cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3562866.v1
title: Supplement 1. Coefficients of density dependence and climate effects of per-seedling recruitment from neighboring tree densities and neighboring tree basal areas, and species abundance defined as the average sapling and tree basal areas across all plots.

description: File List coef_tree_density.csv (MD5: 6a9069df92fc2d3ddf8218be6d12225d) coef_tree_ba.csv (MD5: 27b58a0bcba4c9f86b099a65b2ded123) spp_abund.csv (MD5: 32535d875f915a9485afba20c558afb1) Description coef_tree_density.csv Coefficients of density dependence and climate effects of per-seedling recruitment from neighboring tree densities, summarized as posterior mean and 95% credible interval. <br> coef_tree_ba.csv Coefficients of density dependence and climate effects of per-seedling recruitment from neighboring tree basal areas, summarized as posterior mean and 95% credible interval. <br> spp_abund.csv Species abundance defined as the average sapling and tree basal areas (m²/ha) across all plots.
DOI: 10.6084/m9.figshare.3562863
title: Data Paper. Data Paper

description: File List corners.csv (MD5: 00b9af230a2cd73315d473083f6e7647) soils.csv (MD5: d4deb84fa3a2300097efc07a7a42700c) standards.csv (MD5: bdeb50c58864228f02b06be2971d11dc) afproj-master.zip (MD5: 30f8248abbe2851dd2b5763933ca6165) Description At plot scales (&lt;1 km²) used to study tropical forest plant communities the causes of spatial heterogeneity of soils are disputed. We collected, georeferenced, and chemically analyzed a large spatial sample of soil cores (<i>n</i> = 625 sites, 6.25 cm diameter × 10 cm depth cores) on an approximately 28 m regular grid from the Barro Colorado Island (BCI) 50-ha (0.5 km²) forest dynamics plot (FDP), Republic of Panama (9.15° N, 79.8° W). Here we present these data for general use. We also present differential GPS measurements of the plot corners for the BCI 50-ha FDP, which aid in geospatial research in one of the most studied tropical forests. Further, we present a free open source command line software program written in Python that allows point data referenced to the plot coordinate system to be converted to a projected coordinate reference system for geospatial research. Together, the data sets allow for testing the drivers of soil heterogeneity in a tropical tree community using a wide variety of geospatial data sources. <i>Key words</i>: <i>Barro Colorado Island; biodiversity; biogeochemistry; Geographic Information Systems; nutrients; remote sensing; spatial projection; soil. </i>
DOI: 10.6084/m9.figshare.3562860
title: Data Paper. Data Paper

description: File List FishMed.zip (MD5: e8b4e12226b84d0ee124c49b6cbf091d)<br>(all files at once) Presence_absence_data.zip (MD5: ba7feb1eb5b97f2fb4633bd7e0ad4443) Functional_data.zip (MD5: 9c4eab5d8c2d1e218ca55b09d800fb03) Phylogenetic_data.zip (MD5: 5d3518e5d29a6db9057ada7e991cc393) Climate_data.zip (MD5: 182b15240736d01457b34f80f135a10b) Description The FishMed database provides traits, phylogeny, current and projected species distribution of Mediterranean fishes, and associated SST from the regional oceanic model NEMOMED8. Data for the current geographical distributions of 635 Mediterranean fish species were compiled from a published expert knowledge atlas of fishes of the northern Atlantic and the Mediterranean (FNAM) edited between 1984 and 1986 and from an updated exotic fish species list. Two future sets of projected species distributions were obtained for the middle and end of the 21st century by using an ensemble forecasting approach for 288 coastal Mediterranean fish species based on SST according to the IPPC/SRES A2 scenario implemented with the Mediterranean climatic model NEMOMED8. The functional part of the database encompasses 12 biological and ecological traits (maximal and common lengths, vertical distribution, habitat, migration type, mode of reproduction, sex shift, semelparity, diet type (larvae and adults), social behavior, species origin and depth) for the 635 fish species. To build the phylogeny we inferred the timing and geographic origins of Mediterranean teleost species diversity using nucleotide sequences collected from GenBank including 62% of Mediterranean teleost species plus nine outgroups. Maximum likelihood Bayesian phylogenetic and dating analyses were calibrated using 20 fossil species. An additional 124 fish species were grafted onto the chronogram according to their taxonomic affinity to obtain a phylogenetic tree including 498 species. Finally we also present the associated SST data for the observed period (1961–1980) and for the middle (2040–2059) and the end of the 21st century (2080–2099) obtained from NEMOMED8 according to the IPCC A2 scenario. The FishMed database might be of interest in the context of global anthropogenic changes as coastal Mediterranean ecosystems are currently recognized as one of the most impacted ecosystems on earth. <i>Key words</i>: <i>climate change; coastal fishes; functional diversity; Mediterranean fish species; Mediterranean Sea; NEMOMED8, species distribution models; phylogenetic diversity; taxonomic diversity.</i>
DOI: 10.6084/m9.figshare.3562857
title: Data Paper. Data Paper

