cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.6084/m9.figshare.3561297
title: Supplement 2. Evaluation of the approximation of the detection function and alternative implementations.

description: File List Detection_function_JAGS.txt (MD5: 007162c2064a70a7f698ac0d890409b4): Code snippets showing alternative implementations of the half-normal detection function. HNsimresults.csv (MD5: 80167ae96557e20304ebe21f686e9b2f): Tables with summary results of simulation study to investigate bias and confidence interval coverage of two implementations of the half-normal detection function. Description We present an alternative, less coarse, yet more time consuming approximation of the integral in Eq. 1 in the text, as well as the closed-form implementation of that integral for line transect sampling, as well as an assessment of the bias and confidence interval coverage of the two approximations for point surveys.
DOI: 10.6084/m9.figshare.3561294
title: Appendix A. Computation of niche regions.

description: Computation of niche regions.
DOI: 10.6084/m9.figshare.3561291
title: Appendix B. Calculation of niche overlap.

description: Calculation of niche overlap.
DOI: 10.6084/m9.figshare.3561288
title: Appendix C. Sampling algorithms for Bayesian posteriors and discussion of posteriors.

description: Sampling algorithms for Bayesian posteriors and discussion of posteriors.
DOI: 10.6084/m9.figshare.3561285
title: Appendix D. A comparison of overlap at different α.

description: A comparison of overlap at different α.
DOI: 10.6084/m9.figshare.3561282
title: Supplement 1. Raw data and source R code for all calculations, figures, and tables.

description: File List nichefishdata.csv (MD5: b621543c218974dce68c8c2dd17c21f3) SourceCode_nicheROVER.R (MD5: e911a75dbaa59412366ba9406c4baf97) Description The supplements allow the reader to implement the methods using commented source code in R (SourceCode_nicheROVER.R). The raw data are also provided (nichefishdata.csv).
DOI: 10.6084/m9.figshare.3561279
title: Appendix A. Detailed methods of study area and site selection, field methods, data processing and analysis, and the comparison of old growth sites to the surround forest matrix.

description: Detailed methods of study area and site selection, field methods, data processing and analysis, and the comparison of old growth sites to the surround forest matrix.
DOI: 10.6084/m9.figshare.3561276
title: Data Paper. Data Paper

description: File List BBSG_2009-2010.zip (MD5: e92d229e6d070ee28aac914c875542c2) bigbend_grass.zip (MD5: 30c07113faac237e2c199c3d637d92be) Description Seagrass meadows are important habitats that serve as nursery, feeding, and sheltering grounds for many marine species. In addition to the ecosystem functions and services they provide, seagrass habitats and associated fauna are commonly observed to have naturally high levels of heterogeneity, making them ideal for the study of ecological patterns and processes across multiple spatial scales. However, seagrass systems worldwide have undergone sharp declines in coverage and increased levels of fragmentation at both local and regional spatial scales, thus compromising their ecological functions and services and reducing their value as unaltered marine systems in which to conduct ecological studies. Covering nearly 3000 km², the seagrass meadows of the Big Bend region in the eastern Gulf of Mexico represents one of the largest in the world, and given its separation from human population centers and coastal development, is also considered to be one of the most intact and least disturbed. The objective of our study was to provide the first region-wide characterization of the habitats and faunal communities in seagrass meadows of the Big Bend. This two-year study occurred in 2009 and 2010 during the summers when peak productivity in seagrass systems is highest. Sites were selected using a spatially-balanced approach and sampling was conducted with beam trawls. A total of 170 sites was sampled, and all animals were identified to lowest taxonomic level possible, counted, and their sizes measured. Habitat characteristics were concurrently measured at both local (e.g., seagrass areal coverage and composition, volume of drift algae) and regional scales (e.g., latitude, type of adjacent coastal habitat). <i>Key words</i>: <i>beam trawl; Geographic Information Systems; habitat heterogeneity; seagrass; seascape ecology; secondary productivity; spatially-balanced sampling; submerged aquatic vegetation (SAV). </i>
DOI: 10.6084/m9.figshare.3561276.v1
title: Data Paper. Data Paper

