cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3568305
title: Supplement 1. Growth rate data and R code for analyzing ontogenetic performance shifts, and R code illustrating the larval life cycle simulations.

description: File List NilssonOrtman_RGRdata.csv (MD5: 9103c37572274e112feb188ef1912f84)<br> NilssonOrtman_mixed_models.R (MD5: c603009602f053f3413dc3398360bdee)<br> NilssonOrtman_simulation.R (MD5: 9a430118b8c60c29b77b0519b9c3cd7a) Description NilssonOrtman_RGRdata.csv -- Relative Growth Rate (RGR) data<br> NilssonOrtman_mixed_models.R -- R code for analyzing RGR data<br> NilssonOrtman_simulation.R -- R code for simulating larval life cycles The supplements are designed to allow the reader to understand the statistical analysis used to produce Table 3 in the main text, and to run the simulations of larval life history. To run the code included in the supplements requires an installation of the statistical package R and the R packages RNetCDF and nlme. The first supplement, NilssonOrtman_RGRdata.csv, contains all the necessary data on size-corrected larval growth rates used to produce Fig. 6 in the main text. Using the R code in the second supplement, NilssonOrtman_mixed_models.R, together with the data in NilssonOrtman_RGRdata.csv, allows the reader to recreate the mixed-effect models analysis used to produce Table 3 in the main text. The third supplement, NilssonOrtman_simulation.R, contains stand-alone R code using simulated climate data illustrating the approach underlying the larval life cycle simulations used to estimate ontogenetic changes in the thermal niche of <i>Coenagrion</i> species.
DOI: 10.6084/m9.figshare.3568305.v1
title: Supplement 1. Growth rate data and R code for analyzing ontogenetic performance shifts, and R code illustrating the larval life cycle simulations.

description: File List NilssonOrtman_RGRdata.csv (MD5: 9103c37572274e112feb188ef1912f84)<br> NilssonOrtman_mixed_models.R (MD5: c603009602f053f3413dc3398360bdee)<br> NilssonOrtman_simulation.R (MD5: 9a430118b8c60c29b77b0519b9c3cd7a) Description NilssonOrtman_RGRdata.csv -- Relative Growth Rate (RGR) data<br> NilssonOrtman_mixed_models.R -- R code for analyzing RGR data<br> NilssonOrtman_simulation.R -- R code for simulating larval life cycles The supplements are designed to allow the reader to understand the statistical analysis used to produce Table 3 in the main text, and to run the simulations of larval life history. To run the code included in the supplements requires an installation of the statistical package R and the R packages RNetCDF and nlme. The first supplement, NilssonOrtman_RGRdata.csv, contains all the necessary data on size-corrected larval growth rates used to produce Fig. 6 in the main text. Using the R code in the second supplement, NilssonOrtman_mixed_models.R, together with the data in NilssonOrtman_RGRdata.csv, allows the reader to recreate the mixed-effect models analysis used to produce Table 3 in the main text. The third supplement, NilssonOrtman_simulation.R, contains stand-alone R code using simulated climate data illustrating the approach underlying the larval life cycle simulations used to estimate ontogenetic changes in the thermal niche of <i>Coenagrion</i> species.
DOI: 10.6084/m9.figshare.3568302
title: Appendix A. A figure showing the sensitivity of segmented linear regression models to the choice of bin size.

description: A figure showing the sensitivity of segmented linear regression models to the choice of bin size.
DOI: 10.6084/m9.figshare.3568302.v1
title: Appendix A. A figure showing the sensitivity of segmented linear regression models to the choice of bin size.

description: A figure showing the sensitivity of segmented linear regression models to the choice of bin size.
DOI: 10.6084/m9.figshare.3568299
title: Appendix A. Design of transects placed within ecosystems and at ecotones, map of Jennings Woods, and number of plots in each ecosystem and ecotone position.

description: Design of transects placed within ecosystems and at ecotones, map of Jennings Woods, and number of plots in each ecosystem and ecotone position.
DOI: 10.6084/m9.figshare.3568299.v1
title: Appendix A. Design of transects placed within ecosystems and at ecotones, map of Jennings Woods, and number of plots in each ecosystem and ecotone position.

