cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.5061/dryad.1br13/35
title: Suppl. Append. 10

description: Geiger statistics for phylogenetic signal (λ), trait evolution at speciation (κ), and rate increase over time (δ). Significance of model fit with the addition of λ, κ, and δ parameters against the null model is assessed as follows: N.S., not significant; *, P&lt;0.01; **, P&lt;0.001. Corolla gibbosity is abbreviated "gibb." and epiphytism is abbreviated "epi."
DOI: 10.5061/dryad.1br13/36
title: Suppl. Append. 11

description: BiSSE model testing. Results for epiphytism in (A) Gesneriaceae, (B) Gesnerioideae, (C) Didymocarpoideae; ornithophily in (D) Gesneriaceae, (E) Gesnerioideae, (F) Didymocarpoideae; unifoliate growth in (G) Didymocarpoideae. Gray boxes denote the best fitting model. Significance of constrained models versus unconstrained (full) model is assessed as follows: N.S., P&gt;0.1; *, P&lt;0.1; **, P&lt;0.05; ***, P&lt;0.001. Rate categories: λ, speciation; μ, extinction; q, transition rate. In all cases, estimated rates for the characters of interest are indicated by λ1 and μ1, respectively. Abbreviations: Df = degrees of freedom; lnLik = log-likelihood; AIC = Akaike Information Criterion; AICc = Akaike Information Criterion, corrected; ΔAICc = change in AICc; AICw = Akaike weights; LRT = likelihood ratio test; BIC = Bayesian Information Criterion; ΔBIC = change in BIC.
DOI: 10.5061/dryad.1br13/37
title: Suppl. Figure 1

description: Gesneriaceae phylogenetic hypothesis. Numbers above branches refer to (A) aLRT and (B) ML bootstrap percentages, respectively. (C) ML phylogram with branch lengths.
DOI: 10.5061/dryad.1br13/38
title: Suppl. Figure 2

description: Calibrated Gesneriaceae phylogenetic hypothesis. Bars on branches reflect the 95% confidence interval on the time estimate. Circled numbers at nodes indicate fossil, geologic, and secondary calibration points, respectively.
DOI: 10.5061/dryad.1br13/39
title: Suppl. Figure 3

description: Historical biogeographical hypothesis for Gesneriaceae using the best-fit model BAYAREALIKE+s+J. Geographic areas: A, Temperate and Tropical Andes; B = Amazon and Atlantic Brazil; C = Central America and West Indies; E = Europe; F = Africa and Madagascar; I = South Asia; N = East Asia; P = Pacific and Southeast Asia.
DOI: 10.5061/dryad.1br13/40
title: Suppl. Figure 4

description: Historical biogeographic hypothesis for Gesnerioideae using the best-fit model BAYAREALIKE+s+J. Geographic regions: A = Tropical Andes; B = Atlantic Brazil; M = Central America; OW = Old World; T = Temperate Andes; W = West Indies, Z = Amazon and Guyana Highlands.
DOI: 10.5061/dryad.1br13/41
title: Suppl. Figure 5

description: Historical biogeographic hypothesis for Didymocarpoideae using the best-fit model BAYAREALIKE+s+J. Geographic areas: E = Europe; F = Africa and Madagascar; I = South Asia; N = East Asia; NW = New World; P = Pacific and Southeast Asia.
DOI: 10.5061/dryad.1br13/42
title: Suppl. Figure 6

description: Posterior distributions of trait-dependent rates estimated by GeoSSE and area map. A. Geographic areas map showing areas used by GeoSSE comparisons. B. Diversification rate parameters for Africa focal area versus all other areas under the best model (Suppl. Appendix 7A). C. Diversification rate parameters for Andean South America focal area versus all other areas under the best model (Suppl. Appendix 7B). D. Diversification rate parameters for Amazon and Atlantic Brazil focal area versus all other areas under the best model (Suppl. Appendix 7C). E. Diversification rate parameters for Central America and West Indies focal area versus all other areas under the best model (Suppl. Appendix 7D). F. Diversification rate parameters for Southeast Asia and the Pacific focal area versus all other areas under the best model (Suppl. Appendix 7E).
DOI: 10.5061/dryad.2k27f/1
title: eBird checklist summaries for six BCR regions
DOI: 10.5061/dryad.38c1g.1
title: Data from: Evolutionary processes driving spatial patterns of intra-specific genetic diversity in river ecosystems
DOI: 10.5061/dryad.4902q/12
title: 12_Aargenteus_Cytb_Clade_I

