cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.n9g60/20
title: Fig_S6.pdf

description: Supplemental Figure 6: Results from ML and Bayesian analyses of ostariophysans using ultraconserved elements, with 75% complete data coverage, partitioned, and all data concatenated.
DOI: 10.5061/dryad.n9g60/21
title: Fig_S7.pdf

description: Supplemental Figure 7: ASTRAL phylogeny of ostariophysans using ultraconserved elements with 50% data coverage, using a coalescent species tree approach. Internodes that were found to potentially be in the anomaly zone are shown with dashed lines (see text).
DOI: 10.5061/dryad.n9g60/22
title: Fig_S8.pdf

description: Supplemental Figure 8: Result from a Bayesian analysis using ultraconserved elements (partitioned) and morphology, with 50% complete UCE data coverage.
DOI: 10.5061/dryad.n9g60/23
title: Fig_S9.pdf

description: Supplemental Figure 9: Result from a ML analysis using ultraconserved elements (partitioned) and morphology, with 50% complete UCE data coverage.
DOI: 10.5061/dryad.n9g60/24
title: Fig_S10.pdf

description: Supplemental Figure 10: Result from a Bayesian analysis using ultraconserved elements (partitioned) and morphology, with 75% complete UCE data coverage.
DOI: 10.5061/dryad.n9g60/25
title: Fig_S11.pdf

description: Supplemental Figure 11: Result from a ML analysis using ultraconserved elements (partitioned) and morphology, with 75% complete UCE data coverage.
DOI: 10.5061/dryad.qp727/1
title: stomatal traits in china
DOI: 10.5061/dryad.qs7ks/1
title: Table S1

description: Dimorphism estimates and information about analyzed populations. Status indicates whether reasonable dimorphism estimates could be obtained ("OK") or why they could not be found. ∆BIC is the difference in support between the best one- (BIC1) and two-group (BIC2) models, with positive values indicating greater support for the two-group model. CovStruct refers to the assumptions of the best supported model about how variance/covariance patterns are similar across sexes (see Table 1); CovStruct Selection indicates whether the CovStruct assumption was the best supported among all those implemented in Mclust ("best model") or if only a subset of models were considered ("imposed", with "imposed E_I" indicating that only models EEI, EVI, and EII were allowed). Combining data left and right valves requires specifying a method for this offset (LR offset method); see text for details. Dimorphism, female area and female L/H data were all natural-log transformed.
DOI: 10.5061/dryad.qs7ks/2
title: Figure S1

description: Methods used to determine the offset between left and right valve data, illustrated with the population HAP_NANI-1.  (A) Original data, before any offset is applied. As is typical for many cytheroids, right valves are smaller and more elongate than left valves. Note also that the sex ratios appear to differ between the sexes: most right valves are from the larger, male cluster, whereas the majority of left valves are females. This shifts the mean of right valves towards that of males, and the mean of left valves towards that of females. When valve means are used to determine left-right offsets (B), right valves are now systematically smaller and less elongate because the skewed sex ratios have resulted in an overcorrection for right valves away from male-like values.  In contrast, fitting the mixture model while allowing left-right offsets to be freely optimized (C) provides a much better overlay of left and right valve data.
DOI: 10.5061/dryad.qs7ks/3
title: Figure S2

description: Shape dimorphism plotted against female body size (log[area], left panel) and female shape (log[length/height], right panel). Solid black lines are lowess regressions.
DOI: 10.5061/dryad.rv801/1
title: Creaseria_morleyi_Blind_Hunter

description: short video (less than 5min) with laboratory predation-interaction between two cave dwelling blind shrimps from the Yucatan peninsula innundated caves (cenotes), plus film-takes in the wild of predation bouts.
DOI: 10.5061/dryad.sp21b/1
title: Soil legacies of winter cover crop mixtures

