cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3562221
title: Data Paper. Data Paper

description: File List baad.zip (MD5: 0a365cf79ab562a7985c426668fbc2a1) baad_data.zip (MD5: b9bc52c53be65506696a02862999ad9e) Description Understanding how plants are constructed; i.e., how key size dimensions and the amount of mass invested in different tissues varies among individuals; is essential for modeling plant growth, estimating carbon stocks, and mapping energy fluxes in the terrestrial biosphere. Allocation patterns can differ through ontogeny, but also among coexisting species and among species adapted to different environments. While a variety of models dealing with biomass allocation exist, we lack a synthetic understanding of the underlying processes. This is partly due to the lack of suitable data sets for validating and parameterizing models. To that end, we present the Biomass and allometry database (BAAD) for woody plants. The BAAD contains 259 634 measurements collected in 176 different studies, from 21 084 individuals across 678 species. Most of these data come from existing publications. However, raw data were rarely made public at time of publication. Thus the BAAD contains individual level data from different studies, transformed into standard units and variable names. The transformations were achieved using a common workflow for all raw data files. Other features that distinguish the BAAD are: (i) measurements were for individual plants rather than stand averages; (ii) individuals spanning a range of sizes were measured; (iii) inclusion of plants from 0.01–100 m in height; and (iii) biomass was estimated directly, i.e., not indirectly via allometric equations (except in very large trees where biomass was estimated from detailed sub-sampling). We included both wild and artificially grown plants. The data set contains the following size metrics: total leaf area; area of stem cross-section including sapwood, heartwood, and bark; height of plant and crown base, crown area, and surface area; and the dry mass of leaf, stem, branches, sapwood, heartwood, bark, coarse roots, and fine root tissues. We also report other properties of individuals (age, leaf size, leaf mass per area, wood density, nitrogen content of leaves and wood), as well as information about the growing environment (location, light, experimental treatment, vegetation type) where available. It is our hope that making these data available will improve our ability to understand plant growth, ecosystem dynamics, and carbon cycling in the world's vegetation. <i>Key words</i>: <i>allometric equations; biomass allocation; biomass partitioning; global carbon cycle; plant allometry; plant traits. </i>
DOI: 10.5517/ccdc.csd.cc25qndz
title: CCDC 2017771: Experimental Crystal Structure Determination

description: Related Article: C.T. Palumbo, C.M. Kotyk, J.W. Ziller, W.J. Evans|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1447|doi:10.1107/S2056989020009998
DOI: 10.5517/ccdc.csd.cc25qnf0
title: CCDC 2017772: Experimental Crystal Structure Determination

description: Related Article: C.T. Palumbo, C.M. Kotyk, J.W. Ziller, W.J. Evans|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1447|doi:10.1107/S2056989020009998
DOI: 10.5517/ccdc.csd.cc25qng1
title: CCDC 2017773: Experimental Crystal Structure Determination

description: Related Article: C.T. Palumbo, C.M. Kotyk, J.W. Ziller, W.J. Evans|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1447|doi:10.1107/S2056989020009998
DOI: 10.5517/ccdc.csd.cc25qnh2
title: CCDC 2017774: Experimental Crystal Structure Determination

description: Related Article: C.T. Palumbo, C.M. Kotyk, J.W. Ziller, W.J. Evans|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1447|doi:10.1107/S2056989020009998
DOI: 10.6084/m9.figshare.3562218
title: Appendix A. Results from neighborhood analyses considering the effects of the density and frequency of neighbors on Solanum carolinense damage at three spatial scales.

description: Results from neighborhood analyses considering the effects of the density and frequency of neighbors on Solanum carolinense damage at three spatial scales.
DOI: 10.5517/ccdc.csd.cc24pr9x
title: CCDC 1987109: Experimental Crystal Structure Determination

description: Related Article: Vladimir V. Sharutin, Olga K. Sharutina, Alexander S. Novikov, Sergey A. Adonin|2020|New J.Chem.|44|14339|doi:10.1039/D0NJ02774J
DOI: 10.5517/ccdc.csd.cc24rqsf
title: CCDC 1989015: Experimental Crystal Structure Determination

description: Related Article: Vladimir V. Sharutin, Olga K. Sharutina, Alexander S. Novikov, Sergey A. Adonin|2020|New J.Chem.|44|14339|doi:10.1039/D0NJ02774J
DOI: 10.5517/ccdc.csd.cc24gfpr
title: CCDC 1980084: Experimental Crystal Structure Determination

description: Related Article: Vladimir V. Sharutin, Olga K. Sharutina, Alexander S. Novikov, Sergey A. Adonin|2020|New J.Chem.|44|14339|doi:10.1039/D0NJ02774J
DOI: 10.6084/m9.figshare.3562215
title: Appendix B. Neighborhood composition effects on Solidago altissima leaf tissue damage (mean percent leaf area removed).

