cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.67nb3/1
title: Removal_Data

description: These data were collected as part of management actions to remove feral swine in Texas and Oklahoma from 2005-2013 by USDA-APHIS-Wildlife Services.  The "SiteNumber" is a generic identifier indicating the property in which removal events were conducted. The county and state information are provided for each property.  The effort by pass represents the number of hours in a helicopter at that property at that pass.  The number feral swine removed per pass is given as well.
DOI: 10.5061/dryad.877n3/1
title: MClade_MC1R_ASIP.hmp

description: A hapmap (text) file containing all of the SNPs and their genotypes in each individual that were used in the genome-wide association analysis.  (See TASSEL documentation for more info. on the hapmap format).
DOI: 10.5061/dryad.877n3/2
title: Mon_filter10X.hmp

description: A hapmap file containing SNPs for the same data set, but in this case reads were filtered with a depth minimum of 10X (versus 5X) before SNP calling.
DOI: 10.5061/dryad.892f1/1
title: Evoked Potentials and EODs

description: The folder includes: 1. an excel file with data obtained from the mean evoked potentials, 2. Matlab files with the raw traces of the evoked potentials obtained for each fish, and 3. Matlab files with the electric organ discharges (EODs) of each species used to generate the power spectra.
DOI: 10.5061/dryad.892f1/2
title: Matlab Codes

description: This folder contains Matlab codes for generating and saving stimuli and for analyzing the evoked potentials
DOI: 10.5061/dryad.9hr7t/1
title: Raw Data

description: Raw data set for coelomocyte counts and concentrations, phagocytic activity, and bacterial survival indices after sea urchins (Heliocidaris erythrogramma) were exposed to temperature and pH conditions for 1, 15, and 30 days.
DOI: 10.5061/dryad.9rh6v/2
title: IgG Healthy Individual_Group 2
DOI: 10.5061/dryad.9rh6v/3
title: PCR Meningo-encephalitis patients_Group 3
DOI: 10.5061/dryad.9rh6v/4
title: PCR_Group 4-8
DOI: 10.5061/dryad.b4vg0/1
title: Adjacency matrix for the trophic layer

description: The file is TAB-delimited and contains 107 lines and 108 columns. The first line is composed by two TAB-keys followed by the numerical IDs of the 106 species. The 106 following lines are composed as follows. The first and second columns display the numerical ID and the name of the species respectively. The species name can include whitespace characters. The remaining columns are the adjancency matrix values, i.e. 1/0 for presence/absence of a link. A link between species i and j means species i is eaten by species j.
DOI: 10.5061/dryad.c9s61/1
title: Initial and current species lists by island

description: Rows represent species or, in a few cases, other taxonomic entities. Within a given row, any cell containing a 1 indicates that the given species is or was present on the island indicated by the corresponding column heading at the time indicated by the column heading.
DOI: 10.5061/dryad.dm437.1
title: Data from: Specific alleles at immune genes, rather than genome-wide heterozygosity, are related to immunity and survival in the critically endangered Attwater’s prairie-chicken
DOI: 10.5061/dryad.dm437.2/9.2
title: MHC_I_counts_per_indiv

description: Summary of the alleles and reads for each individual at MHC class I (Excel file)
DOI: 10.5061/dryad.gv1dq/1
title: eMammal detections dataset

description: This file contains the raw species detections from camera-trap data across 33 protected areas in the Southeastern United States from 2012-2013.  Each row represents one detection and the associated location, time and species.
DOI: 10.5061/dryad.gv1dq/2
title: Camera-level covariates

description: This file contains spatial and temporal covariates for the camera-trap dataset collected across 33 protected areas in the Southeastern United States from 2012-2013.  Each row represents one camera site.
DOI: 10.5061/dryad.j0q5m/1
title: Microbiota sequences data

description: This file contains the microbiota sequences data from "Intestinal microbiota is influenced by gender and body mass index" study.
DOI: 10.5061/dryad.jt03g/1
title: data_dryad

description: CSV files of the data used for the four main analyses presented in the manuscript.
DOI: 10.5061/dryad.k2f04/11
title: Amino acid sequence alignment of the DPYS family

description: Amino acid sequence alignment of the DPYS family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/12
title: Amino acid sequence alignment of the JAKMIP family

description: Amino acid sequence alignment of the JAKMIP family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/13
title: Amino acid sequence alignment of the PPP2R2 family

description: Amino acid sequence alignment of the PPP2R2 family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/14
title: Amino acid sequence alignment of the SH3TC family

