cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.7n474b1/1
title: CzIPM

description: R code to estimate the recovery time for Cystoseira zosteroides populations after a major disturbance at different temperature scenarios treatments. In addition, stochastic population growth rate (λs) and quasi-extinction probability at increasing frequency of two major disturbances at increasing temperature scenarios. These analyses correspond to the figures 4 and 5 of Capdevila et al. 2018 JEcol.
DOI: 10.5061/dryad.7n474b1/2
title: MixedEffectsparams

description: Parameter values needed for the Integral Projection Models used to model the life cycle and population dynamics of Cystoseira zosteroides. This includes seven demographic processes: 1.survival (σ), 2.growth (γ), 3.fertility (φ), 4.recruits per capita (δ(N)), 5.probability of settlement of recruits (ε), 6.early survival of recruits (σs) and 7.recruits size probability distribution.
DOI: 10.5061/dryad.7n474b1/3
title: IPMFunctions

description: Functions required to run the CzIPM.R script. This script contains the description of the growth, survival and fecundity functions used to build the IPMs.1. The best-fitted model for survival (σ) was a logistic mixed effect model including size as fixed factors and population nested in years as a random factor. 2. For growth (γ), the best-fitted model was a linear mixed effect model, with size as fixed factor and population nested in year as random factor. 3. Fertility (φ(z)), was estimated as the relation between reproductive status (reproductive vs. non-reproductive) and size with a binomial regression. 4. Recruitment per capita (δ(N)) is density-dependent in C. zosteroides (Capdevila et al., 2015), so a generalized linear model with Poisson error distribution and a log-link function was fitted, correlating the recruit:adult ratio as a function of the adult density. 5. To model the effect of temperature on the probability of settlement (ε) we used a generalized linear mixed models (GLMM), with a Poisson error distribution and a logit link function, the independent variable was the number of zygotes, temperature was treated as a fixed variable and we used the ID of each quadrat of the Petri dishes as a random variable. 6. To model the effect of temperature and time (fixed factors) on germling survival (σs), we used a GLMM with a binomial error distribution and a logit link function, with the ID of each quadrat of each Petri dish as a random variable to deal with the lack of independence between observations repeated at different times and a binomial error distribution was assumed to deal with the binary response variable (survive vs. die). 7. The size distribution of recruits was estimated as a normal probability function. In addition, the function required to project the density-dependent and stochastic IPMs is provided.
DOI: 10.5061/dryad.7n474b1/4
title: modsum

description: Density-dependent function, relating the number of Cystoseira zosteroides recruits with the number of adults. It is a generalized linear model (GLM) with Poisson error distribution and a log-link function, correlating the recruit:adult ratio with the adult density. This file is needed to run the code CzIPM.R.
DOI: 10.5061/dryad.7n474b1/5
title: sett

description: Data on the impacts of temperature (16ºC, 20ºC and 24ºC) on the settlement of Cystoseira zosteroides early stages. This file is needed to perform the projections in CzIPM.R code.
DOI: 10.5061/dryad.7n474b1/6
title: survrec

description: Data on the impacts of the temperature treatments (16ºC, 20ºC and 24ºC) to early survival of Cystoseira zosteroides. This file is required to run the code CzIPM.R.
DOI: 10.5061/dryad.803f52k/1
title: Relaxing with a special visitor / relajando con visitante especial

description: Relaxing during the heat of the day, a friend comes to visit- a groove billed Ani (Crotophaga sulcirostris)!

Descansando en mediodía, viene un compañero a visitar- ¡un garrapatero asurcado (Crotophaga sulcirostris)!

CowPro - GOPR1240
July 12, 2016 at 2:51 PM
DOI: 10.5061/dryad.803f52k/2
title: Eating understory plants / comiendo plantas del sotobosque

description: Typical feeding behavior for annual and perennial ground-covering herbs: fairly indiscriminate, multiple plants and species in each tongue-hook movement to the mouth.

Comportamiento tipico en eventos de alimentación en hierbas annuales y perennes: indiscriminado, multiples individuos o especies en cada bocado.