description: Neighborhood composition effects on Solidago altissima leaf tissue damage (mean percent leaf area removed).
DOI: 10.5517/ccdc.csd.cc24rstj
title: CCDC 1989078: Experimental Crystal Structure Determination

description: Related Article: Vladimir V. Sharutin, Olga K. Sharutina, Alexander S. Novikov, Sergey A. Adonin|2020|New J.Chem.|44|14339|doi:10.1039/D0NJ02774J
DOI: 10.6084/m9.figshare.3562212
title: Appendix C. Individual effects of (A) total density, (B) Solidago altissima density, and (C) Solanum carolinense frequency on S. altissima damage (mean percent leaf area removed).

description: Individual effects of (A) total density, (B) Solidago altissima density, and (C) Solanum carolinense frequency on S. altissima damage (mean percent leaf area removed).
DOI: 10.6084/m9.figshare.3562209
title: Appendix A. A figure reflecting the data on phytoplankton chlorophyll a of the experiment: clear differences in chlorophyll a levels between nutrient levels can be seen, indicating that the nutrient treatments have been effective.

description: A figure reflecting the data on phytoplankton chlorophyll a of the experiment: clear differences in chlorophyll a levels between nutrient levels can be seen, indicating that the nutrient treatments have been effective.
DOI: 10.5517/ccdc.csd.cc25vc9q
title: CCDC 2021333: Experimental Crystal Structure Determination

description: Related Article: R.E. Rheam, M. Zeller, C.M. Zaleski|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1458|doi:10.1107/S2056989020010725
DOI: 10.6084/m9.figshare.3562209.v1
title: Appendix A. A figure reflecting the data on phytoplankton chlorophyll a of the experiment: clear differences in chlorophyll a levels between nutrient levels can be seen, indicating that the nutrient treatments have been effective.

description: A figure reflecting the data on phytoplankton chlorophyll a of the experiment: clear differences in chlorophyll a levels between nutrient levels can be seen, indicating that the nutrient treatments have been effective.
DOI: 10.6084/m9.figshare.3562206
title: Appendix A. Detailed description of cost or benefit model structure and two tables of model equations and parameters.

description: Detailed description of cost or benefit model structure and two tables of model equations and parameters.
DOI: 10.6084/m9.figshare.3562206.v1
title: Appendix A. Detailed description of cost or benefit model structure and two tables of model equations and parameters.

description: Detailed description of cost or benefit model structure and two tables of model equations and parameters.
DOI: 10.5517/ccdc.csd.cc25wcyd
title: CCDC 2022314: Experimental Crystal Structure Determination

description: Related Article: A.T. Wodajo, T.T.V. Tran, H.H. Truong, A.G. Tskhovrebov, T.D. Le, V.N. Khrustalev, T.A. Le|2020|Acta Crystallogr.,Sect.E:Cryst.Commun.|76|1454|doi:10.1107/S2056989020010968
DOI: 10.5517/ccdc.csd.cc244jwq
title: CCDC 1970573: Experimental Crystal Structure Determination

description: Related Article: E.B. Camargo-Cortés, M. Acosta, J.C. Martínez, L.W. Pineda|2020|IUCrData|5|x201092|doi:10.1107/S2414314620010925
DOI: 10.6084/m9.figshare.3562203
title: Supplement 1. Symbiont population dynamics data set and cost or benefit model implementation in R.