description: File List BBSG_2009-2010.zip (MD5: e92d229e6d070ee28aac914c875542c2) bigbend_grass.zip (MD5: 30c07113faac237e2c199c3d637d92be) Description Seagrass meadows are important habitats that serve as nursery, feeding, and sheltering grounds for many marine species. In addition to the ecosystem functions and services they provide, seagrass habitats and associated fauna are commonly observed to have naturally high levels of heterogeneity, making them ideal for the study of ecological patterns and processes across multiple spatial scales. However, seagrass systems worldwide have undergone sharp declines in coverage and increased levels of fragmentation at both local and regional spatial scales, thus compromising their ecological functions and services and reducing their value as unaltered marine systems in which to conduct ecological studies. Covering nearly 3000 km², the seagrass meadows of the Big Bend region in the eastern Gulf of Mexico represents one of the largest in the world, and given its separation from human population centers and coastal development, is also considered to be one of the most intact and least disturbed. The objective of our study was to provide the first region-wide characterization of the habitats and faunal communities in seagrass meadows of the Big Bend. This two-year study occurred in 2009 and 2010 during the summers when peak productivity in seagrass systems is highest. Sites were selected using a spatially-balanced approach and sampling was conducted with beam trawls. A total of 170 sites was sampled, and all animals were identified to lowest taxonomic level possible, counted, and their sizes measured. Habitat characteristics were concurrently measured at both local (e.g., seagrass areal coverage and composition, volume of drift algae) and regional scales (e.g., latitude, type of adjacent coastal habitat). <i>Key words</i>: <i>beam trawl; Geographic Information Systems; habitat heterogeneity; seagrass; seascape ecology; secondary productivity; spatially-balanced sampling; submerged aquatic vegetation (SAV). </i>
DOI: 10.6084/m9.figshare.3561273
title: Full Archive

description: Full Archive
DOI: 10.6084/m9.figshare.3561270
title: Appendix A. A figure showing the direct and indirect effects of the intraclass correlation coefficient and metapopulation variance on minimum metapopulation size.

description: A figure showing the direct and indirect effects of the intraclass correlation coefficient and metapopulation variance on minimum metapopulation size.
DOI: 10.6084/m9.figshare.3561270.v1
title: Appendix A. A figure showing the direct and indirect effects of the intraclass correlation coefficient and metapopulation variance on minimum metapopulation size.

description: A figure showing the direct and indirect effects of the intraclass correlation coefficient and metapopulation variance on minimum metapopulation size.
DOI: 10.6084/m9.figshare.3561267
title: Appendix A. Total area of each of the habitat patches types included in food web analyses (“total patch area”), as well as the area of the specific habitats where food web sampling was conducted (“sampled habitat area”).

description: Total area of each of the habitat patches types included in food web analyses (“total patch area”), as well as the area of the specific habitats where food web sampling was conducted (“sampled habitat area”).
DOI: 10.6084/m9.figshare.3561267.v1
title: Appendix A. Total area of each of the habitat patches types included in food web analyses (“total patch area”), as well as the area of the specific habitats where food web sampling was conducted (“sampled habitat area”).

description: Total area of each of the habitat patches types included in food web analyses (“total patch area”), as well as the area of the specific habitats where food web sampling was conducted (“sampled habitat area”).
DOI: 10.6084/m9.figshare.3561264
title: Appendix A. Locations and numbers of replicate panels sampled at each site in each region.

description: Locations and numbers of replicate panels sampled at each site in each region.
DOI: 10.6084/m9.figshare.3561264.v1
title: Appendix A. Locations and numbers of replicate panels sampled at each site in each region.

description: Locations and numbers of replicate panels sampled at each site in each region.
DOI: 10.6084/m9.figshare.3561261
title: Appendix B. Photo of experimental array at a site.

description: Photo of experimental array at a site.
DOI: 10.6084/m9.figshare.3561261.v1
title: Appendix B. Photo of experimental array at a site.

description: Photo of experimental array at a site.
DOI: 10.6084/m9.figshare.3561258
title: Appendix C. Mean and variation in environmental variables among sites in each region.

description: Mean and variation in environmental variables among sites in each region.
DOI: 10.6084/m9.figshare.3561258.v1
title: Appendix C. Mean and variation in environmental variables among sites in each region.

description: Mean and variation in environmental variables among sites in each region.
DOI: 10.6084/m9.figshare.3561255
title: Appendix D. Mean absolute richness values after three and twelve months represented using an additive partitioning model.

description: Mean absolute richness values after three and twelve months represented using an additive partitioning model.
DOI: 10.6084/m9.figshare.3561255.v1
title: Appendix D. Mean absolute richness values after three and twelve months represented using an additive partitioning model.

description: Mean absolute richness values after three and twelve months represented using an additive partitioning model.
DOI: 10.6084/m9.figshare.3561252
title: Appendix E. Photos of an example time series of community development in each region.

