Defense traits vary across leaf ages in the thistles (Cardueae)
Data files
Feb 25, 2026 version files 54.79 KB
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README.md
2.92 KB
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trait_data_with_counts.csv
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Abstract
Plants produce a variety of structural and chemical defenses to deter herbivores, which can covary across every scale of biological organization. Along these lines, it has been suggested that young leaves differ from old leaves in their defense strategies, but studies have largely focused on woody plants and/or chemical traits. Thus, we lack an understanding of how structural and chemical defenses ontogenetically covary across a large portion of plant diversity. We investigate the range of structural and chemical defenses of thistles (tribe Cardueae), which comprise herbaceous species with a wide spectrum of defensive traits. We collected structural and chemical trait data across species and leaf ages from field collections, herbarium specimens, and the literature. Species’ young leaves tend to produce similar suites of traits, with greater interspecific variation in older leaves. Young leaves are dominated by chemical defenses, while older leaves produce a broader range of both chemical and physical defense traits. Leaf spininess is associated with a distinct chemical profile that differs from that of non-spiny species. Our study demonstrates how defense strategies can vary across the leaves of herbaceous species and their ages. Expanding such efforts will be critical to further our macroevolutionary understanding of variation in plant defenses.
Dataset DOI: 10.5061/dryad.k0p2ngfnq
Description of the data and file structure
This dataset is associated with the manuscript, "Defense traits vary across leaf ages in the thistles (Cardueae)", published at Functional Ecology. It includes the dataset used for analysis, including data on all of the traits evaluated for each individual plant.
We collected data on both physical and chemical traits to evaluate how leaf defenses vary across individuals, populations, and species in the thistles (Cardueae). We focused on data from seven species collected in Indiana, and then supplemented that dataset with additional chemical data from 34 herbarium collections.
Files and variables
File: trait_data_with_counts.csv
Description:
Variables
- Species: the species collected
- Population: population ID (associated with species)
- Individual: individual ID (must be combined with population and species to be unique)
- Leaf_age: divided into "young" (upper most fully expanded leaf below the reproductive inflorescence), "intermediate" (a leaf mid-way between the young and old leaves), and "old" (basal-most leaf that was largely undamaged)
- trichome_density: the number of trichomes counted per mm2; if trichome density was too high to count, we set this value at 50/mm2 (centered and scaled)
- SLA: specific leaf area (centered and scaled)
- ID: the combined unique ID for each sample, combines species with population ID, individual ID, and leaf age
- total_long_spines: the total number of spines > 3mm in length (centered and scaled)
- mean_spine_length: the mean length of spines > 3mm in length (centered and scaled)
- Leaf_length: total length of the leaf in cm
- rel_spine_length: length of the longest spine/length of the leaf
- alkaloids: count of number of molecules assigned to alkaloid pathway (centered and scaled)
- flavonoids: count of number of molecules assigned to flavonoid pathway (centered and scaled)
- terpenoids: count of number of molecules assigned to terpenoid pathway (centered and scaled)
- phenols: count of number of molecules assigned to phenol pathway (centered and scaled)
- Cap: cap ID for mass spec analyses
- Year: year of sample collection
- FuncHillDiv: functional Hill diversity (centered and scaled)
- features_present: the total number of chemical features present per leaf (centered and scaled)
- count_Alkaloids: raw total count of alkaloids
- count_Flavonoids: raw total count of flavonoids
- count_Phenols: raw total count of phenols
- count_Terpenoids: raw total count of terpenoids
Code/software
R packages used:
lmerTest
ggfortify
factoextra
NbClust
chemodiv
Access information
Other publicly accessible locations of the data:
- none
Data was derived from the following sources:
- none