description: File List NutrientTraits.zip (MD5: a65e300844868266cb224be40443174e) Table1.csv (MD5: 5028869fa21cba2757c9b93bb6c4cd17) Table2.csv (MD5: 0f3dfa04fb46fa6bd69e146f4c636c3a) Table3.csv (MD5: e2913589bfda17bb35fb85fb612b68dc) Description This paper presents a compilation of nutrient utilization traits of marine and freshwater phytoplankton. The literature was comprehensively searched for culture experiments using nitrate, ammonium, or phosphate as the limiting nutrient. The following traits were extracted: the response of growth to nutrient supply (maximum growth rate under unlimited nutrient supply and the nutrient concentration at which growth is half-saturated); the response of internal nutrient content to nutrient supply (the minimum subsistence quota at which growth ceases and the maximum nutrient quota under unlimited nutrient supply); and nutrient uptake kinetics for nutrient-limited cells (maximum uptake rate and the nutrient concentration at which uptake is half-saturated). The resulting data set includes 1319 measurements on 129 species from 138 publications. Potential uses of these data include studies of community structure and trait evolution, parameterization of ecosystem models, and biofuel development. <i>Key words</i>: <i>algae; allometry; competition; Droop; Monod; nitrogen; phosphorus; physiology; stoichiometry; uptake kinetics. </i>
DOI: 10.6084/m9.figshare.3562854
title: Appendix A. Between-group analysis describing the structure of bacterial communities for all the studied plant species.

description: Between-group analysis describing the structure of bacterial communities for all the studied plant species.
DOI: 10.6084/m9.figshare.3562854.v1
title: Appendix A. Between-group analysis describing the structure of bacterial communities for all the studied plant species.

description: Between-group analysis describing the structure of bacterial communities for all the studied plant species.
DOI: 10.6084/m9.figshare.3562851
title: Appendix A. Tables showing ANOVA with a priori linear contrasts, spatial autocorrelation for dependent and independent variables in a field plant–soil feedback experiment, standardized regression coefficients and AIC scores from reduced mixed effect models and simultaneous autoregressive error models, and mean and standard error of plant growth metrics from a greenhouse plant–soil feedback experiment; and figures showing the experimental design of greenhouse plant–soil feedback experiment,...

description: Tables showing ANOVA with a priori linear contrasts, spatial autocorrelation for dependent and independent variables in a field plant–soil feedback experiment, standardized regression coefficients and AIC scores from reduced mixed effect models and simultaneous autoregressive error models, and mean and standard error of plant growth metrics from a greenhouse plant–soil feedback experiment; and figures showing the experimental design of greenhouse plant–soil feedback experiment, feedback calculations for three nonnative shrubs in home and sterile soils, and plots of the first two principal component axes used to describe variation among field plots in a field plant–soil feedback experiment.
DOI: 10.6084/m9.figshare.3562851.v1
title: Appendix A. Tables showing ANOVA with a priori linear contrasts, spatial autocorrelation for dependent and independent variables in a field plant–soil feedback experiment, standardized regression coefficients and AIC scores from reduced mixed effect models and simultaneous autoregressive error models, and mean and standard error of plant growth metrics from a greenhouse plant–soil feedback experiment; and figures showing the experimental design of greenhouse plant–soil feedback experiment,...

description: Tables showing ANOVA with a priori linear contrasts, spatial autocorrelation for dependent and independent variables in a field plant–soil feedback experiment, standardized regression coefficients and AIC scores from reduced mixed effect models and simultaneous autoregressive error models, and mean and standard error of plant growth metrics from a greenhouse plant–soil feedback experiment; and figures showing the experimental design of greenhouse plant–soil feedback experiment, feedback calculations for three nonnative shrubs in home and sterile soils, and plots of the first two principal component axes used to describe variation among field plots in a field plant–soil feedback experiment.
DOI: 10.6084/m9.figshare.3562848
title: Appendix A. Photo of study plant.