description: File List Pdam_dataset.csv (MD5: f339fb38a32a02c75d8af0b2658d146d) Pdam_metadata.csv (MD5: 50a904eedb36ce85111a3e674d09a449) Pdam_fitModel.R (MD5: c8104a06f0574a6eb4ffb2ddb1c08b19) Pdam_runModel.R (MD5: 6860a90a42c2fc5bb356faed79afa874) Description These supplements are designed to allow the reader to reproduce the cost or benefit model implemented in this study using the statistical package R. The first two files contain the symbiont population dynamics data set (Pdam_dataset.csv) and environmental metadata (Pdam_metadata.csv) from the two experiments. The R code is divided into two files, one which fits the model structure to the data by a gradient search routine that optimizes scaling parameters (Pdam_fitModel.R), and one which implements a fitted version of the model and generates all of the figures presented in the manuscript (Pdam_runModel.R). This code will allow users to adjust and test the cost-benefit model structure and its output. Pdam_dataset.csv -- Data set used in this study Experiment: Classifies data from experiment 1 or 2<br> Time: Time point within each experiment<br> Colony: Nominal coral colony ID number from which sample was taken<br> Sym: The dominant <i>Symbiodinium</i> clade in the coral colony<br> Total: The total symbiont to host cell ratio, calculated as the sum of clade C and D symbiont to host cell ratios based on qPCR assay results<br> logTotal: Logarithm (base 10) of the total symbiont to host cell ratio Pdam_metadata.csv -- Environmental metadata from this study Experiment: Classifies data from experiment 1 or 2<br> Time: Time point within each experiment<br> i mean: Irradiance mean for time point (mol m-2 d-1)<br> i se: Irradiance SEM for time point (mol m-2 d-1)<br> t mean: Temperature mean for time point (°C)<br> t se: Temperature SEM for time point (°C) Pdam_fitModel.R -- R code for fitting model scaling parameters Pdam_runModel.R -- R code for running fitted model and generating the figures presented in this manuscript
DOI: 10.6084/m9.figshare.3562200
title: Appendix A. Formula for the calculation of stratification (Brunt-Väisälä frequency).

description: Formula for the calculation of stratification (Brunt-Väisälä frequency).
DOI: 10.6084/m9.figshare.3562197
title: Appendix B. A correlations matrix showing the relationship between the upwelling index (UI) with other physical variables at Elands Bay (Fig. B1) and Cape Columbine (Fig. B2).

description: A correlations matrix showing the relationship between the upwelling index (UI) with other physical variables at Elands Bay (Fig. B1) and Cape Columbine (Fig. B2).
DOI: 10.6084/m9.figshare.3562197.v1
title: Appendix B. A correlations matrix showing the relationship between the upwelling index (UI) with other physical variables at Elands Bay (Fig. B1) and Cape Columbine (Fig. B2).

description: A correlations matrix showing the relationship between the upwelling index (UI) with other physical variables at Elands Bay (Fig. B1) and Cape Columbine (Fig. B2).
DOI: 10.6084/m9.figshare.3562194
title: Appendix C. A correlation matrix showing the relationship between the sea breeze index (SB) with other physical variables at Elands Bay (Fig. C1).

description: A correlation matrix showing the relationship between the sea breeze index (SB) with other physical variables at Elands Bay (Fig. C1).
DOI: 10.6084/m9.figshare.3562194.v1
title: Appendix C. A correlation matrix showing the relationship between the sea breeze index (SB) with other physical variables at Elands Bay (Fig. C1).

description: A correlation matrix showing the relationship between the sea breeze index (SB) with other physical variables at Elands Bay (Fig. C1).
DOI: 10.6084/m9.figshare.3562191
title: Appendix D. Background on the application of Model Selection sensu Burnham and Anderson (2002).

description: Background on the application of Model Selection sensu Burnham and Anderson (2002).
DOI: 10.6084/m9.figshare.3562191.v1
title: Appendix D. Background on the application of Model Selection sensu Burnham and Anderson (2002).

description: Background on the application of Model Selection sensu Burnham and Anderson (2002).
DOI: 10.6084/m9.figshare.3562188
title: Appendix E. A summary of differences in physical oceanographic variables between sites (Table E).

description: A summary of differences in physical oceanographic variables between sites (Table E).
DOI: 10.6084/m9.figshare.3562188.v1
title: Appendix E. A summary of differences in physical oceanographic variables between sites (Table E).

description: A summary of differences in physical oceanographic variables between sites (Table E).
DOI: 10.6084/m9.figshare.3562185
title: Appendix F. Correlations between intertidal settlement and settlement on nearshore moorings, showing a coupling of larval supply and settlement at Elands Bay, but not at Cape Columbine.

description: Correlations between intertidal settlement and settlement on nearshore moorings, showing a coupling of larval supply and settlement at Elands Bay, but not at Cape Columbine.
DOI: 10.6084/m9.figshare.3562185.v1
title: Appendix F. Correlations between intertidal settlement and settlement on nearshore moorings, showing a coupling of larval supply and settlement at Elands Bay, but not at Cape Columbine.