CowPro - GOPR2831
October 6, 2015 at 10:08 AM
DOI: 10.5061/dryad.803f52k/3
title: Croton fantzianus in 1080p

description: Croton fantzianus. Here, several interesting behaviors are visible. Notably, cows use their heads and necks to break the tree's branches, particularly of C. fantzianus and Mimosa palmeri, bringing softer, more nutritious material into range. This behavior is especially common in late fall, when deciduous tropical dry forest (TDF) species begin to shed their leaves. 
An early 10 second video, testing 1080p at 60 frames per second (fps). Due to cow head movements while feeding, I ended up going with 720p at 120fps, sacrificing a bit of image quality for soothing slow motion action.

Consumo de C. fantzianus. Aqui se ven varios comportamientos interesantes. Por ejemplo, las vacas de este área usan sus cabezas y cuellos para quebrar ramas, en particular de C. fantzianus y Mimosa palmeri, en tal manera alcanzando materiales blandos y nutritivos. Este comportamiento se nota principalmente en otoño, cuando las especies del bosque tropical seco empiezan a perder sus hojas.
El video es uno de los mas preliminarios, grabado en 1080p a 60 cuadros por segundo. Debido a movimientos de las cabezas de las vacas mientras consumen plantas, decidí a grabar videos de 720p a 120 cuadros por segundo, sacrificando un poco de calidád de imagen para videos a cámara lenta.

CowPro - GOPR0530
9/30/15, 4:28 PM
DOI: 10.5061/dryad.803f52k/4
title: Freedom / Liberación

description: Free to go, with a fresh new CowPro unit.

Libre, con un aparato de CowPro con pilas frescas.

CowPro - GOPR1938
July 27, 2016 at 6:35 AM
DOI: 10.5061/dryad.803f52k/5
title: Caregiving behavior

description: A new calf gets a bath. Bañada de una becerra recién nacida.
DOI: 10.5061/dryad.803f52k/6
title: munch
DOI: 10.5061/dryad.8br42vr/11
title: SIappendixFigS3

description: Supporting information Fig. S3. Comparison of the holotype of Desmatochelys padillai Cadena & Parham, 2015 and the D. padillai FCG-CBP-75 specimen described here in anterolateral views. A–B, D. padillai holotype exhibiting high keels along the midline of the carapace. C–D, D. padillai FCG-CBP-75 specimen exhibiting similar pattern of keels along the midline of the carapace.
DOI: 10.5061/dryad.8br42vr/12
title: SIappendixFigS4

description: Supporting information Fig. S4. Scanning electron microscope (SEM) images and elemental composition with energy-dispersive X-ray spectroscopy analyser (EDS) results for the middle portion of one of the eggshells of Testudoolithus oospp. A, SEM image of the calcite crystals; B, EDS elemental mapping at 15 kV for the region shown in A, predominantly calcium, carbon, and oxygen, consistent with crystals of calcium carbonate (calcite) and some traces of iron.
DOI: 10.5061/dryad.8br42vr/13
title: SIappendixFigS5

description: Supporting information Fig. S5. SEM images and elemental composition of the ventral (visceral) surface of one of the eggshells of Testudoolithus oospp., as well as the rock matrix that covers most of the shell bones and some of the eggs. A, ventral surface of the eggshell, showing small circular bumps interpreted as the organic cores of shell units; B, SEM and elemental composition analysis of a region of the ventral surface of the egg (see rectangle “B” in A), details of the composition are given in the table below A, indicating high carbon content. C, photograph showing the rock matrix covering most of the shell bones and some of the eggs; D, SEM and EDS analysis of the rock matrix (see rectangle “D” in D), details of the composition are given in the table below C, with absence of carbon and abundant contents of silica, aluminium, and iron.
DOI: 10.5061/dryad.8br42vr/14
title: SIappendixFigS6