description: Design of transects placed within ecosystems and at ecotones, map of Jennings Woods, and number of plots in each ecosystem and ecotone position.
DOI: 10.6084/m9.figshare.3568296
title: Appendix B. Transition graphs showing shifts in soil characteristics across ecotones from the core of one ecosystem to the core of another ecosystem.

description: Transition graphs showing shifts in soil characteristics across ecotones from the core of one ecosystem to the core of another ecosystem.
DOI: 10.6084/m9.figshare.3568296.v1
title: Appendix B. Transition graphs showing shifts in soil characteristics across ecotones from the core of one ecosystem to the core of another ecosystem.

description: Transition graphs showing shifts in soil characteristics across ecotones from the core of one ecosystem to the core of another ecosystem.
DOI: 10.6084/m9.figshare.3568293
title: Appendix C. Semivariances of soil variables and tree community composition.

description: Semivariances of soil variables and tree community composition.
DOI: 10.6084/m9.figshare.3568290
title: Appendix D. Krige maps of soil variables.

description: Krige maps of soil variables.
DOI: 10.6084/m9.figshare.3568293.v1
title: Appendix C. Semivariances of soil variables and tree community composition.

description: Semivariances of soil variables and tree community composition.
DOI: 10.6084/m9.figshare.3568287
title: Appendix E. Tree species identified at Jennings Woods, with variance explained (adjusted R²) by ecosystem type and soil properties.

description: Tree species identified at Jennings Woods, with variance explained (adjusted R²) by ecosystem type and soil properties.
DOI: 10.6084/m9.figshare.3568290.v1
title: Appendix D. Krige maps of soil variables.

description: Krige maps of soil variables.
DOI: 10.6084/m9.figshare.3568287.v1
title: Appendix E. Tree species identified at Jennings Woods, with variance explained (adjusted R²) by ecosystem type and soil properties.

description: Tree species identified at Jennings Woods, with variance explained (adjusted R²) by ecosystem type and soil properties.
DOI: 10.6084/m9.figshare.3568284
title: Appendix A. Additional information on relationships implemented in the LandClim beetle module.

description: Additional information on relationships implemented in the LandClim beetle module.
DOI: 10.6084/m9.figshare.3568281
title: Appendix B. Figures showing results of baseline (no bark beetle disturbance) simulations, the full set of bark beetle disturbance simulations including the development of susceptibility factors, and spatially explicit patterns of beetle-induced spruce mortality.

description: Figures showing results of baseline (no bark beetle disturbance) simulations, the full set of bark beetle disturbance simulations including the development of susceptibility factors, and spatially explicit patterns of beetle-induced spruce mortality.
DOI: 10.6084/m9.figshare.3568281.v1
title: Appendix B. Figures showing results of baseline (no bark beetle disturbance) simulations, the full set of bark beetle disturbance simulations including the development of susceptibility factors, and spatially explicit patterns of beetle-induced spruce mortality.

description: Figures showing results of baseline (no bark beetle disturbance) simulations, the full set of bark beetle disturbance simulations including the development of susceptibility factors, and spatially explicit patterns of beetle-induced spruce mortality.
DOI: 10.6084/m9.figshare.3568278
title: Appendix A. Further methodological details concerning P- and NW-plot measurements.

description: Further methodological details concerning P- and NW-plot measurements.
DOI: 10.6084/m9.figshare.3568278.v1
title: Appendix A. Further methodological details concerning P- and NW-plot measurements.

description: Further methodological details concerning P- and NW-plot measurements.
DOI: 10.6084/m9.figshare.3568275
title: Appendix B. Complete taxonomic tree species list for P and NW plots at Korup.

description: Complete taxonomic tree species list for P and NW plots at Korup.
DOI: 10.6084/m9.figshare.3568275.v1
title: Appendix B. Complete taxonomic tree species list for P and NW plots at Korup.

description: Complete taxonomic tree species list for P and NW plots at Korup.
DOI: 10.6084/m9.figshare.3568272
title: Appendix C. Contour plots of soil (with PCA results) and vegetation components in the P plot.

description: Contour plots of soil (with PCA results) and vegetation components in the P plot.
DOI: 10.6084/m9.figshare.3568272.v1
title: Appendix C. Contour plots of soil (with PCA results) and vegetation components in the P plot.

description: Contour plots of soil (with PCA results) and vegetation components in the P plot.
DOI: 10.6084/m9.figshare.3568269
title: Appendix D. Ordination of medium-sized trees in subplots of the P plot.

