleistocene megafaunal of South America

description: Feeding group (Carnivore/herbivore) of the Pleistocene assemblage of South American. Part of the data is available from table 3 in the article "Splendid oddness: revisiting the curious trophic relationships of South American Pleistocene mammals and their abundance" authored by RICHARD A. FARIÑA, ADA CZERWONOGORA and MARIANA DI GIACOMOin Anais da Academia Brasileira de Ciências (2014) 86(1): 311-331, Printed version ISSN 0001-3765 / Online version ISSN 1678-2690http://dx.doi.org/10.1590/0001-3765201420120010
DOI: 10.5061/dryad.5jk4d/2
title: EC_iJO_KO

description: Metabolic model of E. coli mutant
DOI: 10.5061/dryad.5jk4d/3
title: Sal_cheat

description: Metabolic model of non-cooperative S. enterica
DOI: 10.5061/dryad.5jk4d/4
title: Sal_mutualist

description: Metabolic model of cooperative S. enterica mutant
DOI: 10.5061/dryad.5jk4d/5
title: Sal_mutualist_adjKM

description: Metabolic model of cooperative S. enterica with adjusted Km for uptake of NH4
DOI: 10.5061/dryad.5jk4d/6
title: Layouts

description: Layout files.  Layouts with the same number have the same arrangement of E. coli and Salmonella.  For each arrangement there is a layout for each of the treatments.
DOI: 10.5061/dryad.69bj8/1
title: Butterfly lifespan and sporeload

description: Parasite treatment: 1- yes; 2-no; Plant species: 1, asperula; 2, curassavica; 3, incarnata; 4, linaria; 5, perennis; 6, physocarpa; 7, incarnata pulchra; 8, tuberosa
DOI: 10.5061/dryad.6gj64/5
title: Piscivore_addition_sticklebackDiet_160323

description: Stickleback diet data from Rudman et al. 2016.
DOI: 10.5061/dryad.6r725/1
title: Gershberg et al., - all data for Dryad

description: Microsatellites resultsColum A – individual ID (seedling ‘group’ on left, then individual number within the group)Colum B – The number of the burned tree (the seedling ‘group’)Colum C+D the length (in bp) of the alleles of microsatellite A5A12Colum E+F the length (in bp) of the alleles of microsatellite B4F08Colum G+H the length (in bp) of the alleles of microsatellite PtTx3107Colum I+J the length (in bp) of the alleles of microsatellite Pest2669Colum K+L the length (in bp) of the alleles of microsatellite PtTx3116Colum M+N the length (in bp) of the alleles of microsatellite pEST1489Colum O+P the length (in bp) of the alleles of microsatellite PHAF2Colum Q+R the length (in bp) of the alleles of microsatellite ITPH4516Colum S+T the length (in bp) of the alleles of microsatellite PHAF01.              -1=missing data
DOI: 10.5061/dryad.6r725/2
title: Gershberg et al., - all data for Dryad
DOI: 10.5061/dryad.7qv72/14
title: 39Dikary.349loci.CONCAT

description: Protein fasta file for 349 loci used in phylogenomic analysis; see readme_align file
DOI: 10.5061/dryad.7qv72/15
title: 39Dikary.58loci.CONCAT

description: Phylip file used for dating the phylogenomic tree of fungi
DOI: 10.5061/dryad.7qv72/16
title: A_ITS_all_red_mafft_replaced_cut

description: see readme_align.txt
DOI: 10.5061/dryad.7qv72/17
title: A_ITS_all_red_mafft_replaced

description: see readme_align.txt
DOI: 10.5061/dryad.7qv72/18
title: B_SSU_all_red_mafft_replaced_cut

description: see readme_align.txt
DOI: 10.5061/dryad.7qv72/19
title: B_SSU_all_red_mafft_replaced

description: see readme_align.txt
DOI: 10.5061/dryad.7qv72/20
title: C_LSU_all_red_mafft_replaced_cut

description: see readme_align.txt
DOI: 10.5061/dryad.7qv72/21
title: C_LSU_all_red_mafft_replaced

description: see readme_align.txt
DOI: 10.5061/dryad.8137s/1
title: 3A Phylogenetic tree based on VP2 gene sequences of seven CPV isolates and 25 reference CPV strains
DOI: 10.5061/dryad.8f97r/1
title: Supplementary Figures
DOI: 10.5061/dryad.93k26/1
title: Summary stat of DT DP resi

description: information on the Diving and Surface time of three species of cormorants studied at Delhi region, India.
DOI: 10.5061/dryad.cm675/1
title: SangerKirkpatrick_Biotropica

description: Epiphyte observations and host tree infomation
DOI: 10.5061/dryad.g33s9/1
title: J.haematoloma morphology in 1988 & 2013-2015

description: Morphological data from 1988 (collected by SP Carroll, first published in Carroll & Boyd 1992) and 2013-2015 (collected by ML Cenzer). Column heading definitions: pophost=host plant species from which individuals were collected in the field; population=location name (city or island name); sex=M for male, F for female; beak=length of beak in mm; thorax=width of pronotum at widest point in mm; wing=length of forewing at longest point in mm; body=length from anterior tip of tylus to distal tip of closed forewing in mm (S indicates short-winged individuals - body length measures were not taken for these); month=collection month; year=collection year. Not all measures were taken for all individuals; NAs and blanks both indicate the measure was not taken. Data from two host plants (Cardiospermum microcarpum & Koelreuteria paniculata) not reported on in the manuscript are also included in this data file.
DOI: 10.5061/dryad.g33s9/2
title: J.haematoloma survival in 2014 (F1, cross-rearing experiment)

description: Survival data for J.haematoloma in cross-rearing experiment conducted on F1 laboratory generation in 2014. Column heading interpretation: Number=individual identifier (because the datasheet was generated before hatching, some numbers were not used for individuals that never hatched); Family=maternal identifier (field-collected, paternity uncertain); bug.pop=location, either city or island name, from which the parents of that individual were collected; host.pop=location, either city or island name, from which the natal host seeds for that individual were collected; pophost=host species from which parents were collected; nathost=host species on which that individual was reared; hatch date=date the individual hatched; eclosion date=date the individual reached adulthood; death date=date an individual died if they did not reach adulthood (mortality post-adulthood was generally not recorded); sex=M for male, F for female if individuals reached adulthood. Blanks and NAs indicate data types that were not collected.