description: Supporting information Fig. S6. Cathodoluminescence of the ventral surface of one of the eggs of Desmatochlys padillai exhibiting purple to cyan fluorescent colours corresponding to wavelengths between 400 and 500 nm.
DOI: 10.5061/dryad.8c86rf2/1
title: OIK-05452data
DOI: 10.5061/dryad.8c94g44/2
title: Tantilla_BDNF_gracilis_pruned

description: Alignment file containing sequence (421 bp) of brain derived neurotropic factor (BDNF) for Tantilla wilcoxi (2 samples), T. coronata (3 samples), and T. gracilis (19 samples). Each sequence id has the unique numerical id for each sample. See associated manuscript (Table 1) for additional information for each sample.
DOI: 10.5061/dryad.961m4t8/1
title: trnLF and rbcL sequences from Lledo et al. 2005

description: trnLF and rbcL sequences used in this study, provided to us directly by the authors of Lledó et al. (2005).
DOI: 10.5061/dryad.cj4733b/1
title: Heart_rate_long_format_13

description: Complete data set used in the analyses presented in the article.
DOI: 10.5061/dryad.db390t9/1
title: Ten Cases of Divergence in Dudleya Data

description: Data collected in the field, as well as simulated in Excel and Systat. Please see README file for information on column and row descriptors.
DOI: 10.5061/dryad.db390t9/2
title: Photographs of Dudleya Populations Sampled

description: A photograph matrix of populations sampled for this study.
DOI: 10.5061/dryad.f5df5nk/1
title: Landmark data for convergence tests

description: Landmark data for bat crania used to test for convergence among major trophic guilds.
DOI: 10.5061/dryad.f8c5r7q/1
title: Mobley_Gegear_bumblebee_data

description: Normalized read count for clothianidin-sensitive genes in male and worker B. impatiens
DOI: 10.5061/dryad.g12p0j2/19
title: Moatt_et_al_Data_S16

description: Intake Data
DOI: 10.5061/dryad.g12p0j2/20
title: Moatt_et_al_Data_S17

description: Lifespan data for Fig S1
DOI: 10.5061/dryad.j76c4k4/1
title: Gustafson_etal_COGE
DOI: 10.5061/dryad.k5sj288/1
title: SSL dist_mvmt_range
DOI: 10.5061/dryad.kj638nt/2
title: Supplementary Figure 2

description: Supplementary Figure 2. Genomotype composition of diploid and triploid S. alburnoides females used in affiliation trials, assessed using β-actin sequencing and Genotyping-by-Sequencing (GBS). The horizontal bars represent the proportion of A (red), Q (yellow) and P (green) genomes per individual. Grey dashed bars indicate the individuals for which no quality GBS data were obtained. The standardized proportions of Q and P genomes in each individual, excluding the A genome from the calculations, are indicated on the right. The vertical bars at the center indicate the genome group of each female, determined from the majority of their heterospecific genome, as obtained from β-actin and GBS joint analyses, and the circles at the center indicate if these methods agreed (light green) or disagreed (light red) in genomotype identification.
DOI: 10.5061/dryad.kj638nt/3
title: Supplementary Figure 3

description: Supplementary Figure 3. Genomotype composition of S. aradensis and S. pyrenaicus used in affiliation trials, assessed using β-actin sequencing and Genotyping-by-Sequencing (GBS). The horizontal bars represent the proportion of A (red), Q (yellow) and P (green) genomes per individual. Grey dashed bars indicate the individuals for which no quality GBS data were obtained. The vertical bars at the center indicate the genome group of each male, determined from the majority of their genome, as obtained from β-actin and GBS joint analyses, and the circles at the center indicate if these methods agreed (light green) or disagreed (light red) in genomotype identification.
DOI: 10.5061/dryad.kj638nt/4
title: Supplementary Table 1

description: Supplementary Table 1. GBS loci used to discriminate among A, Q and P genomes (N=3.369). Numbers before the vertical bars correspond to the IDs of the identified polymorphisms, listed at the last columns of the table. Numbers after the vertical bars correspond to the number of reads for each identified polymorphism, respectively.
DOI: 10.5061/dryad.kj638nt/5
title: Supplementary Table 2