description: Photos of an example time series of community development in each region.
DOI: 10.6084/m9.figshare.3561252.v1
title: Appendix E. Photos of an example time series of community development in each region.

description: Photos of an example time series of community development in each region.
DOI: 10.6084/m9.figshare.3561249
title: Appendix A. Multiple regression results, height and browsing rate by range sector, and snow-water-equivalent 1985–2012.

description: Multiple regression results, height and browsing rate by range sector, and snow-water-equivalent 1985–2012.
DOI: 10.6084/m9.figshare.3561246
title: Appendix A. Identification of macroalgal groups used for analyses.

description: Identification of macroalgal groups used for analyses.
DOI: 10.6084/m9.figshare.3561246.v1
title: Appendix A. Identification of macroalgal groups used for analyses.

description: Identification of macroalgal groups used for analyses.
DOI: 10.6084/m9.figshare.3561243
title: Appendix B. ANOVA of observational data on the distribution and abundance of macroalgal groups.

description: ANOVA of observational data on the distribution and abundance of macroalgal groups.
DOI: 10.6084/m9.figshare.3561243.v1
title: Appendix B. ANOVA of observational data on the distribution and abundance of macroalgal groups.

description: ANOVA of observational data on the distribution and abundance of macroalgal groups.
DOI: 10.6084/m9.figshare.3561240
title: Appendix C. ANOVA of settlement for each macroalgal group.

description: ANOVA of settlement for each macroalgal group.
DOI: 10.6084/m9.figshare.3561240.v1
title: Appendix C. ANOVA of settlement for each macroalgal group.

description: ANOVA of settlement for each macroalgal group.
DOI: 10.6084/m9.figshare.3561237
title: Appendix D. ANOVA of recruitment of each macroalgal group following the canopy manipulation.

description: ANOVA of recruitment of each macroalgal group following the canopy manipulation.
DOI: 10.6084/m9.figshare.3561237.v1
title: Appendix D. ANOVA of recruitment of each macroalgal group following the canopy manipulation.

description: ANOVA of recruitment of each macroalgal group following the canopy manipulation.
DOI: 10.6084/m9.figshare.3561234
title: Appendix E. Percent cover of each understory algal species observed at the beginning and end of the canopy manipulation experiment.

description: Percent cover of each understory algal species observed at the beginning and end of the canopy manipulation experiment.
DOI: 10.6084/m9.figshare.3561234.v1
title: Appendix E. Percent cover of each understory algal species observed at the beginning and end of the canopy manipulation experiment.

description: Percent cover of each understory algal species observed at the beginning and end of the canopy manipulation experiment.
DOI: 10.6084/m9.figshare.3561231
title: Appendix A. Description of the Argentine ant removal protocol and its efficacy.

description: Description of the Argentine ant removal protocol and its efficacy.
DOI: 10.6084/m9.figshare.3561231.v1
title: Appendix A. Description of the Argentine ant removal protocol and its efficacy.

description: Description of the Argentine ant removal protocol and its efficacy.
DOI: 10.6084/m9.figshare.3561228
title: Appendix B. Arthropod morphospecies categories used in the analyses of floral visitor diversity.

description: Arthropod morphospecies categories used in the analyses of floral visitor diversity.
DOI: 10.6084/m9.figshare.3561228.v1
title: Appendix B. Arthropod morphospecies categories used in the analyses of floral visitor diversity.

description: Arthropod morphospecies categories used in the analyses of floral visitor diversity.
DOI: 10.6084/m9.figshare.3561225
title: Appendix C. Arthropods and plants included in floral visitation network analyses.

description: Arthropods and plants included in floral visitation network analyses.
DOI: 10.6084/m9.figshare.3561222
title: Appendix D. Video of Augochlorella being attacked by Argentine ants on an Island Morning Glory flower.

description: Video of Augochlorella being attacked by Argentine ants on an Island Morning Glory flower.
DOI: 10.6084/m9.figshare.3561222.v1
title: Appendix D. Video of Augochlorella being attacked by Argentine ants on an Island Morning Glory flower.

description: Video of Augochlorella being attacked by Argentine ants on an Island Morning Glory flower.
DOI: 10.6084/m9.figshare.3561219
title: Appendix A. Table of trait means ± SD (Table A1) and phenotypic linear selection gradients (± SE) (Table A2) for all four treatment groups in the Gymnadenia conopsea population at Sølendet.