description: Ordination of medium-sized trees in subplots of the P plot.
DOI: 10.6084/m9.figshare.3568269.v1
title: Appendix D. Ordination of medium-sized trees in subplots of the P plot.

description: Ordination of medium-sized trees in subplots of the P plot.
DOI: 10.6084/m9.figshare.3568266
title: Appendix E. Spatial statistics of large-medium tree patterns for the three dominant species.

description: Spatial statistics of large-medium tree patterns for the three dominant species.
DOI: 10.6084/m9.figshare.3568266.v1
title: Appendix E. Spatial statistics of large-medium tree patterns for the three dominant species.

description: Spatial statistics of large-medium tree patterns for the three dominant species.
DOI: 10.6084/m9.figshare.3568263
title: Appendix F. Tables of densities and basal areas of all tree species in the P and NW plots.

description: Tables of densities and basal areas of all tree species in the P and NW plots.
DOI: 10.6084/m9.figshare.3568260
title: Appendix G. Less-abundant tree species in the 140-ha composite sample at Korup.

description: Less-abundant tree species in the 140-ha composite sample at Korup.
DOI: 10.6084/m9.figshare.3568263.v1
title: Appendix F. Tables of densities and basal areas of all tree species in the P and NW plots.

description: Tables of densities and basal areas of all tree species in the P and NW plots.
DOI: 10.6084/m9.figshare.3568260.v1
title: Appendix G. Less-abundant tree species in the 140-ha composite sample at Korup.

description: Less-abundant tree species in the 140-ha composite sample at Korup.
DOI: 10.6084/m9.figshare.3568257
title: Appendix H. Fits of the Zipf-Mandelbrot model, with and without dominant tree species.

description: Fits of the Zipf-Mandelbrot model, with and without dominant tree species.
DOI: 10.6084/m9.figshare.3568257.v1
title: Appendix H. Fits of the Zipf-Mandelbrot model, with and without dominant tree species.

description: Fits of the Zipf-Mandelbrot model, with and without dominant tree species.
DOI: 10.6084/m9.figshare.3568254
title: Appendix I. Calculations for the population projection matrices of the three dominant species.

description: Calculations for the population projection matrices of the three dominant species.
DOI: 10.6084/m9.figshare.3568251
title: Appendix A. Mean daily water temperature at all sampling sites between January 2006 and December 2009.

description: Mean daily water temperature at all sampling sites between January 2006 and December 2009.
DOI: 10.6084/m9.figshare.3568254.v1
title: Appendix I. Calculations for the population projection matrices of the three dominant species.

description: Calculations for the population projection matrices of the three dominant species.
DOI: 10.6084/m9.figshare.3568251.v1
title: Appendix A. Mean daily water temperature at all sampling sites between January 2006 and December 2009.

description: Mean daily water temperature at all sampling sites between January 2006 and December 2009.
DOI: 10.6084/m9.figshare.3568248
title: Appendix B. Literature-derived assimilation efficiencies for fish–invertebrate combinations.

description: Literature-derived assimilation efficiencies for fish–invertebrate combinations.
DOI: 10.6084/m9.figshare.3568248.v1
title: Appendix B. Literature-derived assimilation efficiencies for fish–invertebrate combinations.

description: Literature-derived assimilation efficiencies for fish–invertebrate combinations.
DOI: 10.6084/m9.figshare.3568245
title: Supplement 1. Annual mean (±95% CI) invertebrate abundance, biomass, and secondary production by habitat for each of the six sites.

description: File List Site_1.csv (MD5: 7243f56244eaf44bae780b4d97a94de5)<br> Site_2.csv (MD5: ded159fdb70b4fc850ddde104b184028)<br> Site_3.csv (MD5: 13aed7706aa5d4dd46a38403b9d866b7)<br> Site_4.csv (MD5: 95e3e3cb9b3f9da5a62ad0409ab4199b)<br> Site_5.csv (MD5: 35c8f012d9a0fef45e8fdd84bebde4ba)<br> Site_6.csv (MD5: 7e0282657d18223817da50cda9869a5d) DescriptionEach of these csv files contains data on annual abundance, biomass, and secondary production of invertebrate taxa, including 95% confidence intervals. Data at each site are presented as habitat-weighted means or further divided by dominant habitat type.
DOI: 10.6084/m9.figshare.3568242
title: Supplement 2. R scripts defining the set of functions used to calculate secondary production and associated estimates of uncertainty.

