************************************************************************************************************************************* ReadMe file accompanying data file for: "Logging, exotic plant invasions, and native plant reassembly in a lowland tropical rainforest." Authors: Timm F. Döbert, Bruce L. Webber, John B. Sugau, Katharine J.M. Dickinson & Raphael K. Didham Published in: Biotropica DOI: ************************************************************************************************************************************* File name: PlotData.csv Description: This csv file contains the full database of characteristics for each of 159 vegetation plots (A-F and LF) including logging metrics, environmental variables as well as specific data on native and exotic plants. Contact authors: Timm Döbert (timm.dobert@gmail.com); Raphael Didham (raphael.didham@csiro.au) Column headings: plot.code: Vegetation plot unique identifier block: One of seven sampling blocks (A-F and LF) across the study landscape fragment: One of three fragment designations (1ha, 10ha or 100ha) within a block north: UTM northing coordinate east: UTM easting coordinate elevation: The elevation of a plot (m) forestloss17: The proportion of forest canopy loss at the local scale, i.e. within a 17m radius (%) forestloss562: The proportion of forest canopy loss at the landscape scale, i.e. within a 562m radius (%) roaddensprim: Regional-scale density of continuously-maintained primary logging roads (km/km2) roaddenssec: Regional-scale density of occasionally-used secondary logging roads (km/km2) roaddistprim: Distance to nearest primary road (m) roaddistsec: Distance to nearest secondary road (m) river: Distance to nearest river (> 3m width; m) pH: Soil pH humus: Soil humus depth (cm) soilN: Total soil nitrogen content (mg.cm-3) soilP: Plant available soil phosphorus content (µg.cm-3) bulkdens: Soil bulk density (g.cm-3) soilmoist: Soil moisture factor soilPC1: Principal component axis 1 scores from a PCA of the six soil-biogeochemical variables soilPC2: Principal component axis 2 scores from a PCA of the six soil-biogeochemical variables ex.richness: The species richness of exotic plants. ex.drywght: The dry above-ground biomass of exotic plants. ex.lai: The leaf area index of exotic plants. native.richness: The species richness of native plants. native.drywght: The dry above-ground biomass of native plants. native.lai: The leaf area index of native plants. dissim: dissimilarity of each of the logged forest plots (blocks A–F and LF) to the average dissimilarity of the 33 old-growth (OG) plots as a collective old-growth forest reference point derived from the Gower distance matrix in the NMDS analysis clihir.pre: The presence (1) or absence (0) of Clidemia hirta. clihir.abs: The absence of Clidemia hirta (1). NOTE: This column is required for the GLMM analysis. dipt.drywght: The dry above-ground biomass of dipterocarp trees. native.drywght.nodipt: The dry above-ground biomass of native plants excluding dipterocarps. ************************************************************************************************************************************ File name: SpeciesData.csv Description: This csv file contains the complete list of species (723) sampled across 192 vegetation plots (2 x 2m; A-F, LF and OG) located at the Stability of Altered Forest Ecosystems (SAFE) project in Sabah, Malaysia, including a distinction between native and exotic species origin. Contact authors: Timm Döbert (timm.döbert@gmail.com); Raphael Didham (raphael.didham@csiro.au) Column headings: species.code: Unique code for each plant taxa family: Plant family name genus: Plant genus name species: Plant species name or unique identifier where species indeterminate species.name: The genus and species name origin: Distinction between native (n) and exotic (e) plant species *********************************************************************************************************************************** File name: PlotSpeciesData.csv Description: This csv file contains a matrix of biomass values for 723 plant taxa sampled across 192 vegetation plots (2 x 2m; A-F, LF and OG) located at the Stability of Altered Forest Ecosystems (SAFE) project in Sabah, Malaysia. Contact authors: Timm Döbert (timm.dobert@gmail.com); Raphael Didham (raphael.didham@csiro.au) Column and row headings: Columns: The unique identifiers of 723 plant taxa Rows: The 192 vegetation plots across 3 fragments nested within 8 blocks Matrix values: The dry weight biomass (g/m2) of each species in each plot ***********************************************************************************************************************************