cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.34k42.1/2.1
title: 2.Gender_Age_DominanceRank_of_Individual_Dogs

description: This file contains data concerning gender, age and dominance rank of all individual dogs studied. Note that “age” is reported as “age class”, i.e. individual dogs of each pack were assigned to age classes that were ranked from the youngest to the oldest one, based on their actual or estimated year of birth (which is also reported in the table). So, “age class” does not express the actual age of dogs in years. Note that empty cells refer to missing values, i.e. dogs whose ages could not be estimated relative to that of other dogs. Dominance rank was standardized by distributing ranks evenly between the highest (+1) and the lowest (-1), with the median rank being scored as 0, to allow comparison across packs. In the original paper these data were used to: 1) assess the correlation between dominance rank and age for each pack separately; 2) assess the effect of gender on dominance rank, as well as the effect of gender on age.
DOI: 10.5061/dryad.34k42.1/3.1
title: 3.Gender_DominanceRank_Age_Body_Size_of_Individual_Dogs

description: This files contains data concerning gender, dominance rank, age and body size for some of the dogs studied. In particular, body measurements were collected for members of two dog packs, one studied during the period 2005-2006 (most behaviorual data analyses concerning this group were published by Cafazzo et al. 2010, Behav Ecol 21, 443-455), and another one studied during 2007-2008 (most behavioural data analyses concerning this one are included in Bonanni et al. 2017). As said above, the variable “age class” does not express the actual age of dogs in years, but rather it ranks pack members from the youngest (lowest rank) to the oldest one (highest rank). All body measurements are espressed in cm. Head size was obtained by summing up three distances: nose-occipital bone, temporal-temporal, mandible-forehead. Empty cells refer to missing values. In the original paper by Bonanni et al. (2017), these data were used to: 1) assess the correlation between standardized dominance rank and body measurements (separately for each pack); 2) assess the partial correlation between dominance  rank and age, after controlling for body size (it was feasible only for the Corridoio pack); 3) assess the partial correlation between dominance rank and body measurements after controlling for age (it was feasible only for the Corridoio pack; 4) assess the effect of gender on the body measurements (all measured individuals taken together). Note that one female dog was a member of both packs at different times, and her body measurements were used in the statistical tests concerning both packs since she was already fully adult/grown during the study period 2005-2006.
DOI: 10.5061/dryad.34k42.1/4.1
title: 4.Total_Number_of_Affiliative_and_Agonistic_Submissive_interactions_in_dog_packs

description: This file contains ten tables. Each table is a squared matrix reporting the total number of affiliative or agonistic submissive gestures exchanged among dogs belonging to the same pack (see Bonanni et al. 2017, Behav Ecol, for a definition of both types of submission). So, there are two tables for each dog pack, one reporting the outcomes of affiliative submissive gestures and the other one reporting the outcomes of agonistic submissive gestures. Performers of affiliative/agonistic submissive gestures are reported on the vertical axis on the left side of each table, in which each individual dog is identified using a 2-3 letters code. Recipients of affiliative/agonistic submissive gestures are reported on the upper horizontal axis of each table, and again each individual dog is identified using a 2-3 letter code. Note that the data reported for the Curva pack are not statistically independent from those reported for the Fused pack, since the latter originated from the fusion of the Curva pack with another one and the data collected before and after the fusion event were combined (see Bonanni et al. 2017, Behav Ecol, for additional explanations). In the original paper, the data reported in these tables were used to calculate the directional consistency of affiliative and agonistic submissive gestures separately, and mostly to calculate the correlation between matrices of affiliative submissions and those of agonistic submissions for each pack separately.
DOI: 10.5061/dryad.34k42.1/5.1
title: 5.Measures_of_social_tolerance_in_dog_packs

description: This file contains a table reporting several measures of social tolerance (and other related variables) in domestic dog packs, comprising both the packs presented in the paper by Bonanni et al. (2017), and others for which data were published in other papers (data source is also reported). Measures of social tolerance comprised: directional consistency index of total submissive behaviour, hierarchy steepness (calculated from matrices reporting total submissive behavior, and based on Dij, i.e. dyadic dominance indexes corrected by chance), and proportion of bites in relation to the total number of agonistic interactions (obtained by summing up aggressive and dominance interactions). Related variables comprised: percentage of dyadic unknown relationships in matrices reporting total submissive behaviour, number of pack members, and proportion of pack members who were either spayed or castrated. In the original paper, these data were used to assess Spearman correlation between measures of social tolerance and related variables.
DOI: 10.5061/dryad.34k42.1/6.1
title: 6.Measures_of_social_tolerance_in_free-ranging_dogs_and_wolves