description: Supplementary Table 2. Summary of data handling criteria and sample sizes used in analyses.
DOI: 10.5061/dryad.kj638nt/6
title: Supplementary Table 3

description: Supplementary Table 3. Raw data on mate preferences by S. alburnoides females towards AA, QQ and PP males derived from affiliation trials. Highlighted in color are the 4 trials that were excluded from all analyses, including a PQ male that was used as PP (orange) and one extreme outlier female (blue).
DOI: 10.5061/dryad.kj638nt/7
title: Supplementary Table 4

description: Supplementary Table 4. Results from repeated-measures ANOVA and Wilcoxon matched pairs tests performed to assess the influence of female genetic background on mate preferences (Fig. 7).
DOI: 10.5061/dryad.kj638nt/8
title: Supplementary Document 1

description: Supplementary Document 1. Detailed results on fish ploidy, genomotype and genome admixture among individuals.
DOI: 10.5061/dryad.kj638nt/9
title: Beta-actin PQ sperm

description: Beta-actin PQ sperm. β-actin sequence and chromatogram of the sperm sample collected from the PQ male.
DOI: 10.5061/dryad.m5b784h/1
title: Repository data Butterfly_Yack

description: These data files include measurements taken from hearing organs of Cercyonis pegala butterflies. There are two file types: excel spreadsheets as well as .svd files that include morphology and laser vibrometry measurements that are included in the figures of the manuscript. Laser vibrometer software to view the .svd files can be found at: https://www.polytec.com/eu/vibrometry/products/software/scanviewer/
DOI: 10.5061/dryad.m715hp3/1
title: Raw Behavior Data from CurrierNagel2018

description: .mat files, by experiment, containing the raw behavioral data from CurrierNagel2018. A readme file also included describes the data organizational scheme.
DOI: 10.5061/dryad.ms7q2q4/9
title: Supplementary Table 1

description: Supplementary Table 1
DOI: 10.5061/dryad.n0v6d91/1
title: Results of blast and gene expression analysis

description: Escel sheet with the results of the blast search and gene expression analysis for each of the three factors tested (Behaviour, age, fertility)
DOI: 10.5061/dryad.n0v6d91/2
title: Transcriptome

description: Fasta file with all contig sequences
DOI: 10.5061/dryad.n0v6d91/3
title: Permutation results

description: Result files of the 1000 permutations of the reduced sample size GLM
DOI: 10.5061/dryad.n7nm0g4/1
title: parasite_and_physiological_data

description: see README file
DOI: 10.5061/dryad.p763611/1
title: DensityClasses 29072018

description: All data
DOI: 10.5061/dryad.rq9453m/1
title: Altwegg_Nichols_Occupancy_Models_for_Citizen_Science_Literature_Review

description: Results of a systematic literature search carried out on Web of Science on 29 September 2017. We searched for the keywords `"atlas" and "occupancy" ', `"citizen scien*" and "occupancy model*"', and `"breeding bird survey" and "occupancy model"'. We retained only publications that used data from a citizen science programme on birds and that had used occupancy models that accounted for the observation process.
DOI: 10.5061/dryad.st463/1
title: WisAsp_CommunityGenetics_TreeTraitInsectCommunity

description: These data are from the Wisconsin Aspen "WisAsp" (Populus tremuloides) common garden from 2014-5. WisAsp contains a population of 328 replicated aspen genets. Each tree was surveyed for ecologically-relevant tree traits (growth, size, morphology, bud phenology, phytochemistry, extra floral nectaries) and insect communities (herbivorous insects and ants).
DOI: 10.5061/dryad.t351v0b/1
title: Data used for the spatio-temporal analysis of the climatic debt observed in understory plant communities