description: The file is formatted for Arleqin and the sequences represent the clade I of the control region of Apodemus argenteus.
DOI: 10.5061/dryad.4902q/13
title: 14_Aargenteus_Cytb_Clade_Ia-2

description: The file is formatted for Arleqin and the sequences represent clade Ia-2 of the cytochrome b gene of Apodemus argenteus.
DOI: 10.5061/dryad.4902q/14
title: 13_Aargenteus_Cytb_Clade_Ia-1

description: The file is formatted for Arleqin and the sequences represent clade Ia-1 of the cytochrome b gene of Apodemus argenteus.
DOI: 10.5061/dryad.4902q/15
title: 15_Aargenteus_Cytb_Clade_Ia+II

description: The file is formatted for Arleqin and the sequences represent clade Ia and clade II of the cytochrome b gene of Apodemus argenteus.
DOI: 10.5061/dryad.4902q/16
title: 16_Aspeciosus_Cytb_Clade_IIabcd

description: The file is formatted for Arleqin and the sequences represent clade II of the cytochrome b gene of Apodemus speciosus. The sequenc data set was used as an input file for Arlequin.
DOI: 10.5061/dryad.4902q/17
title: 17_Aargenteus_Cytb_I+II

description: The file is formatted for Arleqin and the sequences represent clades I and II of the cytochrome b gene of Apodemus artenteus.
DOI: 10.5061/dryad.4902q/18
title: 18_Aargenteus_Cytb_BEAST_YSuzuki.nex

description: The sequences of the cytochrome b gene of Apodemus artenteus used for the BEAST analysis.
DOI: 10.5061/dryad.4902q/19
title: 19_Aspeciosus_Cytb_BEAST_YSuzuki.nex

description: The sequences of the cytochrome b gene of Apodemus specious used for the BEAST analysis.
DOI: 10.5061/dryad.62v6r/1
title: Characteristics of 425 Norwegian study lakes

description: Morphometric and climatic as well as trout yield data (i.e., grams of brown trout per 100 m2 of survey net per night) from 425 lakes in Norway, Northern Europe. "LakeNumber" refers to individual lake numbering by the Norwegian Water Resources and Energy Directorate (NVE; www.nve.no). Lake morphometry data (area, shoreline development, altitude, coordinates in UTM33) is obtained from NVE database. The lake climatic and catchment data (mean July air temperature, NDVI = Normalized Difference Vegetation Index, and terrain slope) is obtained and measured as described by Finstad et al. (2014; DOI: 10.1111/ele.12201). "Stocking" and "Regulation" refer to presence/absence of brown trout stocking and water level regulation for hydropower, respectively. "GillnetSeries" refer to type of gillnet series used for catching brown trout, whereas "FishRichness" and "FishCommunity" refer to total number of recorded fish species and fish community type present in the lake (see the main article for description of the latter). The remaining binary data indicates presence/absence of different fish species coexisting with brown trout at the time of the survey fishing.
DOI: 10.5061/dryad.667g2/1
title: Localities

description: List of 1627 localities used to generate the Maxent models in "Do ecological niche models accurately identify climatic determinants of species ranges?" Provided data include the longitude and latitude for each locality and bioclimatic variables ('bio1' to 'bio19'), as extracted from the 'WorldClim' database (for definitions see: http://www.worldclim.org/bioclim). Further information about WorldClim at Hijmans, R.J., S.E. Cameron, J.L. Parra, P.G. Jones and A. Jarvis, 2005. Very high resolution interpolated climate surfaces for global land areas. International Journal of Climatology 25: 1965-1978. http://dx.doi.org/10.1002/joc.1276
DOI: 10.5061/dryad.6d52b/1
title: Montpellier-BCC-CSM1.1-Current

description: Downscaled (bias-corrected) daily temperature data  (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Montpellier station France. Current climate scenario.
DOI: 10.5061/dryad.6d52b/2
title: Montpellier-BCC-CSM1.1-RCP4.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Montpellier station France. RCP4.5 climate scenario
DOI: 10.5061/dryad.6d52b/3
title: Montpellier-BCC-CSM1.1-RCP8.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Montpellier station France. RCP8.5 climate scenario.
DOI: 10.5061/dryad.6d52b/4
title: Seville-BCC-CSM1.1-Current