description: Correlations between intertidal settlement and settlement on nearshore moorings, showing a coupling of larval supply and settlement at Elands Bay, but not at Cape Columbine.
DOI: 10.6084/m9.figshare.3562182
title: Appendix A. List of host species sampled.

description: List of host species sampled.
DOI: 10.6084/m9.figshare.3562182.v1
title: Appendix A. List of host species sampled.

description: List of host species sampled.
DOI: 10.6084/m9.figshare.3562179
title: Appendix B. Details of methodology.

description: Details of methodology.
DOI: 10.6084/m9.figshare.3562179.v1
title: Appendix B. Details of methodology.

description: Details of methodology.
DOI: 10.6084/m9.figshare.3562176
title: Appendix C. Chlorophyll-a concentration and sea surface temperature for six sampled islands of the Line Islands archipelago.

description: Chlorophyll-a concentration and sea surface temperature for six sampled islands of the Line Islands archipelago.
DOI: 10.6084/m9.figshare.3562176.v1
title: Appendix C. Chlorophyll-a concentration and sea surface temperature for six sampled islands of the Line Islands archipelago.

description: Chlorophyll-a concentration and sea surface temperature for six sampled islands of the Line Islands archipelago.
DOI: 10.6084/m9.figshare.3562173
title: Appendix D. Metadata on sampling sites within islands for the across-islands data set.

description: Metadata on sampling sites within islands for the across-islands data set.
DOI: 10.6084/m9.figshare.3562173.v1
title: Appendix D. Metadata on sampling sites within islands for the across-islands data set.

description: Metadata on sampling sites within islands for the across-islands data set.
DOI: 10.6084/m9.figshare.3562170
title: Appendix E. Number of individual hosts and intestines dissected from each unfished island (Jarvis, Kingman, Palmyra) and fished island (Teraina, Tabuaeran, Kiritimati), for each of the seven fish species sampled (across-islands analysis).

description: Number of individual hosts and intestines dissected from each unfished island (Jarvis, Kingman, Palmyra) and fished island (Teraina, Tabuaeran, Kiritimati), for each of the seven fish species sampled (across-islands analysis).
DOI: 10.6084/m9.figshare.3562170.v1
title: Appendix E. Number of individual hosts and intestines dissected from each unfished island (Jarvis, Kingman, Palmyra) and fished island (Teraina, Tabuaeran, Kiritimati), for each of the seven fish species sampled (across-islands analysis).

description: Number of individual hosts and intestines dissected from each unfished island (Jarvis, Kingman, Palmyra) and fished island (Teraina, Tabuaeran, Kiritimati), for each of the seven fish species sampled (across-islands analysis).
DOI: 10.6084/m9.figshare.3562167
title: Appendix F. Number of individual fish collected for each species and site on Kiritimati Island (within-island analysis).

description: Number of individual fish collected for each species and site on Kiritimati Island (within-island analysis).
DOI: 10.6084/m9.figshare.3562167.v1
title: Appendix F. Number of individual fish collected for each species and site on Kiritimati Island (within-island analysis).

description: Number of individual fish collected for each species and site on Kiritimati Island (within-island analysis).
DOI: 10.6084/m9.figshare.3562164
title: Appendix G. Parasite taxa detected in each fish host species, with natural history information for each parasite taxon.

description: Parasite taxa detected in each fish host species, with natural history information for each parasite taxon.
DOI: 10.6084/m9.figshare.3562164.v1
title: Appendix G. Parasite taxa detected in each fish host species, with natural history information for each parasite taxon.

description: Parasite taxa detected in each fish host species, with natural history information for each parasite taxon.
DOI: 10.6084/m9.figshare.3562161
title: Appendix H. Grid cells used to calculate island-level estimates of chl-a concentration for each island in the across-islands analysis.

description: Grid cells used to calculate island-level estimates of chl-a concentration for each island in the across-islands analysis.
DOI: 10.6084/m9.figshare.3562161.v1
title: Appendix H. Grid cells used to calculate island-level estimates of chl-a concentration for each island in the across-islands analysis.

description: Grid cells used to calculate island-level estimates of chl-a concentration for each island in the across-islands analysis.
DOI: 10.6084/m9.figshare.3562158
title: Appendix I. Grid cells used to calculate site-level estimates of chl-a concentration for each site in the within-island analysis.

description: Grid cells used to calculate site-level estimates of chl-a concentration for each site in the within-island analysis.
DOI: 10.6084/m9.figshare.3562155
title: Appendix J. Results of GLMMs for each host–parasite combination in the across-islands data set.

