Data from: Multiple plant traits shape the genetic basis of herbivore community assembly

Barbour MA, Rodriguez-Cabal MA, Wu ET, Julkunen-Tiitto R, Ritland CE, Miscampbell AE, Jules ES, Crutsinger GM

Date Published: January 29, 2015

DOI: http://dx.doi.org/10.5061/dryad.b1296

 

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Title Table S7: Willow trait REML models
Downloaded 30 times
Description This R script reproduces Table S7 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." This script contains all of the restricted maximum likelihood (REML) models and broad-sense heritability estimates of the 40 willow (Salix hookeriana) traits measured in this common garden experiment.
Download trait_REML_table.R (13.04 Kb)
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Title Table S4: Heatmap of willow phenotypic correlations
Downloaded 30 times
Description This R script reproduces Table S4 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, this script calculates willow (Salix hookeriana) phenotypic correlations (Pearson's r) among the 40 traits measured in this common garden experiment. This script also generates a heat map for visualizing these correlations.
Download trait.corr_plot.R (8.513 Kb)
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Title Fig. 3: Multipanel figure of genetic variation in willow traits
Downloaded 22 times
Description This script reproduces Fig. 3 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, it calculates and plots the mean and standard error of several plant traits measured among the 26 willow genotypes used in this common garden experiment.
Download plant.trait_plots.R (10.03 Kb)
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Title Fig. 2: Multipanel figure of herbivore guild responses to willow genotype
Downloaded 16 times
Description This R script reproduces Fig. 2 in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." Specifically, this script calculates and plots the mean and standard error of the abundance of each feeding guild occurring on the 26 willow genotypes measured in this common garden experiment.
Download herb.guild_responses_genotype.R (6.76 Kb)
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Title Fig. 1 & S6: Herbivore community responses to willow genotype
Downloaded 31 times
Description This R script reproduces Fig. 1 & S6 in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
Download herb.com_responses_genotype.R (6.273 Kb)
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Title Summary of results for herbivore community responses to willow genotype.
Downloaded 35 times
Description This R script runs one-way ANOVA, GLMs, and RDA models of herbivore community responses to willow genotype. These results are reported in the first 2 paragraphs of the Results section of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
Download herb.com_anova_table.R (7.546 Kb)
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Title Table 1 & 2: Phenotypic and genetic correlations of herbivore guild and species responses
Downloaded 10 times
Description This R script reproduces the results reported in Table 1 & 2 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly. Specifically, this script calculates Pearson correlations for phenotypic and genotypic correlations of herbivore community.
Download herb.com_corr_table.R (2.897 Kb)
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Title Table 3: willow traits that best predict herbivore community responses
Downloaded 27 times
Description This R script runs the forward model selection approach advocated by Blanchet et al. (2008, Ecology) to identify which willow traits best predict herbivore community responses. After identifying these traits, I then determined whether willow genotype still had a significant effect. These results are reported in Table 3 of the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
Download herb.trait_regressions.R (11.40 Kb)
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Title Table S5: Principal Component Analysis of willow phenolic compounds
Downloaded 14 times
Description This R script replicates the principal component analyses we performed on different classes of phenolic compounds (Table S5) in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly." We explored different transformations (sqrt, log, log(x+1)) to linearize the relationships among leaf phenolic compounds. We then used scree plots and visual inspection of phenolic compound loadings to choose interpretable principal componenents. All PCs were performed on the correlation matrix to give equal weight to each phenolic compound.
Download phenolic_pcas.R (7.869 Kb)
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Title Willow herbivore community and plant trait management script
Downloaded 16 times
Description This R script manages the herbivore community and plant trait data for the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly". This file is sourced in for all of the other R scripts associated with this manuscript so that all of the figures, tables, and analyses are reproducible.
Download herb_trait_manage.r (7.157 Kb)
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Title Willow genotype, herbivore community, and plant trait data
Downloaded 43 times
Description Contains all of the data that is analyzed and reported in the manuscript entitled, "Multiple plant traits shape the genetic basis of herbivore community assembly."
Download herb.trait.data.csv (136.6 Kb)
Download README.rtf (5.849 Kb)
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When using this data, please cite the original publication:

Barbour MA, Rodriguez-Cabal MA, Wu ET, Julkunen-Tiitto R, Ritland CE, Miscampbell AE, Jules ES, Crutsinger GM (2015) Multiple plant traits shape the genetic basis of herbivore community assembly. Functional Ecology 29(8): 995-1006. http://dx.doi.org/10.1111/1365-2435.12409

Additionally, please cite the Dryad data package:

Barbour MA, Rodriguez-Cabal MA, Wu ET, Julkunen-Tiitto R, Ritland CE, Miscampbell AE, Jules ES, Crutsinger GM (2015) Data from: Multiple plant traits shape the genetic basis of herbivore community assembly. Dryad Digital Repository. http://dx.doi.org/10.5061/dryad.b1296
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