description: File List get.dates_function.txt (MD5: 6dd439d04894ce5e0e846d78513cac6c)<br> igr.prod_function.txt (MD5: dbee9e0ad0c8172b1140632b2b23ec3a)<br> pb.prod_function.txt (MD5: b0991a80831b711423ffd23f34f7683f)<br> sf.prod_function.txt (MD5: faa0902de18105636fec03fd6e697841)<br> wrapper.site.yr_function.txt (MD5: 46acac9d172f47e0f8ef9f357af5a51d) DescriptionEach of these txtfiles contains R code for calculating invertebrate secondary production. Differences among files are based on the different methods used to calculate secondary production, including the instantaneous growth method (igr.prod_function.txt), p:b ratio method (pb.prod_function.txt), and the size frequency method (sf.prod_function.txt). The get.dates_function.txt file is used to select a range of dates and sites, and the wrapper.site.yr_function.txt file is used to calculate production of multiple taxa at multiple sites using a variety of methods specified by the user. Questions should be directed to Dr. Benjamin J. Koch at koch@umd.edu.
DOI: 10.6084/m9.figshare.3568239
title: Appendix A. Comparison of New Zealand and Oregon/California intertidal communities by taxon and functional groups.

description: Comparison of New Zealand and Oregon/California intertidal communities by taxon and functional groups.
DOI: 10.6084/m9.figshare.3568239.v1
title: Appendix A. Comparison of New Zealand and Oregon/California intertidal communities by taxon and functional groups.

description: Comparison of New Zealand and Oregon/California intertidal communities by taxon and functional groups.
DOI: 10.6084/m9.figshare.3568236
title: Appendix B. Seven tables and three figures showing locations of study sites, details of the calculation of the intermittency index, types of ecological data taken at each site, details of statistics and data used in model selection for the relationships among upwelling, inputs, prey responses, and interactions, and an analysis of length of upwelling events in each region.

description: Seven tables and three figures showing locations of study sites, details of the calculation of the intermittency index, types of ecological data taken at each site, details of statistics and data used in model selection for the relationships among upwelling, inputs, prey responses, and interactions, and an analysis of length of upwelling events in each region.
DOI: 10.6084/m9.figshare.3568236.v1
title: Appendix B. Seven tables and three figures showing locations of study sites, details of the calculation of the intermittency index, types of ecological data taken at each site, details of statistics and data used in model selection for the relationships among upwelling, inputs, prey responses, and interactions, and an analysis of length of upwelling events in each region.

description: Seven tables and three figures showing locations of study sites, details of the calculation of the intermittency index, types of ecological data taken at each site, details of statistics and data used in model selection for the relationships among upwelling, inputs, prey responses, and interactions, and an analysis of length of upwelling events in each region.
DOI: 10.6084/m9.figshare.3568233
title: Appendix C. Diagrams of methods of analysis of species interaction rates and an example of experiments showing changes in mussel and barnacle cover in exclusion cages.

description: Diagrams of methods of analysis of species interaction rates and an example of experiments showing changes in mussel and barnacle cover in exclusion cages.
DOI: 10.6084/m9.figshare.3568233.v1
title: Appendix C. Diagrams of methods of analysis of species interaction rates and an example of experiments showing changes in mussel and barnacle cover in exclusion cages.

description: Diagrams of methods of analysis of species interaction rates and an example of experiments showing changes in mussel and barnacle cover in exclusion cages.
DOI: 10.6084/m9.figshare.3568230
title: Appendix A. Summary of data from monitored populations.

description: Summary of data from monitored populations.
DOI: 10.6084/m9.figshare.3568230.v1
title: Appendix A. Summary of data from monitored populations.

description: Summary of data from monitored populations.
DOI: 10.6084/m9.figshare.3568227
title: Appendix B. Estimation of vital rates and dispersal kernels.

description: Estimation of vital rates and dispersal kernels.
DOI: 10.6084/m9.figshare.3568224
title: Appendix C. Estimation of correlations in vital rates.

description: Estimation of correlations in vital rates.
DOI: 10.6084/m9.figshare.3568227.v1
title: Appendix B. Estimation of vital rates and dispersal kernels.