description: Table of trait means ± SD (Table A1) and phenotypic linear selection gradients (± SE) (Table A2) for all four treatment groups in the Gymnadenia conopsea population at Sølendet.
DOI: 10.6084/m9.figshare.3561219.v1
title: Appendix A. Table of trait means ± SD (Table A1) and phenotypic linear selection gradients (± SE) (Table A2) for all four treatment groups in the Gymnadenia conopsea population at Sølendet.

description: Table of trait means ± SD (Table A1) and phenotypic linear selection gradients (± SE) (Table A2) for all four treatment groups in the Gymnadenia conopsea population at Sølendet.
DOI: 10.6084/m9.figshare.3561216
title: Appendix A. Data Sources, prior specification, and further methods.

description: Data Sources, prior specification, and further methods.
DOI: 10.6084/m9.figshare.3561213
title: Appendix B. Individual components and full results.

description: Individual components and full results.
DOI: 10.6084/m9.figshare.3561210
title: Appendix C. Uncertainty in R0 and full results.

description: Uncertainty in R0 and full results.
DOI: 10.6084/m9.figshare.3561207
title: Appendix A. Supplementary methods: field site locations and description, Lepidoptera rearing, analyses of herbivore reduction efficacy and broken flight trap bias.

description: Supplementary methods: field site locations and description, Lepidoptera rearing, analyses of herbivore reduction efficacy and broken flight trap bias.
DOI: 10.6084/m9.figshare.3561204
title: Appendix B. Generalized linear mixed model tables of coefficients.

description: Generalized linear mixed model tables of coefficients.
DOI: 10.6084/m9.figshare.3561204.v1
title: Appendix B. Generalized linear mixed model tables of coefficients.

description: Generalized linear mixed model tables of coefficients.
DOI: 10.6084/m9.figshare.3561201
title: Deciphering molecular aspects of interaction between anticancer drug mitoxantrone and tRNA

description: Mitoxantrone (1,4-dihydroxy-5,8-bis[[2-[(2-hydroxyethyl)amino]ethyl]amino]-9,10-anthracenedione) is a synthetically designed antineoplastic agent and structurally similar to classical anthracyclines. It is widely used as a potent chemotherapeutic component against various kinds of cancer and possesses lesser cardio-toxic effects with respect to naturally occurring anthracyclines. In the present study, we have investigated the binding features of mitoxantrone–tRNA complexation at physiological pH using attenuated total reflection-Fourier transform infrared (ATR-FTIR) spectroscopy, circular dichroism (CD) spectroscopy, isothermal titration calorimetry, and UV–visible absorption spectroscopic techniques. FTIR analysis reveals that mitoxantrone interacts mainly with heterocyclic base residues of tRNA along with slight external binding with phosphate–sugar backbone. In particular, mitoxantrone binds at uracil (C=O) and adenine (C=N) sites of biomolecule (tRNA). CD spectroscopic results suggest that there is no major conformational transition in native A-form of tRNA upon mitoxantrone–tRNA adductation except an intensification in the secondary structure of tRNA is evident. The association constant calculated for mitoxantrone–tRNA association is found to be 1.27 × 10<sup>5</sup> M<sup>−1</sup> indicating moderate to strong binding affinity of drug with tRNA. Thermodynamically, mitoxantrone–tRNA interaction is an enthalpy-driven exothermic reaction. Investigation into drug–tRNA interaction can play an essential role in the rational development of RNA targeting chemotherapeutic agents, which also delineate the structural–functional relationship between drug and its target at molecular level.
DOI: 10.6084/m9.figshare.3561198
title: Appendix C. Taxonomic composition of specialist predators moving across the habitat edge.

description: Taxonomic composition of specialist predators moving across the habitat edge.
DOI: 10.6084/m9.figshare.3561198.v1
title: Appendix C. Taxonomic composition of specialist predators moving across the habitat edge.

description: Taxonomic composition of specialist predators moving across the habitat edge.
DOI: 10.6084/m9.figshare.3561195
title: Supplement 1. The R source code used to perform the simulation for estimating the effects of potential climate change on future masting behavior of valley oaks (Quercus lobata).