description: This file contains a table reporting measures of social tolerance (and some related variables) in packs of free-ranging dogs and wolves. The latter comprises both packs presented in the paper by Bonanni et al. 2017, as well as packs studied in other papers (data source is also reported in the table). Measures of social tolerance comprised 1) directional consistency indexes of total submissive behaviour and 2) hierarchy steepness (calculated from matrices reporting total submissive behavior, and based on Dij, i.e. dyadic dominance indexes corrected by chance). The table also reports the number of pack members, and the percentage of unknown dyadic relationships in matrices reporting total submissive behaviour, i.e. the same matrices used to calculate measures of social tolerance. In the original paper, these data were used to compare the degree of social tolerance displayed by dogs with that displayed by wolves.
DOI: 10.5061/dryad.34k42.2/7.2
title: 7.Total_Number_of_Aggressive_interactions_in_dog_packs

description: This file contains six tables. Each table is a squared matrix reporting the total number of aggressive gestures exchanged among dogs belonging to the same pack. So, each table corresponds to a different dog pack. Performers of aggressive gestures are reported on the vertical axis on the left side of each table, in which each individual dog is identified using a 2-3 letters code. Recipients of aggressive gestures are reported on the upper horizontal axis of each table, and again each individual dog is identified using a 2-3 letter code. Note that the data reported for the Curva pack are not statistically independent from those reported for the Fused pack, since the latter originated from the fusion of the Curva pack with another one and the data collected before and after the fusion event were combined (see Bonanni et al. 2017, Behav Ecol, for additional explanations). In the original paper, the data reported in these tables were used to calculate the statistical parameters reported in Table S6, i.e. hierarchy linearity, directional consistency of aggressive behaviour, hierarchy steepness, as well as percentage of unknown, 1-way, 2-ways, and tied dyadic relationships.
DOI: 10.5061/dryad.34k42.2/8.2
title: 8.Total_Number_of_Dominance_interactions_in_dog_packs

description: This file contains six tables. Each table is a squared matrix reporting the total number of dominance displays exchanged among dogs belonging to the same pack. So, each table corresponds to a different dog pack. Performers of dominance displays are reported on the vertical axis on the left side of each table, in which each individual dog is identified using a 2-3 letters code. Recipients of dominance displays are reported on the upper horizontal axis of each table, and again each individual dog is identified using a 2-3 letter code. Note that the data reported for the Curva pack are not statistically independent from those reported for the Fused pack, since the latter originated from the fusion of the Curva pack with another one and the data collected before and after the fusion event were combined (see Bonanni et al. 2017, Behav Ecol, for additional explanations). Also, note that the data concerning the Caraffa pack are missing because they were lost. In the original paper, the data reported in these tables were used to calculate the statistical parameters reported in Table S6, i.e. hierarchy linearity, directional consistency of dominance behaviour, hierarchy steepness, as well as percentage of unknown, 1-way, 2-ways, and tied dyadic relationships.
DOI: 10.5061/dryad.5124t/1
title: Birer_et_al_cutants_samples

description: This file contains geographic coordinates and other characteristics for each sample
DOI: 10.5061/dryad.5124t/2
title: Birer_et_al_cutants_fasta_uniq.tar

description: This tar.gz file contains 1 zipped fasta file of preprocessed sequencing data (i.e. assembled reads assigned to their original sample), corresponding each to cuticular bacteria amplicons.
DOI: 10.5061/dryad.5124t/3
title: Birer_et_al_cutants_data_filtered

description: This txt file contains filtered sequencing data (i.e. after sequence clustering and spurious OTUs removal) corresponding to cuticular bacterial communities associated to Atta cephalotes and Pseudomyrmex penetrator (Formicidae).
DOI: 10.5061/dryad.61cf7/4
title: Reproduction
DOI: 10.5061/dryad.61cf7/5
title: Breeding Probabilities
DOI: 10.5061/dryad.61cf7/6
title: First-year Survival
DOI: 10.5061/dryad.675mr/1
title: Predator-prey-resource trait-abundance feedback dataset