description: Excel data file with legacy effects of a two year rotation (2014-2015), including winter cover crop monocultures and mixtures. Contains variable description, experimental design, data on winter cover crop biomass and N, soil organic matter, mineral N, potential N mineralisation, plant feeding nematode abundance, biomass of response plants Avena sativa and Cichorium endivia.
DOI: 10.5061/dryad.ts747/1
title: Figure S1
DOI: 10.5061/dryad.ts747/2
title: Figure S1. Aligned sequences by MAFFT
DOI: 10.5061/dryad.ts747/21
title: Figure 6
DOI: 10.5061/dryad.ts747/3
title: Figure S1. Netwick file
DOI: 10.5061/dryad.ts747/7
title: Figure 6. Aligned sequences by MAFFT
DOI: 10.5061/dryad.vk775/1
title: README file for package

description: Describes all files in package and provides external links to additional documentation.
DOI: 10.5061/dryad.vk775/2
title: SILVA-to-NCBI mapping

description: Contains a mapping of Genbank accession numbers to NCBI taxon ids and names. The accessions are those that are the reference sequences for SILVA clusters.
DOI: 10.5061/dryad.vk775/3
title: OTT amendments

description: The taxonomy amendments used in preparation of OTT. Includes all amendments in https://github.com/OpenTreeOfLife/amendments-1 at the time that we built the version of OTT described in the article. Each amendment is a json file that includes the change being proposed as well as sources that support the change.
DOI: 10.5061/dryad.vk775/4
title: mapping of source ids to OTT ids

description: Cumulative mapping of identifiers in sources to OTT identifiers. Format of each line is source:sourceid,OTTid.
DOI: 10.5061/dryad.1sd59/1
title: Data for turnover analysis

description: The file contains three data sets used for calculating species turnover. This includes data on marine phytoplankton (DUTCH), freshwater phytoplankton (IOWA) and terrestrial grassland vegetation (NUTNET). Each data set contains an identifier for the monitored ecosystem (StationID) and the the relative proportion of species of average annual biomass for each year (column year). Species are numbered from S1 to SX. Please note that for the grassland data, % cover is given instead of proportions.
DOI: 10.5061/dryad.1v3c2/1
title: Appendix S1 - Full occurrence dataset

description: Full occurrence dataset, plus their biogeographical origin, used in the modeling procedures of this work.
DOI: 10.5061/dryad.20191/1
title: Photometric data ouabain sensitivity of fly Na+/K+-ATPase

description: Descriptions are included in the data file.
DOI: 10.5061/dryad.26tq2/1
title: seed_removal

description: Virola surinamensis seed removal rates based on seed traps in a human-modified landscape in the Osa Peninsula, Costa Rica (2011-2012)
DOI: 10.5061/dryad.2h6nf/2
title: survival_yellow

description: Survival data (avian predation rate) for yellow-and-black striped caterpillars
DOI: 10.5061/dryad.2h6nf/3
title: survival_green

description: Survival data (avian predation rate) for green-and-black striped caterpillars
DOI: 10.5061/dryad.2h6nf/4
title: detection_yellow

description: Detection data (supplementary material) for yellow-and-black striped caterpillars
DOI: 10.5061/dryad.2h6nf/5
title: detection_green

description: Detection data (supplementary material) for green-and-black striped caterpillars
DOI: 10.5061/dryad.4v700/1
title: DataJacobsonetal2017

description: This file contains the density level, trial, selected habitat, partial warp and length and size variables for each of the individuals and species tested within artificial stream experiments.
DOI: 10.5061/dryad.52n11/1
title: Experiment Data

description: Results from the toad response experiment from quolls from toad-infested or toad-free areas of northern Australia. Data is the time spent investigating and attack type for both dead adult toads and dead adult mice.
DOI: 10.5061/dryad.52n11/2
title: Experiment Analysis

description: R code for analysis of data file Experimental Data.
DOI: 10.5061/dryad.52n11/3
title: Northern quoll population model

description: R code to preform individual-based northern quoll population model and population viability analysis.
DOI: 10.5061/dryad.5gb05/1
title: simulation_results