description: Photo of study plant.
DOI: 10.6084/m9.figshare.3562848.v1
title: Appendix A. Photo of study plant.

description: Photo of study plant.
DOI: 10.6084/m9.figshare.3562845
title: Appendix B. Estimates of selection coefficients.

description: Estimates of selection coefficients.
DOI: 10.6084/m9.figshare.3562845.v1
title: Appendix B. Estimates of selection coefficients.

description: Estimates of selection coefficients.
DOI: 10.6084/m9.figshare.3562842
title: Appendix A. Supplementary results, including carbon pool sizes with respect to invasion and land use, supported models for explaining the differences in carbon pools, specific enzyme activities and litter mass, and interaction plots for total soil organic carbon.

description: Supplementary results, including carbon pool sizes with respect to invasion and land use, supported models for explaining the differences in carbon pools, specific enzyme activities and litter mass, and interaction plots for total soil organic carbon.
DOI: 10.5281/zenodo.4014055
title: Data sets for: Diverse slip behavior of the Banyak Islands sub-segment of the Sunda megathrust in Sumatra, Indonesia

description: Data sets include: DatasetS1, coral measurements taken within the Banyak Islands from 2005 to 2010 DatasetS2, the slip distribution for the 2010 <em>M<sub>W</sub></em> 7.8 Banyak Islands earthquake
DOI: 10.6084/m9.figshare.3562842.v1
title: Appendix A. Supplementary results, including carbon pool sizes with respect to invasion and land use, supported models for explaining the differences in carbon pools, specific enzyme activities and litter mass, and interaction plots for total soil organic carbon.

description: Supplementary results, including carbon pool sizes with respect to invasion and land use, supported models for explaining the differences in carbon pools, specific enzyme activities and litter mass, and interaction plots for total soil organic carbon.
DOI: 10.5281/zenodo.4014054
title: Data sets for: Diverse slip behavior of the Banyak Islands sub-segment of the Sunda megathrust in Sumatra, Indonesia

description: Data sets include: DatasetS1, coral measurements taken within the Banyak Islands from 2005 to 2010 DatasetS2, the slip distribution for the 2010 <em>M<sub>W</sub></em> 7.8 Banyak Islands earthquake
DOI: 10.6084/m9.figshare.3562839
title: Appendix A. Supplemental data set description, methods, and coefficient estimates for phytoplankton presence / absence and biovolume models.

description: Supplemental data set description, methods, and coefficient estimates for phytoplankton presence / absence and biovolume models.
DOI: 10.6084/m9.figshare.3562839.v1
title: Appendix A. Supplemental data set description, methods, and coefficient estimates for phytoplankton presence / absence and biovolume models.

description: Supplemental data set description, methods, and coefficient estimates for phytoplankton presence / absence and biovolume models.
DOI: 10.6084/m9.figshare.3562836
title: Appendix A. Effects of spatially variable LEP values.

description: Effects of spatially variable LEP values.
DOI: 10.6084/m9.figshare.3562836.v1
title: Appendix A. Effects of spatially variable LEP values.

description: Effects of spatially variable LEP values.
DOI: 10.6084/m9.figshare.3562833
title: Appendix B. Proof of Eqs. A1.

description: Proof of Eqs. A1.
DOI: 10.6084/m9.figshare.3562830
title: Appendix C. SR, LR, and RLR calculated from empirical data.

description: SR, LR, and RLR calculated from empirical data.
DOI: 10.6084/m9.figshare.3562830.v1
title: Appendix C. SR, LR, and RLR calculated from empirical data.

description: SR, LR, and RLR calculated from empirical data.
DOI: 10.6084/m9.figshare.3562827
title: Appendix D. Effect of number of patches on correlation.

description: Effect of number of patches on correlation.
DOI: 10.6084/m9.figshare.3562827.v1
title: Appendix D. Effect of number of patches on correlation.

description: Effect of number of patches on correlation.
DOI: 10.6084/m9.figshare.3562824
title: Appendix A. Additional path model results, including weight of support for each of the models tested, model performance when specific parameters were removed from path models, selected single-year model path coefficients, and unstandardized path coefficients for overall models.

