DOI: 10.5061/dryad.2ngf1vhtt
title: Drivers of plant diversity, community composition, functional traits and soil processes along an alpine gradient in the central Chilean Andes

description: The datasets in this repository include plant community surveys,
 hyperspectral reflectance data at the leaf and canopy level, leaf trait
 data, and soil chemistry data collected at five sites along an elevation
 gradient of 2400m-3500m in the Chilean Andes (33°S, 70°W). The purpose of
 this study was to evaluate the environmental drivers of community assembly
 processes along the elevation gradient.
description: Excel, R
description: # Title of Dataset:Drivers of plant diversity, community composition,
 functional traits and soil processes along an alpine gradient in the
 central Chilean Andes --- The datasets in this repository include plant
 community surveys, hyperspectral reflectance data at the leaf and canopy
 level, leaf trait data, and soil chemistry data collected at five sites
 along an elevation gradient of 2400m-3500m in the Chilean Andes (33°S,
 70°W). The purpose of this study was to evaluate the environmental drivers
 of community assembly processes along the elevation gradient. ##
 Description of the Data and file structure trait_dat_comb.csv Summary of
 the data in this file: Leaf traits measured on individuals along an
 elevation gradient in Chile (33°S, 70°W). Traits were measured on fresh
 tissue using a spectroradiometer along the transect (every 0.5 m) using a
 SVC HR 1023i spectroradiometer and leaf clip foreoptic and calculated as
 spectral indices. In the case of leaf percent nitrogen, traits were
 predicted by spectral models developed from leaf nitrogen measured from
 dried leaf tissue. Site_ID: elevation in m of the site and the transect
 number (elevation_transect) species_name: Genus species Elevation:
 elevation of the site in m PRI: Photochemical reflectance index, estimated
 using spectral index (R531 - R570)/(R531 +R570) (Gamon, Serrano, and
 Surfus 1997) ChlNDI: Chlorophyll A normalized difference index, estimated
 using spectral index (R750 - R705) /(R750 +R705) (Gitelson and Merzlyak
 1994) LMA: leaf mass per area, estimated using spectral index (R860/R1240)
 (Zhang, Li, and Zhang 2012) leafNperc: percent nitrogen in the leaf
 tissue, predicted from spectra using models developed from spectra and
 measured leaf percent N from tissue collected from Chile note: cells
 containing "?" are species we were not able to identify
 Citations: Gamon, J. A., L. Serrano, and J. S. Surfus. 1997. “The
 Photochemical Reflectance Index: An Optical Indicator of Photosynthetic
 Radiation Use Efficiency across Species, Functional Types, and Nutrient
 Levels.” Oecologia 112(4): 492–501. Gitelson, Anatoly, and Mark N.
 Merzlyak. 1994. “Quantitative Estimation of Chlorophyll-a Using
 Reflectance Spectra: Experiments with Autumn Chestnut and Maple Leaves.”
 Journal of Photochemistry and Photobiology, B: Biology 22(3): 247–52.
 Zhang, Qianxuan, Qingbo Li, and Guangjun Zhang. 2012. “Rapid Determination
 of Leaf Water Content Using VIS/NIR Spectroscopy Analysis with Wavelength
 Selection.” Spectroscopy (New York) 27(2): 93–105. --- enviro.var.csv
 Summary of the data in this file: Soil properties and chemistry sampled
 from transects along an elevation gradient in Chile (33°S, 70°W). Site_ID:
 elevation in m of the site and the transect number (elevation.transect)
 Site: Elevation (m) Water_content: gravimetric water content (g water/g
 soil) pH: soil pH Nitrogen: bulk nitrogen content (mg N/g soil) Carbon:
 bulk carbon content (mg C/g soil) CN_weight_ratio: bulk ratio of carbon to
 nitrogen in soil N.Min.rate: rate of net nitrogen mineralization (ug N g
 Soil -1 d-1) note: NA value indicates where we were not able to
 successfully acquire a pH value from the meter --- spectra.csv Summary of
 the data in this file: Hyperspectral data measured on fresh leaf tissue
 along an elevation gradient in Chile (33°S, 70°W). sample_name: ID of
 sample Transect: Transect number Site_ID: elevation in m of the site and
 the transect number (elevation_transect) Elevation: Elevation of site (m)
 species_name: species name 402.2-2399.4: spectral reflectance measured at
 a given wavelength (nm) note: Cells containing "x" in the
 transect column indicates these were extra samples taken outside of the
 transects --- spectra_abundances.csv Summary of the data in this file:
 Species abundance matrix of species counted along an elevation gradient in
 Chile (33°S, 70°W). Rows contain elevation sites in m, columns contain
 species names. Values indicate abundance of species at a given site. note:
 cells containing "?" are species we were not able to identify
 --- ALLMB.CCESR.tre Summary of the data in this file: Phylogenetic tree
 constructed using field-collected and herbarium samples. ---
 Transect_species.csv Summary of data in this file: Surveys of plant
 species along an elevation gradient in the Chilean Andes Date: date of
 observation Site: Site number Transect: transect number Distance: meter
 number along the transect Genus_species: Species name code: species code
 used in survey Location: site name Elevation: elevation in meters site_ID:
 elevation in m of the site and the transect number (elevation_transect)
 --- R scripts: taxo_div_clean.R: Taxonomic diversity analysis (species
 richness, Shannon Index, ordination) Phylo_div_clean.R: Phylogenetic
 diversity analysis (phylogenetic species richness, phylogenetic species
 evenness, ordination) Blomberg_sK_clean.R: Calculate Blomberg's K for
 traits to determine phylogenetic signal in traits. Adapted code from Jesus
 Pinto Ledezma: 
 FunDiv_clean.R: Functional diversity analysis (Functional dispersion,
 ordination) SpecDiv_clean.R: Spectral diversity analysis (Spectral
 dispersion, ordination) trait_soil and elevation.R: Analysis of plant
 traits across elevation and soil variables ## Sharing/access Information
 Was data derived from another source? If yes, list source(s):