description: Community abundance and trait dynamics in a tri-trophic predator-prey-resource system, consisting of a bacteria resource, Serratia marcescens, an intermediate bactiverous ciliate Colpidium striatum (referred to as the prey), and a top predator, Stentor coeruleus. The experiments were conducted in experimental microcosms at 20°C with a 16: 8 light-dark photoperiod. The BEMOVI R package was used to automate the sampling/measurement of traits and abundances (Pennekamp, Frank, Nicolas Schtickzelle, and Owen L. Petchey. 2015. “Bemovi, Software for Extracting BEhaviour and MOrphology from VIdeos, illustrated with anlyses of microbes”, Ecology & Evolution, June 2015. DOI: 10.1002/ece3.1529).The resulting data has the following columns:1)"row_id" = a unique number for each row, 2)	"incubator" = indicator of which incubator the data comes from, 3) "spp" = the species combination in the microcosm (c=prey & resource only, sc= predator, prey & resource), 4) "replicate"=the replicate, 5) "time"= time in days, 6)	"temperature"= temperature in degrees, 7) "N_pred_dens.ml"= Number of predators per ml, 8) "N_prey_dens.ml"=Number of prey per ml, 9)	"N_resource_dens.ml"= Number of resource per ml, 10) "sqrt_prey_area"=  square root of prey area, 11)	"prop_secondary_resource"=proportion of bacteria in the secondary resource class.
DOI: 10.5061/dryad.7356h/1
title: Data from Eastwood et al 2017 MER

description: This file contains several datasets from Eastwood et al. 2017 MER. Each tab represents a different analysis: Overall relative telomere length (rTL) repeatability, inter-assay rTL repeatability, inter-extraction rTL repeatability, intra-assay GAPDH Cq repeatability, intra-assay Telomere Cq repeatability, DNA extraction method rTL comparison, DNA extraction digestion temperature comparison (Cq values and relative telomere length) and a comparison between TRF and rTL methods. Details of data collection and column heading terms can be found in the manuscript.
DOI: 10.5061/dryad.766cp.1/15.1
title: Appendix 15 all-users-results

description: line Appendix 15.  Combined results for all users.  Details for Figure 3.
DOI: 10.5061/dryad.766cp.1/16.1
title: Appendix 16 joint-predicted-difficulty

description: Online Appendix 16.  Joint predicted difficulty.  Predicted and Observed difficulty of each character based on a linear model fit to all of the character score data.  Details for Figure 5.
DOI: 10.5061/dryad.766cp.1/17.1
title: Appendix 17 Diatoms-user-thresh-curve

description: Online Appendix 17.  Results of the parameter tuning experiment on the Diatoms.  Details for Figure 6.
DOI: 10.5061/dryad.766cp.1/18.1
title: Appendix 18 Ver2 final-results-summary

description: Online Appendix 18.  Final results. Details for Figure 3.
DOI: 10.5061/dryad.766cp.1/19.1
title: Appendix 19 Data and R Scripts

description: Online Appendix 19.  R scripts for analysis as a zipped folder.
DOI: 10.5061/dryad.766cp.1/20.1
title: Appendix 20 Instructions to Crowd

description: Online Appendix 20.  Instruction sheets for the study participants (undergraduate students at Ohio State University).
DOI: 10.5061/dryad.79t4b/10
title: Pado_Primercomb4_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for house sparrow using primer combination 4. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/11
title: Pahi_Primercomb4_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for Spanish sparrow using primer combination 4. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/3
title: Pamo_Primercomb1_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for tree sparrow using primer combination 1. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/4
title: Pado_Primercomb2_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for house sparrow using primer combination 2. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/5
title: Pahi_Primercomb2_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for Spanish sparrow using primer combination 2. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/6
title: Pamo_Primercomb2_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for tree sparrow using primer combination 2. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/7
title: Pado_primercomb_3_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for house sparrow using primer combination 3. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/8
title: Pahi_primer_comb_3_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for Spanish sparrow using primer combination 3. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.79t4b/9
title: Pamo_primercomb_3_rawdata

description: Raw (unfiltered) 454 amplicon sequence data for house sparrow using primer combination 3. Demultiplexed using the software jMHC (2011).
DOI: 10.5061/dryad.7pn71/2
title: plos one dryad2
DOI: 10.5061/dryad.b89k7/1
title: Population coordiantes and genotyping data