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Seville station Spain. Current climate scenario.
DOI: 10.5061/dryad.6d52b/5
title: Seville-BCC-CSM1.1-RCP4.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Seville station Spain. RCP4.5 climate scenario.
DOI: 10.5061/dryad.7r153/1
title: Data Files_The Friendly Taking Effect
DOI: 10.5061/dryad.925cb/1
title: Hardy_etal_BioLet_2015_comp_data

description: Comparative data used in Hardy et al. 2015. The scale insect data is from ScaleNet (http://scalenet.info).
DOI: 10.5061/dryad.925cb/2
title: Hardy_etal_BioLet_2015_Coccoidea_phylogeny

description: Time-scaled Coccoidea phylogeny in newick format.
DOI: 10.5061/dryad.b6k1k/10
title: README

description: README including a description of the results, dataframes and variables.
DOI: 10.5061/dryad.b6k1k/4
title: Set_MV_TV: Single boosted regression tree (BRT) habitat models for 13 fish species based on measured hydromorphological variables and topological variables

description: Results for single boosted regression tree (BRT) models for 13 fish species, 4 modelled distance classes (0, 200, 2500, 4000 m) and measured hydromorphological data (MV) with topological variables. Model results include a global BRT model (brt.model.global, including all variables) and a final BRT model (brt.model.final, including only statistically relevant variables) for each species. Furthermore, summarizing statistics (brt.stats.final) for each final model (e.g. cross-validated AUC) and associated plots showing the influence of selected selected variables (species_response.pdf) are provided. Models are stored as R objects in the *.rds format and can be loaded with the R command readRDS().
DOI: 10.5061/dryad.b6k1k/5
title: GRASS GIS scripts

description: GRASS GIS scripts for (i) transforming vector based hydromorphological data into GRASS raster format and (ii) calculating distance based average focal predictors for 4 predefined distance classes (0, 200, 2500, 4000 m) using the GRASS rdfilter add-on.
DOI: 10.5061/dryad.b6k1k/6
title: R scripts

description: R scripts for (i) calculating the boosted regression tree models (BRT), (ii) analyzing and plotting the model performance based on AUC and (iii) analyzing and plotting the contribution of single variables.
DOI: 10.5061/dryad.b6k1k/7
title: Model performance (AUC) - dataframe

description: R-dataframe storing the model performance (AUC) of the single models for 13 species, four modelled distance classes, assessed vs. measured variables and with/without topological variables. The dataframe is stored as R object in the *.rds format and can be loaded with the R command readRDS().
DOI: 10.5061/dryad.b6k1k/8
title: Variable contribution - dataframe

description: R-dataframe storing the contribution of single variables for each of the final BRT models. The dataframe is stored as R object in the *.rds format and can be loaded with the R command readRDS().
DOI: 10.5061/dryad.b6k1k/9
title: Variable contribution rank - dataframe

description: R-dataframe storing the importance rank of single variables for each of the final BRT models. The dataframe is stored as R object in the *.rds format and can be loaded with the R command readRDS().
DOI: 10.5061/dryad.f2j8s/1
title: Hermiston 2002 stripe rust disease gradient

description: This file contains the disease gradient data from Hermiston 2002 experiment for stripe rust on wheat. The experiments were reported in [Sackett, K. E., and C. C. Mundt. 2005. Primary disease gradients of wheat stripe rust in large field plots. Phytopathology 95:983–91.] 1st column: distance from the source of infection in feet. 2nd column: distance from the source of infection in meters. 3rd, 4th, 5th columns disease severity (percentage of leaf area infected) measurements in three replicate plots. This disease gradient is plotted in Figure 2(a).
DOI: 10.5061/dryad.f2j8s/2
title: Madras 2002 stripe rust disease gradient

description: This file contains the disease gradient data from Madras experiment for stripe rust on wheat. The experiments were reported in [Sackett, K. E., and C. C. Mundt. 2005. Primary disease gradients of wheat stripe rust in large field plots. Phytopathology 95:983–91.] 1st column: distance from the source of infection in feet. 2nd column: distance from the source of infection in meters. 3rd, 4th, 5th columns disease severity (percentage of leaf area infected) measurements in three replicate plots. This disease gradient is plotted in Figure 2(b).
DOI: 10.5061/dryad.f2j8s/3
title: Dose response dependence for stripe rust controlled by epoxiconazole

description: Dose response dependence for stripe rust controlled by the fungicide epoxiconazole (Opus). The data was reported in the Home Grown Cereal Authority (HGCA) report n. 488 "Fungicide performance on winter wheat" (Ref. Bounds et al 2012 in the manuscript), Figure 15. The first column represents the fungicide dose as a proportion of the full label rate. The second column represents severity of stripe rust as percentage of the total leaf area. The results are averages over the two consecutive seasons, 2008 and 2009. This data is plotted in Fig. 5(a) of the manuscript.
DOI: 10.5061/dryad.f2j8s/4
title: R0 as a function of the field size for exponential dispersal kernel