description: The zip archive contains the results from our simulations used in this paper. The text files are the raw simulation results. The file names indicate the parameters used for the simulation. The naming convention is "(type of FDS)_("loc" or "reg" to indicate predator perspective)_(genetic architecture: "ul" for unlinked, "linked" for linked genes with equal morph fitness, and either "cep" or "hel" for directional selection with NFDS or PFDS respectively)." For example, "PFDS_reg_ul3.txt" contains simulation results for positive frequency dependent selection, regional predator perspective, and unlinked loci with equal base attack rate. The number indicates that this is the third simulation (of 10) at these parameter values. The columns of each text file are: 1) row number, 2) migration rate input parameter, 3) input parameter for the percentage of the population subject to frequency dependent selection, 4) predator perspective, 5) genetic architecture. Columns 6 through 14 are the number of individuals with a given genotype in population 1 in a given generation. Columns 15 through 23 are the number of individuals with a given genotype in population 2. There are 251 generations at each set of parameter values. The .csv files share the same naming conventions, and have comparisons of four metrics to describe population morph complement from the simulation results.
DOI: 10.5061/dryad.5gb05/2
title: simulation_code

description: This is the R code for the simulations found in this paper
DOI: 10.5061/dryad.5qt88/1
title: AFLP data

description: AFLP data for 269 individuals of Tropheus moorii (Cichlidae) from 12 populations. Sample IDs are composed of population name and sample number.
DOI: 10.5061/dryad.5t0g4/1
title: Data sets and analysis code

description: The files here contain the datasets and analysis code that support this article. They are
1. Modeling - contain data and code used to analyze the effects of neural and biomechanical delays
2. Aerodynamics - contains code used to estimate damping coefficient
3. Power - contains code used to estimate power
4. Stability Margin - contains code used to calculate stability matgin
DOI: 10.5061/dryad.7hj0j/2
title: Vocalization Data - Assorted Days

description: These vocalization files are from the first set of data analysis where all data was taken from assorted days of play anticipation and used for data analysis. The files are named R_D_C. R for rat number, D for day of testing and C for the cohort the animal belonged to. These files match the videos uploaded.
DOI: 10.5061/dryad.7hj0j/3
title: Behavioural Data -Day 7 Only

description: These video files are from the second set of data analysis where all data of anticipation of play was taken from the last day (day 7) for data analysis. The files are named R_D_C. R for rat number, D for day of testing and C for the cohort the animal belonged to. These files match the video files uploaded.
DOI: 10.5061/dryad.7hj0j/4
title: Behavioural Data - Assorted Days

description: These vocalization files are from the first set of data analysis where the data was taken from assorted days of anticipation of play for data analysis. The files are named R_D_C. R for rat number, D for day of testing and C for the cohort the animal belonged to. These files match the corresponding vocalization files uploaded.
DOI: 10.5061/dryad.82h58/1
title: Behavior

description: This file contains data about the termite behaviors observed in our trials. The file contains the following four sheets:

1) Initiations: information about every termite and the number of excavation sites it initiated.

2) Joining: information about every time a termite encountered an excavation site, and whether or not it joined in excavating there.

3) Duration: information about the length of time for every excavation event.

4) Metadata: descriptions of the column headers included in sheets 1–3.
DOI: 10.5061/dryad.82h58/2
title: Video S1. Sample clip from one of our experiments.
DOI: 10.5061/dryad.82h58/3
title: Video S2. Sample clips of the two building behaviors classified.
DOI: 10.5061/dryad.82h58/4
title: Video S3. Timelapse video of termites working over approximately ten hours.
DOI: 10.5061/dryad.82h58/5
title: Video S4. Timelapse and building process from simulations.
DOI: 10.5061/dryad.8q7s6/4
title: Table S1_DrosoCline
DOI: 10.5061/dryad.8q7s6/5
title: Table S2_Codebook

