Data from: Seed survival in tropical pioneer trees is unrelated to conspecific distance but linked to fungal infection
Data files
Oct 06, 2025 version files 5.82 MB
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fulldata_p20_abundance.csv
1.83 MB
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README.md
3.29 KB
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slants_germination_all.csv
3.99 MB
Abstract
Plant demography is heavily influenced by individual survival at local scales, with host-specific natural enemies potentially reducing the survival of seeds and seedlings in high-density patches near conspecific adults, favoring heterospecific recruitment, and ultimately increasing local plant diversity. Enemy pressure should differ between sites directly beneath and away from their hosts’ crowns, between sites where their hosts are abundant versus rare, and among potentially competing plant species. Assessing the potential pathways by which enemies affect diversity at local scales requires coupling experimental approaches that track plant performance with characterization of their enemy communities. We focused on the fate of individuals at the seed stage, a critical demographic bottleneck in the plant life cycle. We tested how seed germination is affected by fungal infection, distance from the adult tree, burial duration, and host tree identity. We conducted a seed burial experiment on BCI, Panama, using four pioneer tree species. Seeds were buried beneath and 30 m away from adult trees and retrieved after 3 and 12 months. We measured germination, cultured seed-infecting fungi, and evaluated fungal communities using amplicon sequencing. Germination of all tree species declined with burial time. Germination of seeds buried below vs. away from focal trees also did not differ. Fungal isolation frequency and richness increased after burial but did not change with distance or identity of the adult tree. Fungal communities in seeds differed markedly among species, but distance, burial duration, and seed viability status had little effect on community composition. We found limited evidence that distance from conspecifics drives seed mortality in the soil. Nonetheless, seed exposure to the soil increases fungal infections and decreases seed survival, highlighting the role of fungi in seed demography. We recommend that future research explore the mechanisms by which host-generalist soilborne fungi may drive seed mortality in plant communities.
Dataset DOI: 10.5061/dryad.b5mkkwhr9
Description of the data and file structure
Seed survival in tropical pioneer trees is unrelated to conspecific distance but linked to fungal infection.
Authors: Daniela Varon-Garcia, Carolina Sarmiento, A. Elizabeth Arnold, James W. Dalling, Adam S. Davis, Elizabeth A. Bowman, Paul-Camilo Zalamea.
Correspondence: Paul-Camilo Zalamea
e-mail: paulcamiloz@usf.edu or camilozalamea@gmail.com
We conducted a seed burial experiment to investigate how fungal infection influences seed germination patterns and to examine the effects of distance from the adult tree, burial duration, and host tree identity on seed germination. We buried seeds of four pioneer trees (Jacaranda copaia, Cecropia insignis, C. peltata, and C. longipes) below and 30 m away from the crowns of adult trees of C. insignis and J. copaia at Barro Colorado Island, Panama. We retrieved seeds 3 and 12 months after burial, recorded germination, cultured seed-infecting fungal infections, and evaluated fungal community structure via a culture-independent approach.
This dataset includes two files: i) the germination and MEA slant colonization for individual seeds of four tropical pioneer trees used in this study (slants_germination_all.csv, and ii) OTU abundance based on 97% sequence similarity for groups of 20 seeds per species (fulldata_p20_abundance.csv). The missing data are represented as NA.
Files and variables
File: fulldata_p20_abundance.csv
Description:
Variables
- sample: pool of 20 seeds number
- seed_species: species of seeds incubated in soil
- time: burial time (3 or 12 months, 0 corresponds to seeds that were never buried)
- pool_type: 20 seeds
- tree_n: tree unique number
- tree_species: species of tree
- treatment: below or 30 m away from the crown
- viability: 1 viable seed 0 inviable seeds
- distance_m: 0 or 30 m
- Column J to column BXX: OTU abundance based on 97% sequence similarity for groups of 20 seeds per species
File: slants_germination_all.csv
Description:
Variables
- seed_id: Seed unique number
- seed_species: species of seed
- seed_sp_init: species initials
- time: burial time (3 or 12 months, 0 corresponds to seeds that were never buried)
- maternal_source: unique maternal source number
- tree_number: unique tree number
- tree_species: species of tree where seeds were buried
- distance: 0 or 30 m
- replicate: four cardinal directions
- burial_date: burial date
- recolection_date: retrieval date
- measure: slants or germination
- fit_to_use: 1 fit to use, 0 unfit to use
- germination: 1 germination, 0 no germination
- germ_date: germination date
- box: unique box number for DNA extractions
- position: unique position on the box for DNA extractions
- cul_ID: unique ID for the culture
- slant_date: culture date
- viability: 1 viable seed, 0 inviable seeds
- TZ_confidence: 1: 100%, 0: 0%
- fungal_growth: 1 growth, 0 no growth
- bacterial_growth: 1 growth, 0 no growth
- contamination: bacteria or fungal contamination
- notes: notes