description: The file represents the basic reproductive number, R0, as a function of the field size for exponential dispersal kernel. 1st column distance [m]; 2nd column R0. Spatial grid 60x60 gridpoints. Plotted as solid curve in Fig. 1 (up to values of d of about 193 m). The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.f2j8s/5
title: R0 as a function of the field size for exponential dispersal kernel, large field sizes and higher spatial resolution

description: The file represents the basic reproductive number, R0, as a function of the field size for exponential dispersal kernel. 1st column distance [m]; 2nd column R0. Spatial grid 150x150 gridpoints. Plotted as solid curve in Fig. 1 (up to values of d of about 193 m). The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.f2j8s/6
title: basic reproductive number, R0, as a function of the field size for modified power law 2 dispersal kernel.

description: The file represents the basic reproductive number, R0, as a function of the field size for exponential dispersal kernel. 1st column distance [m]; 2nd column R0. Spatial grid  120x120 gridpoints (d from 0 m to 100 m) 150x150 gridpoints (d from 110 m to 250 m). Plotted as dashed curve in Fig. 1. The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.h6q11/1
title: MS_Ahrensetal_SupplementFigure1

description: Supplementary Fig. 1. Map of collecting sites (numbers refer to Supplementary Table 1).
DOI: 10.5061/dryad.h6q11/2
title: MS_Ahrensetal_SupplementFigure2

description: Supplementary Fig. 2. Ultrametric tree of the southern African Sericini species showing tip labels for each haplotype, branch support values (aLRT) as well as the principal clades analysed separately.
DOI: 10.5061/dryad.h6q11/3
title: MS_Ahrensetal_SupplementFigure3

description: Supplementary Fig. 3. The fit of the GMYC model to cox1 data of the subclades (A, C, E, G, M, Q, R) and the complete Sericini data set (All). Top panels: LTT plot with GMYC single threshold time. Middle panels: likelihood surface and best solution of the GMYC model. Bottom panels: likelihood-time relationship.
DOI: 10.5061/dryad.h6q11/4
title: MS_Ahrensetal_SupplementFigure4b

description: Supplementary Fig. 4. Match ratio of cumulative GMYC subclade analysis on empirical data (Sericini) in respect to the number of sampled species with alternative accumulation order (from bottom to top and inverse: set 1 and 2) of subclades and respective pLRT values.
DOI: 10.5061/dryad.p15hr/1
title: Nymphalid Eyespot Data

description: This file contains eyespot area (in mm2) for all the species measured for the phylogenetic component of the paper. Area was obtained by taking two perpendicular diameters for each eyespot and taking the area of the calculated elipse.
DOI: 10.5061/dryad.1br13/43
title: Suppl. Figure 7

description: SIMMAP ancestral character estimations of primary flower color changes on the time-calibrated ML phylogeny. Branch colors approximate primary flower color, with gray branches used to denote white flowers.
DOI: 10.5061/dryad.1br13/44
title: Suppl. Figure 8

description: Posterior distributions of trait-dependent rates estimated by BiSSE for the family. Separate New World and Old World plots are presented in Supplemental Fig. 10. A. Diversification rate parameters for epiphytes versus non-epiphytes under the best model (Suppl. Appendix 11A). B. Diversification rate parameters for ornithophilous versus non-ornithophilous under the best model (Suppl. Appendix 11D). C. Diversification rate parameters for unifoliate versus non-unifoliate under the best model (Suppl. Appendix 11G).
DOI: 10.5061/dryad.1br13/45
title: Suppl. Figure 9

description: SIMMAP ancestral character estimations of epiphytism changes on the time-calibrated ML phylogeny. Red branches denote epiphytes, and gray branches denote terrestrial plants.
DOI: 10.5061/dryad.1br13/46
title: Suppl. Figure 10

description: Posterior distributions of trait-dependent rates estimated by BiSSE separately for Gesnerioideae and Didymocarpoideae.
DOI: 10.5061/dryad.4902q/20
title: 20_Aspeciosus_D-loop_Clade_I+II

description: The file is formatted for Arleqin and the sequences represent clades I and II of the control region of Apodemus specious.
DOI: 10.5061/dryad.4902q/21
title: 21_Aspeciosus_D-loop_Total

description: The file is formatted for Arleqin and the sequences represent the whole data set of the control region of Apodemus specious.
DOI: 10.5061/dryad.4902q/22
title: 22_Aspeciosus_Cytb_Clade_I+II

description: The file is formatted for Arleqin and the sequences represent clades I and II of the cytochrome b gene of Apodemus specious.
DOI: 10.5061/dryad.4902q/23
title: 23_Aspeciosus_Cytb_Total