description: Amino acid sequence alignment of the SH3TC family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/15
title: Amino acid sequence alignment of the STK32 family

description: Amino acid sequence alignment of the STK32 family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/16
title: Amino acid sequence alignment of the TBC1D family

description: Amino acid sequence alignment of the TBC1D family which is one of the gene families that was identified as a neighbouring gene family to the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/17
title: Supplementary file 2 - Sequence identifiers and locations

description: Excel file containing all sequence identifiers, genomic locations and sequence names used in the tree and alignment files for the sequences included in the phylogenetic analyses. Each family has its own sheet within the file.
DOI: 10.5061/dryad.k2f04/18
title: Supplementary_file_1 - PDE6 catalytic subunit amino acid sequence alignment

description: Amino acid alignment of the PDE6 catalytic subunit gene family. The sequences were aligned using ClustalO with standard settings within the Seaview 4.5.3 program.
DOI: 10.5061/dryad.k2f04/19
title: PhyML tree of the PDE6 catalytic subunit family

description: Phylogenetic maximum likelihood tree using the WAG amino acid substitution model and 100 bootstrap replicates of the PDE6 catalytic subunit gene family. The tree was made using the PhyML implementation in the Seaview 4.5.3 program.
DOI: 10.5061/dryad.m1c04/1
title: Flow cytometry data

description: This data set contains two flow cytometry data (.fcs format) surveys for a cooling water microbial community. In the metadata, additional information (e.g., temperature, taxonomic diversity) has been included as well. For details about the ecosystem we refer to SI figure 2 of the paper. More information about the metadata can be found in the ReadMe file. For a selected subset of datapoints, 16S rRNA gene amplicon sequencing was performed and this data can be found here: http://www.ncbi.nlm.nih.gov/sra/?term=SRP066190.
DOI: 10.5061/dryad.mm2t9/1
title: Chaves-Ulloa et al._Ecol. Appl._5.12.2016

description: Data associated with:Ecological Applications Published by: Wiley Article ID: EAP 1332Authors: Chaves-Ulloa, R., Brad W. Taylor, Hannah J. Broadley, Kathryn L. Cottingham, Nicholas A. Baer, Kathleen C. Weathers, Holly A. Ewing, and Celia Y. ChenTitle: DISSOLVED ORGANIC CARBON MODULATES MERCURY CONCENTRATIONS IN INSECT SUBSIDIES FROM STREAMS TO TERRESTRIAL CONSUMERS,*Please see Metadata tab in the excel document for further details
DOI: 10.5061/dryad.p6p12/1
title: Results of experimental cannibalism trials

description: Data include information about carnivore id and sibship of origin, as well as information about omnivore (potential victim) sibship and morphology. Cannibalism is scored as a binary variable.
DOI: 10.5061/dryad.qg630/1
title: Madliger Love_Oikos 2016_Insect biomass by habitat

description: Daily flying insect biomass (g) by month by habitat type (Riparian Cropland and Inland Pasture)
DOI: 10.5061/dryad.qg630/2
title: Madliger Love_Oikos 2016_Within-year manipulation effects

description: Corticosterone levels, provisioning rates, and fitness metrics of control and feather-clipped female tree swallows across two habitat types (Riparian Cropland and Inland Pasture)
DOI: 10.5061/dryad.qg630/3
title: Madliger Love_Oikos 2016_Inter-annual

description: Future investment, fitness, and corticosterone levels of control and feather clipped female tree swallows across two habitat types (Riparian Cropland and Inland Pasture)
DOI: 10.5061/dryad.qk643/1
title: Fossil occurrence dataset

description: Fossil occurrences of tribosphenidan mammals from the Cretaceous through Selandian. This dataset is modified from an occurrence list downloaded from the Paleobiology Database (www.paleobiodb.org) on November 19, 2015.
DOI: 10.5061/dryad.qk643/2
title: Molar landmark and outline coordinates

description: These are the original point coordinates (in tps format) used in a geometric morphometric analysis of lower molar shape. For each genus, the first seven coordinates are cusp landmarks, the next 20 coordinates outline the talonid, and the final 20 coordinates outline the trigonid. (Note that the outline coordinates are not equally-spaced semilandmarks.) See Grossnickle & Newham (2016) for information concerning how these coordinates were analyzed.
DOI: 10.5061/dryad.s2df3.1
title: Data from: Evolutionary prediction of medicinal properties in the genus Euphorbia L.
DOI: 10.5061/dryad.s2df3.2/2.2
title: Set of 1000 Bayesian trees