description: Additional path model results, including weight of support for each of the models tested, model performance when specific parameters were removed from path models, selected single-year model path coefficients, and unstandardized path coefficients for overall models.
DOI: 10.6084/m9.figshare.3562824.v1
title: Appendix A. Additional path model results, including weight of support for each of the models tested, model performance when specific parameters were removed from path models, selected single-year model path coefficients, and unstandardized path coefficients for overall models.

description: Additional path model results, including weight of support for each of the models tested, model performance when specific parameters were removed from path models, selected single-year model path coefficients, and unstandardized path coefficients for overall models.
DOI: 10.6084/m9.figshare.3562821
title: Appendix B. Supplementary results: Shredder biomass in maple and rhododendron litter bags during PRE, YR1, and YR2 as a function of litter C:N and C:P.

description: Supplementary results: Shredder biomass in maple and rhododendron litter bags during PRE, YR1, and YR2 as a function of litter C:N and C:P.
DOI: 10.6084/m9.figshare.3562821.v1
title: Appendix B. Supplementary results: Shredder biomass in maple and rhododendron litter bags during PRE, YR1, and YR2 as a function of litter C:N and C:P.

description: Supplementary results: Shredder biomass in maple and rhododendron litter bags during PRE, YR1, and YR2 as a function of litter C:N and C:P.
DOI: 10.6084/m9.figshare.3562818
title: Appendix A. Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape.

description: Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape.
DOI: 10.6084/m9.figshare.3562818.v1
title: Appendix A. Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape.

description: Map of the Cabanis’s greenbul study area showing the location of the four forest fragments NG, FU, ND, and CH (dark gray) and the composition of the intervening landscape.
DOI: 10.6084/m9.figshare.3562815
title: Appendix B. Map of the natterjack toad study area located in southern Belgium.

description: Map of the natterjack toad study area located in southern Belgium.
DOI: 10.6084/m9.figshare.3562815.v1
title: Appendix B. Map of the natterjack toad study area located in southern Belgium.

description: Map of the natterjack toad study area located in southern Belgium.
DOI: 10.6084/m9.figshare.3562812
title: Appendix C. Parameters of SMS runs performed to estimate connectivity for the Cabanis’s greenbul and the natterjack toad.

description: Parameters of SMS runs performed to estimate connectivity for the Cabanis’s greenbul and the natterjack toad.
DOI: 10.6084/m9.figshare.3562809
title: Appendix D. Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul.

description: Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul.
DOI: 10.6084/m9.figshare.3562809.v1
title: Appendix D. Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul.

description: Genotyping procedure and genotypic data quality assessment for the Cabanis’s greenbul.
DOI: 10.6084/m9.figshare.3562806
title: Appendix E. Map-based comparison between methods for the natterjack toad.

description: Map-based comparison between methods for the natterjack toad.
DOI: 10.6084/m9.figshare.3562806.v1
title: Appendix E. Map-based comparison between methods for the natterjack toad.

description: Map-based comparison between methods for the natterjack toad.
DOI: 10.6084/m9.figshare.3562803
title: Appendix F. Connectivity estimates between Cabanis’s greenbul populations.

description: Connectivity estimates between Cabanis’s greenbul populations.
DOI: 10.6084/m9.figshare.3562800
title: Appendix G. Connectivity estimates between toad populations.

description: Connectivity estimates between toad populations.
DOI: 10.6084/m9.figshare.3562803.v1
title: Appendix F. Connectivity estimates between Cabanis’s greenbul populations.

description: Connectivity estimates between Cabanis’s greenbul populations.
DOI: 10.6084/m9.figshare.3562800.v1
title: Appendix G. Connectivity estimates between toad populations.

description: Connectivity estimates between toad populations.
DOI: 10.6084/m9.figshare.3562797
title: Appendix H. Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10.

description: Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10.
DOI: 10.6084/m9.figshare.3562797.v1
title: Appendix H. Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10.

description: Effect of varying the SMS perceptual range (PR) parameter on the Mantel correlation of the estimated numbers of migrant natterjack toads between sites per generation from the migrate model with estimated connectivity between sites predicted by SMS (red diamonds) using the cost landscape gridded at 3-m resolution and a directional persistence of 10.
DOI: 10.6084/m9.figshare.3562794
title: Supplement 1. SMS model used to estimate connectivity for Cabanis’s greenbul Phyllastrephus cabanisi.

