Data from: Fecal biomarkers in soils record landscape-scale wild herbivore abundance
Data files
Oct 14, 2025 version files 28.11 KB
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KNP.HEX.compounds.sums.ratios.csv
5.77 KB
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KNP.HEX.Dung.Counts.csv
2.77 KB
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KNP.HEX.Fecal.Steroids.csv
4.74 KB
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KNP.HEX.sample.metadata.csv
3.27 KB
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README.md
10.63 KB
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Wendt_et_al_2024_sum_herb_ratios.csv
928 B
Abstract
In Earth history, our understanding of how large-bodied herbivores shape a variety of ecosystem processes is limited by the quality of paleoecological proxies for herbivore composition and abundance. Fecal stanols are lipids that can be produced by microbes within animal digestive systems and that could remedy this dearth of proxies. We use two multi-decadal herbivore exclosures in Kruger National Park, South Africa, to constrain whether and how biomarker signatures preserve signals of herbivore abundance. Soil samples and dung counts were collected along transects across crest, mid-slope, and sodic sites inside and outside exclosures. Soils were analyzed for steroid (sterols and stanols) concentrations and distributions. We found that stanol concentrations were significantly greater in sodic soils outside exclosures, where herbivore dung densities were greatest. By contrast, sterol concentrations did not differ between treatments. Ratios of stanol isomers to sterols, which account for both compound degradation and source, increased strongly with herbivore dung counts. Finally, while herbivore species compositions influenced steroid distributions, total herbivore abundance was their strongest predictor. Further calibration is needed, but this work provides strong preliminary evidence that wild herbivore populations are quantitatively recorded by fecal biomarker distributions.
https://doi.org/10.5061/dryad.5x69p8dfw
Description of the data and file structure
Methods are described in detail in the manuscript. Here we present herbivore dung count data and fecal steroid concentration data from herbivore exclusion experiments in Kruger National Park (South Africa).
Files and variables
File: KNP.HEX.sample.metadata.csv
Description: Metadata associated with soil samples collected
Variables
- Sample.name: Name of soil sample collected
- Experiment: Name of experiment NKH stands for Nkhuhlu, and HLG stands for Hlangwini
- Treatment: If the sample was collected from an enclosure (EX) where no herbivores were present or a control where herbivores were present (CON)
- Soil.Profile: Where the transect was located in the cateanal profile, the crest, mid slope (mid), or sodic zone (sod)
- Soil.Depth: The depth the soil sample was collected at either 0-5 cm or 0-1 cm
- Replicate: The replicate designation of the transect (A or B)
- big.herb.total: The total dung count of all big (excluding hares, duiker, and porcupine) herbivores across the transect
- herb.total: The total dung count of all herbivores across the transect
- Carnivore.total: The total dung count of carnivores across the transect
- Lat: the Latitude of the start of the transect
- Long: the Longitude of the start of the transect
File: KNP.HEX.compounds.sums.ratios.csv
Description: Compound sums and ratios measured from soil samples
Variables
- Sample.name: Name of soil sample collected
- total.stanols: The sum of all stanols measured (ng/g soil)
- total.sterols: The sum of all sterols measured (ng/g soil)
- total.plant.stanols: The sum of all plant stanols (5beta3betaβπ π‘πππππ π‘ππππ + 5alpha3betaβππππππ π‘ππππ, 5beta3alphaβsπ‘πππππ π‘ππππ, 5alpha3betaβπ π‘πππππ π‘ππππ) measured (ng/g soil)
- total.plant.sterols: The sum of all plant sterols (π π‘πππππ π‘ππππ + betaβπ ππ‘ππ π‘ππππ + πΆπππππ π‘ππππ) measured (ng/g soil)
- total.beta.stanols: The sum of all beta stanols (5beta3betaβπβππππ π‘ππππ, 5beta3alphaβπβππππ π‘ππππ, 5beta3betaβπ π‘πππππ π‘ππππ, 5beta3alphaβπ π‘πππππ π‘ππππ) measured (ng/g soil)
- total.alpha.stanol: The sum of all alpha stanols (5alpha3betaβπβππππ π‘ππππ, 5alpha3betaβππππππ π‘ππππ, 5alpha3betaβπ π‘πππππ π‘ππππ) measured (ng/g soil)
- total.betasigma.stanols: The sum of all beta stigmastanols (5beta3betaβπ π‘πππππ π‘ππππ , 5beta3alphaβπ π‘πππππ π‘ππππ) measured (ng/g soil)
- total.alphasigma.stanols: The sum of all alpha stigmastanols (5alpha3betaβπ π‘πππππ π‘ππππ) measured (ng/g soil)
- PS: The plant steroid ratio (PS) as defined in the EQ5 of the publication: (5alpha3betaβπ π‘πππππ π‘ππππ + 5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ + 5alpha3betaβππππππ π‘ππππ)/(5alpha, 3betaβπ π‘πππππ π‘ππππ + 5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ + 5alpha3betaβππππππ π‘ππππ + π π‘πππππ π‘ππππ + betaβπ ππ‘ππ π‘ππππ + πΆπππππ π‘ππππ)