description: Randomly selected subset of 1000 trees within the 95% credible set.
DOI: 10.5061/dryad.s2df3.2/3.2
title: R script
DOI: 10.5061/dryad.t0p4v/1
title: Offspring outcomes

description: Block refers to experimental block. Weight refers to weight at offspring infection. Family refers to family identity. Date mated refers to the date the mother was mated. Maternal egg refers to how many eggs the mother laid. Gender refers to the gender of the offspring. Date infected refers to the date of infection of the offspring (coded as a factor). Food refers to the diet quality of the offspring where "g" = good, 10:1:1 wheat bran to brewers' yeast to glycerol and "b" = bad 20:1:1 ratio. "infected" refers to the infection status of the offspring where "bt" = infected with LD33 Bt, "fu" = infected with LD33 Bb, "co" = coinfection with both pathogens. Trt refers to maternal treatment where "nai" = naive only handling treatment, "cdip" = control dip treatment in distilled water, "cdrop" = fed a control droplet of sugar water and food dye, "fungi" = LD05 dose of Bb, "btp" = LD05 dose of Bt, "cop" = coinfection with both pathogens. adstatus refers to whether the offspring outcome is either "a" = alive or "d" = dead. bt refers to the infection status of the mother with regard to bt, where "bt" = infected with either Bt or coinfection, and "nbt" = infected with fungus or any of the control treatments. fu refers to the infection status of the mother with regard to Bb where "fu" = infected with either Bb or coinfection, and "nfu" = infected with Bt or any of the control treatments.
DOI: 10.5061/dryad.t0p4v/2
title: Maternal longevity after infection

description: "date.laid" refers to date that the eggs were laid to create the parental generation. "block" refers to experimental block. "trt" referst to the treatment given to the maternal larva where "n" = naive handling only, "cdrop" = fed a control drop of sugar water and food dye, "cdip" = control dipped in distilled water, "fungi" = infected with a LD05 dose of Bb, "bt" = infected with a LD05 dose of Bt, "co" = coinfected with both pathogens. "family" = unique family identifier. "date.eclosed" = date the mother eclosed after pupating. "mated" = was the mother mated? Sometimes there were not enough males eclosing to mate all of the available females. "egg48" = number of eggs laid after 48 hours. "larvaldeath" = did the animal die as a larvae where "0" = dead and "1" = alive. "no.eclose" = animal did not eclose. "truncated" = a combination of larvaldeath and no.eclose. "date.infected" = date the maternal larva was infected.
DOI: 10.5061/dryad.0mg54/1
title: Sample_Information

description: Sample information and genome-wide ancestry estimates
DOI: 10.5061/dryad.0mg54/2
title: AIMS_delta

description: Genotypes for AIMs, delta values, outlier block detection, and population-specificity
DOI: 10.5061/dryad.1cf8p/1
title: Metadata for data and analysis scripts

description: Describes all data files and R analysis scripts.
DOI: 10.5061/dryad.1cf8p/2
title: Snowmelt dates across the elevation range of Valeriana edulis

description: Snowmelt data used to test for an effect of elevation on snowmelt date. See README.txt for column descriptions.
DOI: 10.5061/dryad.1cf8p/3
title: Snowmelt dates 1978-2014

description: Long-term snowmelt data (1978-2014) collected at one mid-elevation location near the Rocky Mountain Biological Laboratory by billy barr. See README.txt for column descriptions.
DOI: 10.5061/dryad.1k17n/1
title: Scaling Relationship Evolution R Scripts

description: Annotated R scripts to model the evolution of scaling relationships using an evolutionary algorithm.
DOI: 10.5061/dryad.21533/1
title: Original Data for this experiment
DOI: 10.5061/dryad.2rb57/1
title: Electrophysiological data

description: Excel file containing raw electrophysiological responses from identified OSNs in response to identified odours.
DOI: 10.5061/dryad.326r8/65
title: Assembled scaffolds for Holocentrus rufus
DOI: 10.5061/dryad.326r8/66
title: Assembled unitigs for Holocentrus rufus
DOI: 10.5061/dryad.326r8/67
title: Assembled scaffolds for Trachyrincus scabrus
DOI: 10.5061/dryad.326r8/68
title: Assembled unitigs for Trachyrincus scabrus
DOI: 10.5061/dryad.326r8/69
title: Assembled scaffolds for Chatrabus melanurus
DOI: 10.5061/dryad.326r8/70
title: Assembled unitigs for Chatrabus melanurus
DOI: 10.5061/dryad.326r8/71
title: Assembled scaffolds for Parasudis fraserbrunneri
DOI: 10.5061/dryad.326r8/72
title: Assembled unitigs for Parasudis fraserbrunneri
DOI: 10.5061/dryad.326r8/73
title: Assembled scaffolds for Regalecus glesne
DOI: 10.5061/dryad.3c56m/1
title: Experiment 1 Data
DOI: 10.5061/dryad.4kj8n/1
title: Pea aphid parasitism assays & Praon pequodorum fitness assay