description: File List Supplement_simulation.R (MD5: d3068d78e5f706fadc360e41f4fc06e3) Description Program for simulating the effects of climate change (mean maximum spring temperature) on masting in valley oaks based on the relationships between temperature, phenological synchrony, and the acorn crop. The program does 100 runs of 33 years, each designed to use the field data from Hastings Reservation, central coastal California. The code includes the relevant data for simulations and plots the estimated coefficient of variation (CV) in the acorn crop (as a percentage) as a function of the mean maximum spring temperature ranging from 16 to 22°C. See text of the paper for further details.
DOI: 10.6084/m9.figshare.3561195.v1
title: Supplement 1. The R source code used to perform the simulation for estimating the effects of potential climate change on future masting behavior of valley oaks (Quercus lobata).

description: File List Supplement_simulation.R (MD5: d3068d78e5f706fadc360e41f4fc06e3) Description Program for simulating the effects of climate change (mean maximum spring temperature) on masting in valley oaks based on the relationships between temperature, phenological synchrony, and the acorn crop. The program does 100 runs of 33 years, each designed to use the field data from Hastings Reservation, central coastal California. The code includes the relevant data for simulations and plots the estimated coefficient of variation (CV) in the acorn crop (as a percentage) as a function of the mean maximum spring temperature ranging from 16 to 22°C. See text of the paper for further details.
DOI: 10.6084/m9.figshare.3561192
title: Appendix A. Species list (Table A1), measures of diversity (Table A2) and their correlations (Table A3, Fig. A3)，full GLM results (Tables A4-5), phylogenetic trees (Fig. A1), the removal treatment test (Fig. A2), and correlation between two PDs (Fig. A4).

description: Species list (Table A1), measures of diversity (Table A2) and their correlations (Table A3, Fig. A3)，full GLM results (Tables A4-5), phylogenetic trees (Fig. A1), the removal treatment test (Fig. A2), and correlation between two PDs (Fig. A4).
DOI: 10.6084/m9.figshare.3561192.v1
title: Appendix A. Species list (Table A1), measures of diversity (Table A2) and their correlations (Table A3, Fig. A3)，full GLM results (Tables A4-5), phylogenetic trees (Fig. A1), the removal treatment test (Fig. A2), and correlation between two PDs (Fig. A4).

description: Species list (Table A1), measures of diversity (Table A2) and their correlations (Table A3, Fig. A3)，full GLM results (Tables A4-5), phylogenetic trees (Fig. A1), the removal treatment test (Fig. A2), and correlation between two PDs (Fig. A4).
DOI: 10.6084/m9.figshare.3561189
title: Appendix A. Figures of the experimental unit, biomass and arthropod abundance of neighboring plants, chemistry of focal plants, PCA diagram of arthropod communities, and SEMs for each individual neighboring species.

description: Figures of the experimental unit, biomass and arthropod abundance of neighboring plants, chemistry of focal plants, PCA diagram of arthropod communities, and SEMs for each individual neighboring species.
DOI: 10.6084/m9.figshare.3561189.v1
title: Appendix A. Figures of the experimental unit, biomass and arthropod abundance of neighboring plants, chemistry of focal plants, PCA diagram of arthropod communities, and SEMs for each individual neighboring species.

description: Figures of the experimental unit, biomass and arthropod abundance of neighboring plants, chemistry of focal plants, PCA diagram of arthropod communities, and SEMs for each individual neighboring species.
DOI: 10.6084/m9.figshare.3561186
title: Appendix B. Description of the methods of the chemical and molecular analyses and SEM.

description: Description of the methods of the chemical and molecular analyses and SEM.
DOI: 10.6084/m9.figshare.3561183
title: Appendix C. Tables for PA mass spectrometric settings, abiotic soil characteristics and observed arthropod families.

description: Tables for PA mass spectrometric settings, abiotic soil characteristics and observed arthropod families.
DOI: 10.6084/m9.figshare.3561183.v1
title: Appendix C. Tables for PA mass spectrometric settings, abiotic soil characteristics and observed arthropod families.

description: Tables for PA mass spectrometric settings, abiotic soil characteristics and observed arthropod families.
DOI: 10.6084/m9.figshare.3561180
title: Appendix A. Supplementary methods: 8-bp multiplex barcodes used to differentiate the 16S and 28S gene sequences across samples.

description: Supplementary methods: 8-bp multiplex barcodes used to differentiate the 16S and 28S gene sequences across samples.
DOI: 10.6084/m9.figshare.3561180.v1
title: Appendix A. Supplementary methods: 8-bp multiplex barcodes used to differentiate the 16S and 28S gene sequences across samples.

description: Supplementary methods: 8-bp multiplex barcodes used to differentiate the 16S and 28S gene sequences across samples.