- PU: The Pee-eww ratio (PU) as defined in the EQ6 of the publication: (5beta3betaβπ π‘πππππ π‘ππππ + 5alpha3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ)/(5alpha3betaβπ π‘πππππ π‘ππππ + π π‘πππππ π‘ππππ + betaβπ ππ‘ππ π‘ππππ)
- beta.stig.alpha: As defined in EQ3 of the publication: (5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ)/(5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ + 5alpha3betaβπ π‘πππππ π‘ππππ)
- beta_stig.beta_epi_stig: As defined in EQ2 of the publication: 5beta3betaβ π π‘πππππ π‘ππππ/(5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ)
- beta_cop.beta_cop_alpha_chlo: As defined in EQ4 of the publication: (5beta3betaβπβππππ π‘ππππ + 5beta3alphaβπβππππ π‘ππππ)/ (5beta3betaβπβππππ π‘ππππ + 5beta3alphaβπβππππ π‘ππππ + 5alpha3betaβπβππππ π‘ππππ)
- cop.cop_epi: As defined in EQ1 of the publication: 5beta3betaβπβππππ π‘ππππ/(5beta3betaβπβππππ π‘ππππ + 5beta3alphaβπβππππ π‘ππππ)
File: KNP.HEX.Dung.Counts.csv
Description: Dung counts for transects that correspond to each soil sample
Variables
- Sample.name: Name of soil sample collected
- elephant: dung counts
- impala: dung counts
- kudu: dung counts
- giraffe: dung counts
- buffalo: dung counts
- wildebeest: dung counts
- waterbuck: dung counts
- zebra: dung counts
- warthog: dung counts
- duiker: dung counts
- steenbok: dung counts
- bushbuck: dung counts
- nyala: dung counts
- hippo: dung counts
- porcupine: dung counts
- hare: dung counts
File: KNP.HEX.Fecal.Steroids.csv
Description: ng/g concentrations of fecal steroids measured from soil samples
Variables
- Sample.name: Name of soil sample collected
- Coprostanol: 5beta3betaβπβππππ π‘ππππ (ng/g soil)
- Epicoprostanol: 5beta3alphaβπβππππ π‘ππππ (ng/g soil)
- Cholesterol: Cholesterol (ng/g soil)
- 5alpha.Cholestanol: 5alpha3betaβπβππππ π‘ππππ (ng/g soil)
- 5beta.Stigmastanol: 5beta3betaβπ π‘πππππ π‘ππππ (ng/g soil)
- Epi.5beta.stigmastanol: 5beta3alphaβπ π‘πππππ π‘ππππ (ng/g soil)
- Campesterol: πΆπππππ π‘ππππ (ng/g soil)
- Campestanol: 5alpha3betaβππππππ π‘ππππ (ng/g soil)
- Stigmasterol: π π‘πππππ π‘ππππ (ng/g soil)
- Sitosterol: betaβπ ππ‘ππ π‘ππππ l (ng/g soil)
- 5alpha.Stigmastanol: 5alpha3betaβπ π‘πππππ π‘ππππ (ng/g soil)
File: KNP.HEX.herb.characteristics.csv
Description: Characteristics of the species of herbivores whose dung was found in the transects
Variables
- Species: Common name of species
- scientific_name: Scientific name of species
- diet_preference: Diet preference, b = browser, mf = mixed feeder, g = grazer. Designations after Abraham et al (2021): https://doi.org/10.5061/dryad.31zcrjdnb
- digestive_system: Digestive system, R = ruminant, NR = non-ruminant
File: Wendt_et_al_2024_sum_herb_ratios.csv
Description: Summary data for lake core samples with historical herbivore density estimates from Wendt et al (2024): https://doi.org/10.1371/journal.pone.0311950
Variables
- Zoostanol: After Wendt et al (2024), the sum of concentrations of 5Ξ²-stanols measured in this study (5Ξ²3Ξ²-cholestanol, 5Ξ²3Ξ±-cholestanol, 5Ξ²3Ξ²-stigmastanol, 5Ξ²3Ξ±-stigmastanol) (ng/cm3)
- PS: The modified (no campestanol) plant steroid ratio (PS) as defined in the EQ5 of the publication: (5alpha3betaβπ π‘πππππ π‘ππππ + 5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ + 5alpha3betaβππππππ π‘ππππ)/(5alpha, 3betaβ π π‘πππππ π‘ππππ + 5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ + π π‘πππππ π‘ππππ + betaβπ ππ‘ππ π‘ππππ + πΆπππππ π‘ππππ)
- PU: The Pee-eww ratio (PU) as defined in the EQ6 of the publication: (5beta3betaβπ π‘πππππ π‘ππππ + 5alpha3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ)/(5alpha3betaβπ π‘πππππ π‘ππππ + π π‘πππππ π‘ππππ + betaβπ ππ‘ππ π‘ππππ)
- Year: Date in AD of sediment sample
- Elk num: historical number of elk for that year
- Bison num: historical number of bison for that year
- kg sum: The summed kilograms of bison and elk biomass. Calculated by multiplying the number of elk by 235 kg and the number of bison by 665 kg. (kg)
- million kg sum: The summed millions of kilograms of bison and elk biomass. (millions kg)
- num sum: the total number of elk and bison
- management: where were the bison during the winter, based on management discussion in Wendt et al. (2024). natural = means bison were not foddered by the lake. Winter restricted = means the bison were foddered by the lake
- Stigmastanol: Sum of concentration of all the sigmastanol isomers measured 5Ξ²3Ξ²-stigmastanol, 5Ξ²3Ξ±-stigmastanol, 5Ξ±3Ξ²-stigmastanol (ng/cm3)
- stigma ratio: As defined in EQ3 of the publication: (5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβπ π‘πππππ π‘ππππ)/(5beta3betaβπ π‘πππππ π‘ππππ + 5beta3alphaβ π π‘πππππ π‘ππππ + 5alpha3betaβπ π‘πππππ π‘ππππ)
