Data from: Assessing forest structural diversity on lakeshores via aerial LiDAR: Influence of environmental conditions and species composition on structural diversity patterns
Data files
Aug 05, 2026 version files 2.48 MB
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Lake_SHPs.zip
990.63 KB
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Lakeshore_FSD_Code_2026.R
59.80 KB
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README.md
5.26 KB
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Transect_Census.csv
23.06 KB
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Transect_Coords.csv
6.44 KB
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Transect_Data.csv
20.23 KB
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Whole_Lake_FSD.csv
1.37 MB
Abstract
Forests vary in their compositional and structural diversity along natural gradients. In northern temperate forests, freshwater lakes create a natural edge effect by producing abiotic gradients in moisture, light, and nutrients. These abiotic gradients are prime factors to create steep gradients in forest composition and structure with distance from the shore. Variation in forest composition and structure can then influence the ecosystem services forests provide and the overall biodiversity of the system. One of the greatest pressures on temperate forests within areas that have a high density of lakes is human development of the lakeshores. Thus, quantifying how forest compositional and structural diversity is related to distance from the lakeshore is of fundamental importance, but it has been difficult to quantify on broad spatial extents. Here, we integrate field-based measurements of forest composition and environmental conditions with airborne LiDAR data in the Northwoods region of the United States to quantify the impact of spatial and environmental factors on forest structural diversity. We report rapid changes in forest structural diversity over the first 40 m from the shoreline and identify the underlying abiotic and biotic factors such as the topographic wetness index, Shannon diversity, and mean stand age that influence forest structural diversity using statistical models with structural diversity calculated via aerial LiDAR. The results of this study elucidate the importance of lakeshores for contributing to overall ecosystem diversity in the region and provide a scalable approach for rapidly quantifying forest structural diversity in proximity to lakeshores via aerial LiDAR.
Dataset DOI: 10.5061/dryad.2bvq83c63
Description of the data and file structure
Title: Assessing Forest Structural Diversity on Lakeshores via Aerial LiDAR: Influence of Environmental Conditions and Species Composition on Structural Diversity Patterns
Date of field data collection: 6/10/24 to 7/20/24
Site Location: University of Notre Dame Environmental Research Center, Land O'Lakes, WI, USA | Lat: 46.235, Long: -89.523
Field data was collected on forest composition and environmental gradients to combine with aerial LiDAR data collected by the National Ecological Observatory Network to understand the factors influencing forest structural diversity along the natural edge created on lakeshores.
Files and variables
File Formats Present: .CSV, .R, .SHP | .TIFF, .LAZ data accesible via NEON Data Portal in Code
File: Transect_Census.csv
Description: Tree census data along transects by distance
Variables
- lake_transect: location identifier, transects 1-4 on four lakes Bay, Brown, Crampton, Morris
- distance: distance in m along transect of circular census plot
- genus: identified genus in field
- dbh: field measured diameter at breat height in cm with standard DBH tape
- height: field measured tree height in m using Haglof Vertex Hypsometer
- canopy: marked u for understory or c for canopy contributing individual
File: Transect_Coords.csv
Description: Coordinate locations of transects
Variables
- Distance: distance along transect
- Lake_Transect_Easting: easting coordinate in 16N for given lake_transect
- Lake_Transect_Northing: northing coordinate in 16N for given lake_transect
File: Transect_Data.csv
Description: Data for environmental gradients, biotic composition, and structural diversity metrics along transects by distance
Variables
- lake_transect: location identifier, transects 1-4 on four lakes Bay, Brown, Crampton, Morris
- type: lake type defined as 1 for drainage lakes and 2 for seepage lakes, see Oleksy et al. 2022 for more about categorization
- distance: distance in m along transect of abiotic measurements and extracted NEON data
- soil_moisture: soil core lab measured soil moisture in g/cm3
- canopy_openness: canopy gap fraction *100 for % unit, measured by hemispherical lens and calculated in R with hemispheR package
- dominant_genus: most abundant genus inside of census plot
- canopy_ratio: calculated ratio of canopy contributing trees to all trees censused in the plot
- mean_age: average age of trees in plot censused at respective distance
- max_age: max age of trees in plot censused at respective distance
- shannon: shannon diversity index of the genera in the plot at respective distance
- simpson: simpsons diversity index of the genera in the plot at respective distance
- richness: species richness of the genera in the plot at respective distance
- elevation: elevation in m extracted from NEON DEM
- slope: slope extracted from NEON DEM
- aspect: aspect of slope extracted from NEON DEM
- twi: topographic wetness index, calculated from elevation and slope from NEON DEM
- hli: heat load index, transformation of slope and aspect from NEON DEM
- z50: median vegetation height for given distance
- z95: canopy vegetation height for given distance
- vertical_complexity: value of vertical complexity for given distance
- enl: effective number of layers for given distance
- rugosity: value of rugosity for given distance
File: Whole_Lake_FSD.csv
Description: Forest structural diveristy metrics for the whole lakeshores
NA: NA fills any cell where the forest structural diversity metrics could not be calculated due to non-woody vegetation, water, or flagged points in the LiDAR point cloud
Variables
- distance: distance of 10x10 m polygon centroid from lakeshore
- median: median vegetation height of 10x10 m polygon
- canopy: canopy vegetation height of 10x10 m polygon
- rugosity: rugosity of 10x10 m polygon
- vci: vertical complexity index of 10x10 m polygon
- enl: effective number of layers of 10x10 m polygon
- lake: lake the data is associated with
File: Lake_SHPs.zip
Description: Includes all of the shp (and associated) files with 10x10 m polygons for the ten lakes to calculate whole lakeshore structural diversity metrics
Code/software
Required software: R (Version 4.4.0), RStudio, RTools, ArcGIS Pro
File: Lakeshore_FSD_Code_2026.R
Description: Complete code used to analyze field data, extract topographic variables, calculate LiDAR structural metrics, develop models, and create figures
R packages used - tidyverse, vegan, lidR, terra, neonUtilities, hemispheR, lme4, sf, whitebox, segmented, quantreg
Access information
LiDAR data was downloaded from the following source: National Ecological Observatory Network (NEON) - https://data.neonscience.org/data-products/explore
Site: UNDE, Year: 2024
