Data from: Seed bank diversity and composition during natural tropical forest regeneration
Data files
Jul 28, 2025 version files 171.64 KB
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data.xlsx
95.28 KB
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README.md
3.32 KB
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Seed_bank_diversity_and_composition_during_natural_tropical_forest_regeneration.Rmd
73.04 KB
Abstract
Regeneration of tropical forests following agricultural abandonment is a critical process for global ecosystem restoration and climate change mitigation. Despite being a key component of tropical secondary succession, our understanding of soil seed bank dynamics remains incomplete. This study examines the soil seed bank in 10 forest stands, 10 to 130 years after abandonment, and two agricultural areas in and around the Barro Colorado Natural Monument in central Panama. Using this chronosequence that spans early to late successional stages, we investigated changes in density, species richness, dispersal mode, and composition of the soil seed bank. While early succession was dominated by herbaceous species, their density and richness declined sharply in the first decades. By 50 years, seed densities had stabilised at a lower level and were dominated by woody species, whose species richness and density increased over time. In terms of species composition, forest sites ≤ 10 years old differed significantly from sites ≥ 50 years. Seed banks of sites 50 to 130 years old were similar to each other in species composition based on abundance but not incidence, suggesting a slow recovery of rare species. Our findings also indicate the recovery of animal-dispersed seeds in older forests and that forest integrity, which reflects the condition and continuity of the surrounding forest, was more influential than forest age in driving seed bank recovery. These results emphasise the prominent role of animal seed dispersers and intact, well-connected forest patches in driving seed bank recovery and, by extension, forest regeneration.
Dataset DOI: 10.5061/dryad.n02v6wx8w
Description of the data and file structure
Data from: Seed bank diversity and composition during natural tropical forest regeneration.
The data were collected in 2024 in the Barro Colorado Nature Monument, central Panama. Identity and number of species were determined using the germination method. Data related to aboveground vegetation, species nativity, and seed dispersal were gathered from other publications.
Files and variables
File: data.xlsx
File Descriptions
1. Census: contains data from seed bank sampling and the germination process.
- Plot_id_census: Name of the sample site as recorded during the census
- Sample_num: Sample number (1-20) indicating which sampling event the seedling was detected in
- Germination_date: Date when the censused seedling germinated
- Seedling_id: Identification of the seedling (to species, genus, family level, or morphospecies)
2. Standing_vegetation: records of all species identified in the sampling vegetation during previous tree censuses.
- Plot_id: Name of the sample site as it appears in publications (differs from Plot_id_census)
- Species_Name: Scientific name of the tree species
3. Species_description: information on seed dispersal methods and nativity status of all species recorded in the seed bank.
- Seedling_id: Identification of the seedling (to species, genus, family level, or morphospecies)
- Growth_form: Growth form classification (liana, herb, tree, or shrub)
- Woody: Whether the species is woody or non-woody
- Bat: Dispersed by bats (TRUE/FALSE)
- Small_bird: Dispersed by small birds (TRUE/FALSE)
- Large_bird: Dispersed by large birds (TRUE/FALSE)
- Nonvolant_mammal: Dispersed by non-flying mammals (TRUE/FALSE)
- Wind: Wind dispersed (TRUE/FALSE)
- Explosive: Explosive dispersal mechanism (TRUE/FALSE)
- Water: Water dispersed (TRUE/FALSE)
- Invasive: Nativity status (N = native, I = introduced; note that I indicates introduced, not necessarily invasive)
4. Plots_description: information about the study sites.
- Plot_name: Full name of the plot
- Plot_id: Plot identifier used in publications
- Plot_id_census: Plot identifier used during census (matches Census file)
- Longitude_W: Longitude in decimal degrees West (Geographic coordinates are provided in decimal degrees using the WGS84 datum)
- Latitude_N: Latitude in decimal degrees North
- Age: Forest age in years, approximated to the nearest 10 years
- Integrity: Forest landscape integrity index value (0-10 scale, following Grantham et al. 2020)
5. Samples_list: complete list of all samples in the study (20 samples per site).
- Plot_id: Plot identifier
- Sample_id: Unique identifier combining Plot_ID with sample number (1-20)
- Age: Forest age
6. Metadata: information about morphospecies relabeling after additional identification efforts.
File: Seed_bank_diversity_and_composition_during_natural_tropical_forest_regeneration.Rmd
Description:
R script used to perform the analyses. Rmd format.
Code/software
Analyses were performed using R (version 4.2.3) in the RStudio environment.