description: This table contains further details on Table S1_DrosoCline
DOI: 10.5061/dryad.8q7s6/6
title: Table S3_ Geographical coordintaes
DOI: 10.5061/dryad.983kd/1
title: Env_Yearly

description: Seasonal values of environmental variables tested as causes of cohort effects.
DOI: 10.5061/dryad.983kd/2
title: ID_SurvRec

description: Individual information about bighorn sheep ewes of 2 years and above. Cohort 1973 to 2014. Annual fitness from 1975 to 2014.
DOI: 10.5061/dryad.d315q/1
title: Phylogenetic relationships between expanse and margin morphs of Sphagnum magellanicum

description: Phylogenetic relationships between expanse and margin morphs of Sphagnum magellanicum using a maximum likelihood analysis in RAxML. The tree is rooted with the outgroup species, S. fallax. The two morphs form reciprocally monophyletic lineages with 100% bootstrap support. Branch support higher than 50 is shown.
DOI: 10.5061/dryad.d315q/2
title: RAxML_bipartitions

description: The tree file generated by RAxML v. 8.2.4 and annotated by FigTree v. 1.4.3.
DOI: 10.5061/dryad.d315q/3
title: The FASTA file of concatenated SNPs

description: The alignment file used to reconstruct the phylogenetic relationships of the plants representing the two morphs using maximum likelihood (ML) analysis in RAxML. SNPs were concatenated and converted to FASTA format (4274 SNPs). The sequence data corresponding to the SNP locations on the reference genome of S. fallax was extracted using a custom R script to be used as outgroup.
DOI: 10.5061/dryad.dh98c/2
title: Data from: Evolvability meets biogeography: evolutionary potential decreases at high and low environmental favourability
DOI: 10.5061/dryad.dh98c/3
title: Species distribution and environmental variables

description: Here we provide the environmental variables used to construct the SDM for each species. Description of the variables are given in the ESM of the paper
DOI: 10.5061/dryad.g6s5j/1
title: Howeth_JAE2017_Treatment_Assignments

description: Dispersal rate and invader (Daphnia lumholtzi) source region treatment assignments for each of the 48 mesocosms in the experiment. In the Dryad raw data files associated with this publication, these treatment combinations are conserved by mesocosm number.
DOI: 10.5061/dryad.g6s5j/2
title: Howeth_JAE2017_Zooplankton_Density

description: Zooplankton species density (number per liter) by mesocosm and sample date.
DOI: 10.5061/dryad.g6s5j/3
title: Howeth_JAE2017_Native_Zooplankton_Biomass

description: Native zooplankton biomass (µg per liter) by mesocosm and sample date.
DOI: 10.5061/dryad.g6s5j/4
title: Howeth_JAE2017_Immigrant_Zooplankton_Density

description: Native zooplankton immigrant density by species (number per liter), date of immigration (dispersal), and dispersal rate treatment (L, low; M, moderate).
DOI: 10.5061/dryad.g6s5j/5
title: Howeth_JAE2017_In_Vivo_Fluorescence

description: Total and edible (&lt;35µm) in vivo fluorescence by mesocosm and sample date.
DOI: 10.5061/dryad.g6s5j/6
title: Howeth_JAE2017_Dissolved_Oxygen

description: Dissolved oxygen (mg per L) concentrations in the morning (AM) and evening (PM) by mesocosm and sample date.
DOI: 10.5061/dryad.g6s5j/7
title: Howeth_JAE2017_Nutrients

description: Nutrients measured at the end of the experiment by mesocosm. Total nitrogen (TN), total dissolved nitrogen (TDN), total phosphorus (TP), and total dissolved phosphorus (TDP) concentrations reported in mg per L.
DOI: 10.5061/dryad.h7n25/1
title: Microsatellite genotypes for 11 loci (Myotis lucifugus)
DOI: 10.5061/dryad.hm7k5/2
title: FailureStage

description: Nest outcomes, used to calculate proportion of failures that occurred during incubation vs chick rearing for each species
DOI: 10.5061/dryad.hm7k5/3
title: AFRALR