description: Estimation of vital rates and dispersal kernels.
DOI: 10.6084/m9.figshare.3568224.v1
title: Appendix C. Estimation of correlations in vital rates.

description: Estimation of correlations in vital rates.
DOI: 10.6084/m9.figshare.3568212
title: Appendix A. Frequency of occurrence (number of plots) of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).

description: Frequency of occurrence (number of plots) of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).
DOI: 10.6084/m9.figshare.3568209
title: Appendix B. Mean cover of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).

description: Mean cover of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).
DOI: 10.6084/m9.figshare.3568209.v1
title: Appendix B. Mean cover of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).

description: Mean cover of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).
DOI: 10.6084/m9.figshare.3568206
title: Appendix C. Mean biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).

description: Mean biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon, over the study period (1979–2008).
DOI: 10.6084/m9.figshare.3568200
title: Appendix D. Equations used to estimate above-ground biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon.

description: Equations used to estimate above-ground biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon.
DOI: 10.6084/m9.figshare.3568200.v1
title: Appendix D. Equations used to estimate above-ground biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon.

description: Equations used to estimate above-ground biomass of understory taxa in WS1 and WS3, H. J. Andrews Experimental Forest, Oregon.
DOI: 10.6084/m9.figshare.3568197
title: Appendix A. Map of the study site.

description: Map of the study site.
DOI: 10.6084/m9.figshare.3568197.v1
title: Appendix A. Map of the study site.

description: Map of the study site.
DOI: 10.6084/m9.figshare.3568191
title: Appendix B. Images of the Ichetucknee River.

description: Images of the Ichetucknee River.
DOI: 10.6084/m9.figshare.3568191.v1
title: Appendix B. Images of the Ichetucknee River.

description: Images of the Ichetucknee River.
DOI: 10.6084/m9.figshare.3568185
title: Appendix A. Data transformations used by PEcAn, including the Arrhenius correction and equations used to estimate SE from various statistics reported in the literature.

description: Data transformations used by PEcAn, including the Arrhenius correction and equations used to estimate SE from various statistics reported in the literature.
DOI: 10.6084/m9.figshare.3568185.v1
title: Appendix A. Data transformations used by PEcAn, including the Arrhenius correction and equations used to estimate SE from various statistics reported in the literature.

description: Data transformations used by PEcAn, including the Arrhenius correction and equations used to estimate SE from various statistics reported in the literature.
DOI: 10.6084/m9.figshare.3568179
title: Supplement 2. Documentation of database (BETYdb) used in the present study, including schema and contents.

description: File List bety.sql: subset of BETYdb database used in the present analysis. (MD5: 0560351a1ac737c324eb4fbaaa96bf49) dbdocumentation_users.pdf: BETYdb documentation. (MD5: a33ba4b340e2c7ca0745bfbf9239685e) Description Database Subset The file bety.sql contains the database schema and data used in the analysis. This is the same database that is included in the PEcAn 1.1 virtual machine found at http://hdl.handle.net/2142/34619 with source code found at: http://hdl.handle.net/2142/34655. This file contains the subset of the database used in the present analysis, including the data in Tables A1 and A2 as well as metadata tables and the database schema. This subset was generated from the production version of BETYdb using the script from the /bash/dump.db.subset.sh file in the PEcAn source code, which calls the mysqldump command to generate tables that can easily be imported using the command “/bash/create.db.subset.sh inst/extdata/bety.sql”. This is the same database that is included in the PEcAn 1.1 virtual machine. Figure S1 provides an illustration of the database schema, and the database user’s guide is provided as the file dbdocumentation_users.pdf. This subset was generated from the production version of BETYdb using the script from the PEcAn source/bash/dump.db.subset.sh. This database can be imported to mysql with the command /bash/create.db.subset.sh bety.sql. <br> Database Documentation dbdocumentation_users.pdf A comprehensive documentation of the database created to support PEcAn at the time that the analysis was generated. -- IMAGE: Please see in attached file. -- FIG. S1. Relationships among tables in BETYdb used to store data and metadata related to plant traits, yields, and ecosystem services. Detailed description of these tables can be found on the website; the documentation for 1.0 is contained in the appendices as dbdocumentation_users.pdf.