description: File List SMS3batch.exe (MD5: c295324f0981eac0cca3be4b0810cecd) Animal.cpp (MD5: 4f27e01e983f1b22506518b1a2e7feec) Animal.h (MD5: 7f4d556f3dcd40a3ec982f399ec081a6) Landscape.cpp (MD5: 477ce25efdd9a7e4bd2be34523bea6e1) Landscape.h (MD5: 641908f1099cc73ac189d2b30334bdf6) Main.cpp (MD5: 690c6b942cb13b17547245ea87549004) MoveInd.cpp (MD5: a08570948bff947825e5696df3bcc62d) MoveInd.h (MD5: a08570948bff947825e5696df3bcc62d) Parameters.cpp (MD5: ac9f7306c34420f1fd8baa58dbe8895d) Parameters.h (MD5: 4d74fec25dc290e24ff11e9f083cdc28) control.txt (MD5: 6d9b5093aa04f59ad2cf1069f7badc91) parameters.txt (MD5: 8628fd5998011755db2a829899c88d4a) Description -- TABLE: Please see in attached file. -- Note: The compiled program uses random number generators distributed by Agner Fog, the code for which may be obtained from http://www.agner.org/random/
DOI: 10.6084/m9.figshare.3562791
title: Supplement 2. SMS model used to estimate connectivity for the natterjack toad Epidalea calamita.

description: File List ToadBatch04.exe (MD5: 17e01d0956e0880e87ef5b6ca3e473d7) Animal.cpp (MD5: afea5a9f39adfc5764e881c08eeed9b0) Animal.h (MD5: 4d70ca44f142d4e3e91e3618e6e1c298) Landscape.cpp (MD5: eb7133c1d5a9c057abfdd2abf48c7b04) Landscape.h (MD5: 2822da8eed0bd8bc0cde4273466aa255) Main.cpp (MD5: 904510eca61fbfe1c5026a027bf7f4cd) MoveInd.cpp (MD5: 580fc720826812645d0554ec02cfc3cd) MoveInd.h (MD5: fdd9985a8a4828b0b182a965a5b75f50) Parameters.cpp (MD5: ac9f7306c34420f1fd8baa58dbe8895d) Parameters.h (MD5: fea75e7ecc681373321b9c22719218d7) Toadscape.cpp (MD5: 0775b97bb9a126985a1eba74611479f5) Toadscape.h (MD5: dfba7b9c1af3fd0e1211c348a62082d4) control.txt (MD5: 8acb69a8d97b5d846a9ea29df151ea49) parameters.txt (MD5: 446194a6aa277003091860258a555f33) Description -- TABLE: Please see in attached file. -- Note: The compiled program uses random number generators distributed by Agner Fog, the code for which may be obtained from http://www.agner.org/random/
DOI: 10.6084/m9.figshare.3562788
title: Supplement 3. SAS macro to perform a Mantel test for correlation between two connectivity matrices.

description: File List MantelTest.sas (MD5: 3493231a0972b56d432ab7764ea07687) MantelExample.sas (MD5: 784a52d824998e53a6a050cdcfaf44a6) MantelExample4.csv (MD5: 55e54e31cd86e558e092ece7dfa9afb1) Description -- TABLE: Please see in attached file. --
DOI: 10.6084/m9.figshare.3562788.v1
title: Supplement 3. SAS macro to perform a Mantel test for correlation between two connectivity matrices.

description: File List MantelTest.sas (MD5: 3493231a0972b56d432ab7764ea07687) MantelExample.sas (MD5: 784a52d824998e53a6a050cdcfaf44a6) MantelExample4.csv (MD5: 55e54e31cd86e558e092ece7dfa9afb1) Description -- TABLE: Please see in attached file. --
DOI: 10.6084/m9.figshare.3562785
title: Appendix A. Details on the structure of statistical models used in the analyses and three figures showing predation on tadpoles and/or metamorphs after our second census, the relationship between density of tadpoles in mesocosms and resulting SVL of metamorphs, and the predator-induced variation in developmental stages of metamorphs at emergence from the water.

description: Details on the structure of statistical models used in the analyses and three figures showing predation on tadpoles and/or metamorphs after our second census, the relationship between density of tadpoles in mesocosms and resulting SVL of metamorphs, and the predator-induced variation in developmental stages of metamorphs at emergence from the water.