description: Data used to calculate mean age at first and last reproduction for each sex and species (Table 1)
DOI: 10.5061/dryad.hn48m/1
title: daniodata

description: y = Activity rate, TEMP = -1 (24C) or 0 (28C), HUNG continuous between 0 and 30hrs (1), id of ifsh, MASS z-transformed, ARENA identity, BU = ID*Burst variable.
DOI: 10.5061/dryad.m5g04/1
title: Species abundance data from Sullivan et al. A national-scale model of linear-features improves predictions of farmland biodiversity

description: Bird (from the BBS) and butterfly (from the UKBMS) abundance data used in the paper. Bird species names are given as BTO species codes. Sites where no study species were recorded have "NoTargetBirdRecorded" or "NoTargetButterflyRecorded" in the species column, and no value in the count column. NOTE -  because this dataset has been processed as described in the paper, we strongly recommend researchers wishing to use BBS and UKBMS data in their own research to obtain data from the BTO (https://www.bto.org/research-data-services/data-services/data-request-system) and the UKBMS (http://www.ukbms.org/Obtaining.aspx) rather than use this file.
DOI: 10.5061/dryad.nr028/1
title: Dispersal apparatus beetle counts

description: Raw data from the counts of beetles dispersing through the different dispersal apparatus designs.
DOI: 10.5061/dryad.ps009/1
title: Electronic Supplementary Material_FINAL

description: Supplementary experimental procedures
DOI: 10.5061/dryad.ps009/2
title: Supplemental Figures
DOI: 10.5061/dryad.ps009/3
title: Audio S2
DOI: 10.5061/dryad.ps009/4
title: Audio S1
DOI: 10.5061/dryad.ps009/5
title: Video S1
DOI: 10.5061/dryad.r02c4/1
title: Triodia scariosa vital rate data

description: Four data files for modelling Triodia scariosa vital rates: the proportion of seedlings surviving and established plants resprouting in the first and second years after fire; the proportion of the population flowering, and the post-fire germination rate. Rainfall data is not included as it is already publicly available.
DOI: 10.5061/dryad.r19f8/1
title: determinants of selection dataset_main analyses

description: This data file is associated with main text analyses. This file contains data from two datasets. Estimates of directional phenotypic selection gradients (and associated standard errors) from (1) experiments manipulating selective agents and (2) from spatially or temporally replicated natural populations. Not all columns apply for both datasets.
DOI: 10.5061/dryad.r19f8/2
title: determinants of selection dataset.differentials_App A

description: Data file associated with Appendix A. This file is composed of estimates of directional phenotypic selection differentials (with and without associated standard errors) from experiments manipulating selective agents.
DOI: 10.5061/dryad.r19f8/3
title: determinants of selection dataset.all.estimates_App D

description: Data file associated with Appendix D. This file contains data from two datasets.  Estimates of directional phenotypic selection gradients (with and without associated standard errors) from (1) experiments manipulating selective agents and (2) from spatially or temporally replicated natural populations. Not all columns apply for both datasets.
DOI: 10.5061/dryad.r19f8/4
title: env determinants of selection

description: R script for analyses associated with Caruso et al. What are the environmental determinants of phenotypic selection? A meta-analysis of experimental studies. The American Naturalist
DOI: 10.5061/dryad.r6s1c/1
title: GeoTIFF files of suitable climate for boreal species
DOI: 10.5061/dryad.rd13j/1
title: Macario_Dryad_Orange_and_TotalColor_Experiment_Data
DOI: 10.5061/dryad.sp41s/2
title: R Script Functions

description: Functions associated with R script
DOI: 10.5061/dryad.sp41s/3
title: LA