description: The file is formatted for Arleqin and the sequences represent whole data set of the cytochrome b gene of Apodemus specious.
DOI: 10.5061/dryad.4902q/24
title: 24_Aspeciosus_Cytb_Hokkaido

description: The file is formatted for Arleqin and the data represent  the cytochrome b gene sequences of Apodemus specious from Hokkaido.
DOI: 10.5061/dryad.54hr0/1
title: Fish and land cover data

description: This is the subset of data used for the analysis. It includes only the limited species used for the multivariate analysis. The first column is the label that can be used to compare the paired sites for the two time periods.
DOI: 10.5061/dryad.5d3rq/1
title: Land plant taxonomic lookup table

description: This dataset is a stable version (version 1.0.1) of the dataset contained in the taxonlookup R package (see https://github.com/traitecoevo/taxonlookup for the most recent version). It contains a taxonomic reference table for 16,913 genera of land plants along with the number of recognized species in each genus.
DOI: 10.5061/dryad.6d52b/10
title: PopulationDynamicData&Functions

description: Functions used in the population dynamics model and the experimental data used to derive their coefficients
DOI: 10.5061/dryad.6d52b/11
title: ModelOutput

description: Mean temperature and population dynamic model output (generation number, log population size and growth season length) for each climate model, scenario, station and simulated year.
DOI: 10.5061/dryad.6d52b/6
title: Seville-BCC-CSM1.1-RCP8.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Seville station Spain. RCP8.5 climate scenario.
DOI: 10.5061/dryad.6d52b/7
title: BeitJamal-BCC-CSM1.1-Current

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Beit-Jamal station Israel. Current climate scenario.
DOI: 10.5061/dryad.6d52b/8
title: BeitJamal-BCC-CSM1.1-RCP4.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Beit-Jamal station Israel. RCP4.5 climate scenario.
DOI: 10.5061/dryad.6d52b/9
title: BeitJamal-BCC-CSM1.1-RCP8.5

description: Downscaled (bias-corrected) daily temperature data (150 simulations for 10 years) based on the BCC-CSM1.1 CMIP5 model. Beit-Jamal station Israel. RCP8.5 climate scenario.
DOI: 10.5061/dryad.7g60t/1
title: Overviewdata 4 DRYAD

description: Raw data on life history and physiology evolution of T. urticae in response to the 3 metapopulation treatments.
DOI: 10.5061/dryad.b973n/1
title: Sample list for all included populations
DOI: 10.5061/dryad.b973n/2
title: Microsatellite data
DOI: 10.5061/dryad.b973n/3
title: Anonymous nuclear sequence alignment SA11
DOI: 10.5061/dryad.b973n/4
title: Anonymous nuclear sequence alignment SA24
DOI: 10.5061/dryad.b973n/5
title: Alignment of Macaronesian COI sequences
DOI: 10.5061/dryad.f2j8s/10
title: R0, as a function of the field aspect ratio for 4 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment.

description: The file represents the basic reproductive number, R0, as a function of the field aspect ratio for 4 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment. 1st column field aspect ratio; 2nd column R0. Spatial grid 150x150 gridpoints. Plotted as points on the solid yellow curve in Fig.4(a). The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.f2j8s/11
title: R0 as a function of the field aspect ratio for 1 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment.

description: The file represents the basic reproductive number, R0, as a function of the field aspect ratio for 1 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment. 1st column field aspect ratio; 2nd column R0. Spatial grid 150x150 gridpoints. Plotted as points on the dashed blue curve in Fig.4(a). The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.f2j8s/12
title: R0 as a function of the field aspect ratio for 0.2 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment.

description: The file represents the basic reproductive number, R0, as a function of the field aspect ratio for 0.2 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment. 1st column field aspect ratio; 2nd column R0. Spatial grid 150x150 gridpoints. Plotted as points on the dash-dotted red curve in Fig.4(a). The data was generated by numerical solution of Eq. (6) in the manuscript.
DOI: 10.5061/dryad.f2j8s/13
title: R0 as a function of the field aspect ratio for 0.2 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment.

description: The file represents the basic reproductive number, R0, as a function of the field aspect ratio for 0.2 ha field area, power law 2 dispersal kernel, parameters for Hermiston 2002 experiment. 1st column field aspect ratio; 2nd column R0. Spatial grid 150x150 gridpoints. Plotted as points on the dotted orange curve in Fig.4(a). The data was generated by numerical solution of Eq. (6) in the manuscript.