description: Details about the variables' computation and definition are provided in Bertrand 2018 and Bertrand et al. 2016. References: Bertrand, R.et al. (2016) Ecological constraints increase the climatic debt in forests. Nature communications 7: 12643. Bertrand, R. (2018) Unequal contributions of species’ persistence and migration on plant communities’ response to climate warming throughout forests. Ecography. Accepted Author Manuscript.
DOI: 10.5061/dryad.tj1p3.2
title: Data from: Phylogenomic mining of the mints reveals multiple mechanisms contributing to the evolution of chemical diversity in Lamiaceae
DOI: 10.5061/dryad.tj1p3.2/1.2
title: Ancestral state reconstructions.zip

description: Ancestral state reconstructions of iridoids, monoterpenes, and sesquiterpenes across all 52 Lamiales species (Zipped folder).
DOI: 10.5061/dryad.tj1p3.2/11.2
title: dryad_files_master_readme_v2.rtf

description: Readme
DOI: 10.5061/dryad.tj1p3.2/2.2
title: Expression abundances and functional annotataion of all 52 Lamiales species.zip

description: This folder contains expression abundance and functional annotation of all representative transcripts (the longest isoforms) of 52 Lamiales species (48 Lamiaceae species plus 4 outgroup species) (Zipped folder).
DOI: 10.5061/dryad.tj1p3.2/3.2
title: GC-MS chromatograms of 52 Lamiales species.pdf

description: GC-MS data from all 52 species (PDF file).
DOI: 10.5061/dryad.tj1p3.2/9.2
title: Consortium_Members

description: List of Mint Evolutionary Genomics Consortium members and institutional affiliations.
DOI: 10.5061/dryad.vf46853/1
title: Data_Nagel_etal2018PlaBio

description: File contains data both on molecular markers (AFLP) and phenotypic data. All information is in README file.
DOI: 10.5061/dryad.08dn485/1
title: SlateBiocrustEmergenceField_11_29_2018

description: Field data on seedling emergence
DOI: 10.5061/dryad.08dn485/2
title: SlateBiocrustEstablishment_11_29_2018

description: Field data on seedling establishment
DOI: 10.5061/dryad.08dn485/3
title: SlateBioccrustGH_11_29_2018

description: Germination data from greenhouse study
DOI: 10.5061/dryad.155kb26/1
title: IBC-grass

description: Simulated datasets and their corresponding analyses (deriving the paper's graphs) from IBC-grass. Please note that the file paths in each script must be set, pointing to both the Util.R script (some utility functions each analysis script uses) as well as to the .Rda data files themselves.
DOI: 10.5061/dryad.1v1g1b0/1
title: Martin_SourceData
DOI: 10.5061/dryad.23bd3ds/1
title: Data analysis pipeline configuration files and cleaned dataset
DOI: 10.5061/dryad.2hb2br7/1
title: Simon2018_Evolution_Letters

description: Datasets and code used to produce figures of the paper. The README file details the organization of the folders.
DOI: 10.5061/dryad.2v4m067/2
title: Appendix B

description: Species names, genebank accession number and genes used to construct the hummingbird phylogeny used in this study.
DOI: 10.5061/dryad.4ng70/10
title: S3 Table

description: This files contains the results of the Classification functions of the stepwise discriminant analysis performed on species A, B, C, and D
DOI: 10.5061/dryad.4ng70/11
title: S4 Table

description: This file contains the results of the Classification functions of the stepwise discriminant analysis performed on species B, C, and D
DOI: 10.5061/dryad.4ng70/12
title: S1 text

description: This file contains Records of Brachionus calyciflorus with notes on the name used.
DOI: 10.5061/dryad.4ng70/8
title: S1 Table

description: This file contains the results of the Redundancy analysis (RDA) showing the amount of morphometric variation explained by species identity for each pair of the investigated species
DOI: 10.5061/dryad.4ng70/9
title: S2 Table

description: This file contains the summary statistics for the selection of morphometric traits measured on individuals of the four species
DOI: 10.5061/dryad.614j89q/2
title: Capacitance analysis-bilayer device

description: the original capacitance data of  bilayer (ParyleneC+AFX) device
DOI: 10.5061/dryad.614j89q/3
title: Capacitance analysis-single AFX device