description: LA Data
DOI: 10.5061/dryad.sp41s/4
title: DA

description: DA data
DOI: 10.5061/dryad.sp41s/5
title: Mollusk LA

description: Mollusk LA data
DOI: 10.5061/dryad.sp41s/6
title: Robust Mollusk LA

description: Robust Mollusk LA data
DOI: 10.5061/dryad.sp41s/7
title: Mollusk DA

description: Mollusk DA data
DOI: 10.5061/dryad.sp41s/8
title: Non-mollusk LA

description: Non-mollusk LA data
DOI: 10.5061/dryad.sp41s/9
title: R Script

description: Runs all analyses and generates figures in R
DOI: 10.5061/dryad.t6292/1
title: S1

description: Supplementary Figure 1
DOI: 10.5061/dryad.v346n/1
title: Experiment_Kostoglou_et_al_2017

description: See the ReadMe file. This file contains the results of the experimental part of the study.
DOI: 10.5061/dryad.v346n/2
title: REALNESTS_Kostoglou_et_al_2017

description: This file describes the data collected from our acoustic sampling of real nests.
DOI: 10.5061/dryad.v577v/1
title: Durston and El-Sabaawi - Stickleback Composition

description: From Durston and El-Sabaawi 2017, this file contains morphological, genetic, environmental and elemental data for 375 Threespine Stickleback from 12 populations. The file contains separate tabs for data from all locations, Kennedy and Miami. The Kennedy and Miami data is also present in the all locations tab, but the size adjustment and standardization are different.
DOI: 10.5061/dryad.vk775/5
title: OTT version2.10

description: This is the previous version of the Open Tree Taxonomy. It is included because we use the previous version during identifier assignment (ott2.10 required to build ott3.0). See the enclosed README for details on files and formats.
DOI: 10.5061/dryad.vk775/6
title: OTT version 3.0

description: Version of the Open Tree Taxonomy described in the manuscript. See the enclosed README for details on files and formats.
DOI: 10.5061/dryad.vk775/7
title: separation taxonomy

description: The 'separation taxonomy' described in the manuscript. Contains a list of taxa and a list of synonyms.
DOI: 10.5061/dryad.03003/1
title: Personality_Stress_Cognition_in_Budgerigars_Raw_Data

description: This file contain all the raw data used in analyses for the associated publication.
DOI: 10.5061/dryad.0r76j.2
title: Data from: Nineteenth-century collapse of a benthic marine ecosystem on the open continental shelf
DOI: 10.5061/dryad.0r76j.2/1.2
title: Table-spatial distribution of Laques erythraeus, Leopecten diegensis and Chlamys hastata

description: Occurrences of Laques erythraeus, Leopecten diegensis and Chlamys hastata in living (Live) and death (Dead) assemblages, with latitude, longitude, water depth (m), year of sampling (NA if unknown) and sampling gear. Some data refer to presence-absence data (0-absent, 1-present) and some to abundance data (column Data). Occurrences are partitioned into mainland-shelf and island-shelf occurrences (column Shelf.island). Some occurrences are based on photographic surveys. The column "Survey" refers to monitoring of wastewater agencies (LA City, LA County, Orange County, Point Loma, and South Bay), to Bight-wide surveys, to photographic USGS surveys, or Melville 2012 survey (performed by authors of this study).
DOI: 10.5061/dryad.126dg.2
title: Data from: Marine life in a greenhouse world: cephalopod biodiversity and biogeography during the early Late Cretaceous
DOI: 10.5061/dryad.126dg.2/1.2
title: Yacobucci_PBIO_Suppl_Table1

description: Dataset of Cenomanian-Turonian cephalopod occurrences, derived from the Paleobiology Database and the M.S. thesis of Richard A. MacKenzie III (2007, Bowling Green State University, Bowling Green, OH, USA).
DOI: 10.5061/dryad.176f9/1
title: FileA_Greenhouse_Common_Garden_Experiment

description: This is a comma delimited file (.csv) which contains phenotype data for 592 M. guttatus and M. alsinoides individuals grown within two different greenhouse common gardens.
DOI: 10.5061/dryad.1b15j/1
title: Female trait data

description: Immunity, tract volume and tract scarring data for all females