description: Results of GLMMs for each host–parasite combination in the across-islands data set.
DOI: 10.6084/m9.figshare.3562158.v1
title: Appendix I. Grid cells used to calculate site-level estimates of chl-a concentration for each site in the within-island analysis.

description: Grid cells used to calculate site-level estimates of chl-a concentration for each site in the within-island analysis.
DOI: 10.6084/m9.figshare.3562155.v1
title: Appendix J. Results of GLMMs for each host–parasite combination in the across-islands data set.

description: Results of GLMMs for each host–parasite combination in the across-islands data set.
DOI: 10.6084/m9.figshare.3562152
title: Appendix K. Results of general linear models for meta-analysis.

description: Results of general linear models for meta-analysis.
DOI: 10.6084/m9.figshare.3562152.v1
title: Appendix K. Results of general linear models for meta-analysis.

description: Results of general linear models for meta-analysis.
DOI: 10.6084/m9.figshare.3562149
title: Appendix L. Results of GLMs for each host–parasite combination for the within-island data set.

description: Results of GLMs for each host–parasite combination for the within-island data set.
DOI: 10.6084/m9.figshare.3562149.v1
title: Appendix L. Results of GLMs for each host–parasite combination for the within-island data set.

description: Results of GLMs for each host–parasite combination for the within-island data set.
DOI: 10.6084/m9.figshare.3562146
title: Appendix M. Possible correlates of productivity in the across-islands data set.

description: Possible correlates of productivity in the across-islands data set.
DOI: 10.6084/m9.figshare.3562146.v1
title: Appendix M. Possible correlates of productivity in the across-islands data set.

description: Possible correlates of productivity in the across-islands data set.
DOI: 10.6084/m9.figshare.3562143
title: Appendix N. Results of alternative analysis in which host density is included as a predictor in GLMMs for parasite abundance of individual parasite species.

description: Results of alternative analysis in which host density is included as a predictor in GLMMs for parasite abundance of individual parasite species.
DOI: 10.6084/m9.figshare.3562143.v1
title: Appendix N. Results of alternative analysis in which host density is included as a predictor in GLMMs for parasite abundance of individual parasite species.

description: Results of alternative analysis in which host density is included as a predictor in GLMMs for parasite abundance of individual parasite species.
DOI: 10.6084/m9.figshare.3562140
title: Appendix A. Description of sampling and genetic methods as well as assessment of potential bias due to different sampling methods. Appendix A also includes sampling maps for all three species and tables describing sampling and genetic information by site and by species, microsatellite loci for red-spotted toads and canyon treefrogs, results from Hardy Weinberg exact tests, microsatellite loci characteristics, STRUCTURE results, and results of assessment of bias across sampling methods.

description: Description of sampling and genetic methods as well as assessment of potential bias due to different sampling methods. Appendix A also includes sampling maps for all three species and tables describing sampling and genetic information by site and by species, microsatellite loci for red-spotted toads and canyon treefrogs, results from Hardy Weinberg exact tests, microsatellite loci characteristics, STRUCTURE results, and results of assessment of bias across sampling methods.
DOI: 10.6084/m9.figshare.3562137
title: Appendix B. Additional description of landscape resistance methods and tables describing landscape resistance values and source data, correlation coefficients between resistance/distance values, mixed-effects modeling results for major genetic clusters of canyon treefrogs and Mexican spadefoots, and results of multiple regression with distance matrices.

description: Additional description of landscape resistance methods and tables describing landscape resistance values and source data, correlation coefficients between resistance/distance values, mixed-effects modeling results for major genetic clusters of canyon treefrogs and Mexican spadefoots, and results of multiple regression with distance matrices.
DOI: 10.6084/m9.figshare.3562140.v1
title: Appendix A. Description of sampling and genetic methods as well as assessment of potential bias due to different sampling methods. Appendix A also includes sampling maps for all three species and tables describing sampling and genetic information by site and by species, microsatellite loci for red-spotted toads and canyon treefrogs, results from Hardy Weinberg exact tests, microsatellite loci characteristics, STRUCTURE results, and results of assessment of bias across sampling methods.

description: Description of sampling and genetic methods as well as assessment of potential bias due to different sampling methods. Appendix A also includes sampling maps for all three species and tables describing sampling and genetic information by site and by species, microsatellite loci for red-spotted toads and canyon treefrogs, results from Hardy Weinberg exact tests, microsatellite loci characteristics, STRUCTURE results, and results of assessment of bias across sampling methods.