description: Tab 1: parasitism assay data from each aphid line showing aphid survival, mummification, and mortality out of 20 aphids per replicate. Also shows H. defensa and APSE infection status. Tab 2: Praon pequodorum fitness assays, showing fitness data (tibial length and dry weight) for both males and females that emerged from resistant and non-resistant aphids.
DOI: 10.5061/dryad.50hk0/1
title: Viblanc et al. 2016_JAE

description: Data file is a csv data file related to the paper by Viblanc et al. 2016 in JAE. Column A = year of measurement; column B = individual ID; column C= individual age; column D = litter size at weaning; column E = somatic allocation (change in mother's mass from emergence to weaning); column F = reproductive allocation (mass gain of the offspring from birth to weaning); column G = number of reproductive female kin (mother and littermate sisters); column H = number of non-reproductive female kin (mother and littermate sisters). Data was collected in the field by JO Murie, FS Dobson and VA Viblanc from 1992 to 2014 at the Sheep River Wildlife Provincial Park, Alberta, Canada (50 39° 7’ N, 114 37° 27’ W; 1550m elevation)
DOI: 10.5061/dryad.8kh92/1
title: Total Model Dataset

description: Parasite richness, behaviour counts, body mass, social group size, geographic range, and citation index data for the total model presented in the paper.
DOI: 10.5061/dryad.8kh92/2
title: Transmission-mode Model Dataset

description: Parasite richness, behaviour counts, terrestriality, body mass, social group size, geographic range, and citation index data for the transmission-mode models presented in the paper.
DOI: 10.5061/dryad.b4vg0/10
title: Figure S2 data
DOI: 10.5061/dryad.b4vg0/2
title: Adjacency matrix for the positive non-trophic layer

description: Same format as chilean-TI.txt. A link between species i and j means that species i is the target of a positive interaction and species j is the source.
DOI: 10.5061/dryad.b4vg0/4
title: Species properties and information

description: Species properties and information, in Excel format
DOI: 10.5061/dryad.b4vg0/5
title: ReadMe
DOI: 10.5061/dryad.b4vg0/6
title: Adjacency matrix for the negative non-trophic layer

description: Adjacency matrix for the negative non-trophic layer. Same format as chilean-TI.txt. A link between species i and j means that species i is the target of a negative interaction and species j is the source.
DOI: 10.5061/dryad.b4vg0/7
title: Figure 2 data

description: In/out degree for each species in the following order : trophic out, trophic In, positive out, positive in, negative out, negative in.
DOI: 10.5061/dryad.b4vg0/9
title: Figure 3 data
DOI: 10.5061/dryad.bp683/2
title: Bias file for wild location of E. cardamomum
DOI: 10.5061/dryad.bp683/3
title: Bias file created using all records of E. cardamomum
DOI: 10.5061/dryad.ch720/1
title: Arthropod_3pop_analysis

description: Arthropod community data from the UT garden 2011. Contains all replicated genotypes from the three local tree populations sampled.
DOI: 10.5061/dryad.ch720/2
title: Arthropod_9pop_analysis

description: Arthropod community data from the UT garden in 2011. Contains 1 randomly chosen replicate of each tree genotype, spanning all 9 tree populations sampled.
DOI: 10.5061/dryad.ch720/3
title: Climate_data

description: ClimateWNA data corresponding to the source location of each tree genotype collected. Also contains the three garden locations' climate, as "AB", "AZ", and "UT" in the file.
DOI: 10.5061/dryad.db0r1/1
title: Alignment and Phylogenetic Trees

description: The Alignment consists of the masked 42,626 16SrDNA sequences sampled from Genbank Gammaproteobacteria as well as all known endosymbionts from lice including the newly sequenced taxa for this study: KX146199-KX146216.  The tree files consists of 6 phylogenetic trees taken from different samples of the 42,626 taxa.  The reduced trees are consensus trees of sampled sequence from a clustering algorithm, selected to represent sequence diversity. Numbers on the names of these datasets indicate the stringency of clustering. For example Ribo.70.con.tre indicates the sequences were selected from clusters were each sequence in the cluster had to be at least 70% or more similar to each other.  Ribo.80.con.tre means the tree was built from sequences clustered with 80% similarity or more.  Finally Ribo.100.con.tre indicates 100% of the sequences were used in this tree.
DOI: 10.5061/dryad.f1d03/1
title: BEAST MCC tree Proteaceae