description: This file contains the coordinates of sample locations and nuclear and mitochondrial genetic data for 68 populations of the Natterjack toad (Bufo calamita).
DOI: 10.5061/dryad.j3ck6/1
title: White clover pictures (April)

description: This file contains pictures of 483 white clover plants taken at 1 of 4 time points over the course of a 12 month common garden experiment in St. Louis, MO. The pictures have been cropped to remove adjacent plants, and red circles have been added to the pictures using ImageJ software. These circles cover pennies that were present for scale in the original images. For this publication, the pictures were analyzed with Easy Leaf Area software (Easlon & Bloom 2014).
DOI: 10.5061/dryad.j3ck6/2
title: White clover pictures (May)

description: This file contains pictures of 483 white clover plants taken at 1 of 4 time points over the course of a 12 month common garden experiment in St. Louis, MO. The pictures have been cropped to remove adjacent plants, and red circles have been added to the pictures using ImageJ software. These circles cover pennies that were present for scale in the original images. For this publication, the pictures were analyzed with Easy Leaf Area software (Easlon & Bloom 2014).
DOI: 10.5061/dryad.j3ck6/3
title: White clover pictures (October)

description: This file contains pictures of 483 white clover plants taken at 1 of 4 time points over the course of a 12 month common garden experiment in St. Louis, MO. The pictures have been cropped to remove adjacent plants, and red circles have been added to the pictures using ImageJ software. These circles cover pennies that were present for scale in the original images. For this publication, the pictures were analyzed with Easy Leaf Area software (Easlon & Bloom 2014).
DOI: 10.5061/dryad.j3ck6/4
title: White clover pictures (March)

description: This file contains pictures of 483 white clover plants taken at 1 of 4 time points over the course of a 12 month common garden experiment in St. Louis, MO. The pictures have been cropped to remove adjacent plants, and red circles have been added to the pictures using ImageJ software. These circles cover pennies that were present for scale in the original images. For this publication, the pictures were analyzed with Easy Leaf Area software (Easlon & Bloom 2014).
DOI: 10.5061/dryad.j3ck6/5
title: VCF file with SNP data

description: This VCF file contains SNPs generated using genotyping by sequencing (GBS), which were used for population genomics analyses in this paper. The file contains data from additional white clover samples not used in the study. See the two separate files for more information on the individual samples.
DOI: 10.5061/dryad.j7g4p/1
title: PlumageColour_GeneExpression
DOI: 10.5061/dryad.mq2q9/1
title: phylogenetic analysis

description: Contains whole genome alignments, BEAST and PhyML files
DOI: 10.5061/dryad.mq2q9/2
title: mutation analysis

description: Contains FastML output files and ORF mutation information
DOI: 10.5061/dryad.mq4p7/10
title: Geographic distance among samples of Corallus hortulanus

description: Log-geographic distance was calculated using Euclidean distances based on geographic coordinates.
DOI: 10.5061/dryad.mq4p7/11
title: Geographic distance among samples of Leptodeira annulata annulata

description: Log-geographic distance was calculated using Euclidean distances based on geographic coordinates.
DOI: 10.5061/dryad.mq4p7/12
title: Geographic distance among samples of Philodryas georgeboulengeri

description: Log-geographic distance was calculated using Euclidean distances based on geographic coordinates.
DOI: 10.5061/dryad.mq4p7/13
title: R script for testing snakes gene flow based on IBD and IBR

description: R script to test for the effects of isolation-by-distance and isolation-by-resistance on gene flow of snakes from the Amazon rainforests.
DOI: 10.5061/dryad.mq4p7/14
title: Raster surface - rainfall seasonality in the Amazon

description: Raster surface used to optimize resistance surfaces in order to test for the effects of isolation-by-resistance on gene flow of snakes from the Amazon rainforests.
DOI: 10.5061/dryad.mq4p7/15
title: Raster surface - temperature seasonality in the Amazon

description: Raster surface used to optimize resistance surfaces in order to test for the effects of isolation-by-resistance on gene flow of snakes from the Amazon rainforests.
DOI: 10.5061/dryad.mq4p7/16
title: Raster surface - vegetation cover type in the Amazon