description: The original capacitance data of single AFX device
DOI: 10.5061/dryad.614j89q/4
title: Leakage current-bilayer device

description: The original measured current of bilayer (ParyleneC+AFX) device
DOI: 10.5061/dryad.614j89q/5
title: Leakage current-single AFX device

description: The original measured current of single AFX device
DOI: 10.5061/dryad.614j89q/6
title: response uniformity

description: The slope obtained by linearly fitting for the comparison of response uniformity over aging time.
DOI: 10.5061/dryad.614j89q/7
title: thickness design

description: The electric field of different layer vs dielectric thickness. The theoretical breakdown strength of ParyleneC and AFX are also shown.
DOI: 10.5061/dryad.614j89q/8
title: the saturation voltage test

description: explore the saturation voltage of different dielectric configuration
DOI: 10.5061/dryad.615q1k0/1
title: BCI tree species input data

description: Data for 33 focal tree species on Barro Colorado Island on the proportions of trees with different liana cover levels, the estimated per capita population growth rates under different liana cover levels, and shade-tolerance indices.  These data are an input file for the R code "bcispeciescalcs.r"
DOI: 10.5061/dryad.615q1k0/2
title: R code to calculate species-level liana-tree interaction statistics

description: Requires species-level data on the proportions of trees in different liana cover classes, and the estimated per capita population growth rates for different liana cover classes (file BCIspeciesinputdata.csv) and data on bootstrapped sets of estimated per capita population growth rates ("BootstrappedLambdas.csv")
DOI: 10.5061/dryad.615q1k0/3
title: R code for conducting statistical tests presented in article

description: This code calculates correlation  coefficients related to figures 3, 4, 5, S3, and S5, as well as the analyses for figure S2, figure S4 and, Table S2.  It requires as input the species-level liana interaction statistics file "treespstatsrelianas.csv" and the bootstrapped iterations of the key statistics "bootstraplianastats.rds" that are the output of running "bci_speciescalcs.r".  See comments in the code for additional information.
DOI: 10.5061/dryad.615q1k0/4
title: Bootstrapped per capita population growth rates of BCI tree species

description: These are sets of bootstrapped eigenvalues generated by Visser et al. 2018 J. Ecology 106:781-794.  Each row is one bootstrapped iteration.  Column names denote the liana cover (l0 is liana cover 0, l1 is liana cover class 1, etc.) combined with the 6-letter species code.  Note the eigenvalues are correlated across species and liana covers.  These data are required by the R code "bci_speciescalcs.r"
DOI: 10.5061/dryad.64797qm/1
title: Collated_dataset_Quirk_et_al_2018_functional_ecology_JQ
DOI: 10.5061/dryad.7278k2n/1
title: Salamander Data

description: Salamander Count Data used in: Price, Freytag, Bonner, Drayer, Muncy, Hutton and Barton (2018) Mountaintop removal mining alters stream salamander population dynamics. Diversity and Distributions 24:1242-1251
DOI: 10.5061/dryad.7278k2n/2
title: price_et_al_2018

description: The following code prepares the data and automates generation of diffuse initial values for monitoring convergence of the MCMC sampling algorithm.  JAGS/BUGS code defining the model is contained in: price_et_al_2018_jags.R.
DOI: 10.5061/dryad.7278k2n/3
title: price_et_al_2018_jags

description: This file is the JAGS/BUGS code defining the model in:
Price, Freytag, Bonner, Drayer, Muncy, Hutton and Barton (2018) Mountaintop removal mining alters stream salamander population dynamics. Diversity  and Distributions 24:1242-1251.
DOI: 10.5061/dryad.86088n1/1
title: Supplementary_Data_Noori

description: Downloadable version of syphad database
DOI: 10.5061/dryad.9kv23s3/1
title: Bernhardt-2018-nitrate-final

description: Nitrate concentrations (in uM) remaining in the water at carrying capacity in experimental populations Tetraselmis tetrahele grown over a temperature gradient.