description: A time-calibrated phylogenetic tree for Proteaceae based on sequences for 343 taxa, representing 339 species (337 species plus two subspecies, ~21% of total species), representing 75 out of the 82 recognized genera (91%), and 4 outgroup species from related families (Nelumbonaceae, Platanaceae, Buxaceae and Sabiaceae) for five chloroplast markers (atpB, matK, rbcL, rpl16 intron and trnL-trnF) downloaded from GenBank (GenBank accession numbers are provided in Onstein et al. electronic supplementary material, table S3). Details on the phylogenetic approach, fossils and calibration are given in Onstein et al.
DOI: 10.5061/dryad.f1d03/2
title: Proteaceae alignment

description: Proteaceae alignment based on sequences for 343 taxa, representing 339 species (337 species plus two subspecies, ~21% of total species), representing 75 out of the 82 recognized genera (91%), and 4 outgroup species from related families (Nelumbonaceae, Platanaceae, Buxaceae and Sabiaceae) for five chloroplast markers (atpB, matK, rbcL, rpl16 intron and trnL-trnF). For details see Onstein et al.
DOI: 10.5061/dryad.f1d03/3
title: Leaf functional traits and climates for Proteaceae species

description: Average leaf functional traits, diversification rates (based on clade-stem ages) and climatic niche variables for Proteaceae species studied in Onstein et al. 2016 GEB (same as Appendix S2). The excel file also includes a sheet with the raw data for all Proteaceae species currently accepted, and a sheet for the results of the herbarium experiment (i.e. changes in average leaf traits from fresh to herbarium) as described in Onstein et al. 2016.
DOI: 10.5061/dryad.h234n/1
title: data for wild-caught individuals

description: All animals measured were adult males. Comma-separated data file containing the following variables, all morphological variables in mm unless otherwise noted:* ID: unique ID for each animal* date (YYYY_MM_DD): date of capture and measurement* Site: municipality of population* context: natural or urban* perch: perch type* bodytemp.C: body temperature (C) at time of capture* perch.temp.C: perch temperature (C) at time of capture* ambient.temp.C: air temperature (C) at perch location at time of capture* humidity.percent: percent humidity at perch location at time of capture* perch.height.cm: height to perch location (cm)* perch.diam.cm: diameter at perch location (cm)* weight.g: lizard weight (g)* head.height.mm: externally measured head height (mm)* svl.mm: externally measured snout-vent length (mm)* local.time.decimal: time of capture in decimal format* flags: data flags (ground animals and sick animals)* JL: right and left averaged jaw length (measured from xray)* JW: jaw width (measured from xray)* METC: right and left averaged metacarpals* RAD: right and left averaged radius* ULN: right and left averaged ulna* HUM: right and left averaged humerus* FEM: right and left averaged femur* TIB: right and left averaged tibia* FIB: right and left averaged fibula* METT1 & METT2: right and left metatarsals averaged (1st and 2nd)* FL: total forelimb length* HL: total hindlimb length
DOI: 10.5061/dryad.h234n/2
title: data for common garden individuals

description: All adults measured at time of specimen preparation at end of egg-laying. All F1 measured at approximately 365 days post-hatching. NA’s exist in the data where injury, illness, or other factors made it difficult to confidently measure a variable. Comma-separated data file containing the following variables, all morphological variables in mm:* ID: unique ID for each animal* generation: F1 for offspring, P for parental (wildcaught)* dam: mother for offspring* context: natural or urban* sex: male or female (a small number of animals we were unable to confidently sex at time of death or measurement)* front_lamellae1 & front_lamellae2: counts of front lamellae numbers from scans* rear_lamellae1 & rear_lamellae2: counts of rear lamellae numbers from scans* rMETC & lMETC: right and left metacarpal* rRAD & lRAD: right and left radius* rULM & lULN: right and left ulna* rHUM & lHUM: right and left humerus* rFEM & lFEM: right and left femur* rTIB & lTIB: right and left tibia* rFIB & lFIB: right and left fibula* rMET1, rMET2, lMET1, lMET2: right and left metatarsals (1st and 2nd)* SVL: internally measured snout-vent-length (mm)