description: Raster surface used to optimize resistance surfaces in order to test for the effects of isolation-by-resistance on gene flow of snakes from the Amazon rainforests.
DOI: 10.5061/dryad.ns5qs/35
title: Figure 6L

description: Data for Figure 6L in Excel file. Caco-2 glands with single central lumens after treatment.  Lumens assessed in 50 glands and expressed as a percentage
DOI: 10.5061/dryad.ns5qs/36
title: Figure 7B

description: Data for Figure 7B in Excel file. Spindle angles in Organoids after treatment. Spindle angles calculated from 30 mitotic figures per treatment.
DOI: 10.5061/dryad.ns5qs/37
title: Figure 7C

description: Data for Figure 7C in Excel file. Organoids with single central lumen after treatment. In each  replicate (n=3), in each experimental condition 10 organoids were studied and the number with single lumens were expressed as a percentage (%).
DOI: 10.5061/dryad.pg034/1
title: Genepop_MHC_DominantBinary_Dryad
DOI: 10.5061/dryad.q1m7t/1
title: Levenes test P values

description: The zip file contains 10 plain txt files - each of the 10 files have 2 columns, rsID SNP identifier and P values obtained from Levene's test for trait variance heterogeneity between genotypes. The files cover 5 cardiometabolic traits (body mass index, high density lipoprotein cholesterol, low density lipoprotein cholesterol, triglycerides, total cholesterol), 2 files for each trait. One contains a pruned subset of SNPs and the other one all SNPs as described in the main text of the publication.
DOI: 10.5061/dryad.rr762/2
title: Mate Choice With Untreated Female Bed Bugs

description: Mating choice made when male bed bugs have been exposed to water or Temprid. Female bed bugs were not exposed to Temprid. U = Not exposed to Temprid. T = Exposed to Temprid.
DOI: 10.5061/dryad.rr762/3
title: Mate Choice with Untreated Male Bed Bugs

description: Mating choice made by males (not exposed to Temprid) when females were exposed to either water or Temprid. U = Exposed to water. T = exposed to Temprid.
DOI: 10.5061/dryad.rr762/4
title: Sublethal Exposure After Mating Egg Laying Over Time

description: Fecundity trials when females had sublethal exposure to Temprid after mating occurred. Includes number of eggs laid daily for both treatment (exposure to Temprid) and control (exposed to water) females. Replicate is equal to one individual female bed bug (12 female bed bugs per treatment). Median day of egg laying is also included as a separate sheet.
DOI: 10.5061/dryad.rr762/5
title: Sublethal Exposure Before Mating

description: Number of eggs laid by mating pairs when sublethal exposure to Temprid occurred before mating. U= Untreated T = Treated M = Male F = Female. "Virgin bed bug" sheet refers to bed bugs that were virgin prior to the study, and only includes two treatments: UFUM and TFTM.
DOI: 10.5061/dryad.s5q8f/10
title: Untargeted timecourse analysis_common_background

description: Source data for untargeted analysis of HIPV emissions described in the Supporting Information
DOI: 10.5061/dryad.vg1g6/1
title: Combined analysis dataset (molecular+structural data)

description: Molecular data from seven chloroplast loci: rpl16, trnL-F, psbA-trnH, rpl32-trnLUAG, trnQ-rps16, petL-psbE, ycf1, and codified indels. The structural dataset consist of 46 characters described in the paper.
DOI: 10.5061/dryad.vg1g6/2
title: Molecular dataset

description: Molecular data from seven chloroplast loci: rpl16, trnL-F, psbA-trnH, rpl32-trnLUAG, trnQ-rps16, petL-psbE, ycf1, and codified indels for 40 included terminals.
DOI: 10.5061/dryad.vg1g6/3
title: Bayesian tree for molecular data

description: Bayesian tree for MrBayes analysis using the molecular data matrix.
DOI: 10.5061/dryad.vk3ns/1
title: EE_crab_behav_data

description: Behavioral data recorded for Hemigrapsus oregonensis exposed to fluoxetine (Control=0ng/L, 3ng/L, and 30ng/L) over a 60 day study. Data recorded as counts of behavioral acts during no predator and predator trials at day and night
DOI: 10.5061/dryad.0rb1b/1
title: State-and-transition simulation model files for ST-Sim software

description: As outlined in Appendix S1, this file contains all of the files required to run the simulations in the paper using the ST-Sim software