Data for: Specialist carabids in mixed montane forests are positively associated with biodiversity-oriented forestry and abundance of roe deer
Data files
Feb 01, 2024 version files 52.11 KB
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alldata_carabids_df.csv
18.43 KB
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carabid_traits.csv
2.82 KB
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raw_trap_counts.csv
23.91 KB
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README.md
6.95 KB
Abstract
The ongoing transition within forest management towards more biodiversity-oriented practices, such as close-to-nature forestry and retention forestry, may benefit forest fauna such as forest-specialized ground beetles (Coleoptera: Carabidae). However, it remains unclear how forest carabids are jointly affected by these practices in Central European montane forests, which host particularly sensitive, range-restricted carabid species, and where biodiversity-oriented forestry is widely applied. Moreover, roe deer (Capreolus capreolus), the most common large herbivore in these forests, is intensively managed to reduce browsing pressure, but it is yet unknown how this may affect carabids, alongside the effect of silviculture. On 66 1-ha plots in the Black Forest region of Germany, we sampled carabids with pitfall traps, measured roe deer abundances using camera trapping, and measured several structural variables directly related to close-to-nature and retention practices, as well as variables describing microclimate and landscape-level forest cover. We found that the carabid assemblage was dominated by forest specialists, with little influence from fragmentation of the surrounding forest. Higher broadleaf share (and canopy cover for montane specialists) was correlated with higher carabid activity-density. Increasing stand maturity (and lying deadwood volume for montane specialists), was correlated with higher species richness. Plots with higher roe deer abundances showed higher carabid richness and activity-density. Assemblage composition changed along the altitudinal gradient, and both richness and activity-density increased with elevation. Thus, carabid communities, including montane specialists and several species of conservation interest, stand to benefit from close-to-nature and retention practices, if applied throughout the altitude range of montane forests. Forest carabids may additionally profit from maintaining higher roe deer abundances, but further research is needed to understand this causal link, as well as to weigh the costs and benefits of deer culling for forest biodiversity.
README: Data for: Specialist carabids in mixed montane forests are positively associated with biodiversity-oriented forestry and abundance of roe deer
https://doi.org/10.5061/dryad.qjq2bvqpb
This README file describes which data files are available, which are necessary to run the analysis R script, and provides metadata about all variables contained in those data files.
The data was collected on 135 1-ha forest plots in southwestern Germany, each of which contained three pitfall trapping locations. This data was collected within the framework of the Research Training Group ConFoBi (Conservation of Forest Biodiversity in Multiple-Use Landscapes of Central Europe, Storch et al., 2020).
File structure
- R script to reproduce analysis (carabidae_script.r)
- two data files that the R script uses: one with all plot-level data (alldata_carabids_df.csv) and another with carabid traits and classifications (carabid_traits.csv)
- an additional file: trap-level carabid counts (raw_trap_counts.csv)
Variable description for alldata_carabids_df.csv
plot_id: Unique plot ID (CFB followed by three digits)
X: UTM easting coordinates of plot (CRS: EPSG:31467, DHDN 3-degree Gauss-Kruger zone 3)
Y: UTM northing coordinates of plot (CRS: EPSG:31467, DHDN 3-degree Gauss-Kruger zone 3)
n_traps: number of useable traps per plot (from which activity-densities were calculated)
date_set: date of trap placement (format yyyy-mm-dd)
duration: number of days traps were active
trapdays: n_traps*duration, as a measure of sampling effort
carabidae_n: total carabid activity-density (pooled across traps)
abax_ovalis to licinus_hoffmanseggii: number of individuals captured for each species (pooled across traps)
avg_alt: average plot altitude above sea level (m)
DBHMean: plot-level mean of tree Diameter at Breast Height (DBH), for all trees > 7 cm DBH (in mm)
lying_dw_volume: volume of coarse woody debris (cubic meters)
pc_broadleaf: fraction of plot basal area belonging to broadleaved tree species
roe_deer: daily rate of roe deer detection events
canopycover: fraction of plot area containing vegetation above 5 m height
for_cover_100ha: percentage of 100-ha (1 square km) circular buffer around plot that is covered by forest
for_cover_2500ha: percentage of 2500-ha (25 square km) circular buffer around plot that is covered by forest
sd_slope: standard deviation of slope values (in degrees) across plot
northness: northness index (-1 to 1), calculated from plot aspect, -1 being south-facing slopes and 1 north-facing slopes
Variable description for carabid_traits.csv
species: species name, according to taxonomy in [Ref 1]
forest_specialist: "yes" or "no", according to [Ref 2]
montane_specialist: "yes" or "no", according to [Ref 2]
flight: brachypterous or flight-able, according to [Ref 1]
body_length: average body length (in mm), according to [Ref 3]
redlisted_bw: Red list status of species in the state of Baden-Württemberg, as of 2005 [Ref 4]
redlisted_de: Red list status of species in the Federal Republic of Germany, as of 2016 [Ref 5]
redlisted: "R" when species is in any category other than * (ungefährdet) in any of the previous two columns, otherwise NA
[Ref 1] Trautner, J. (Ed.), 2017. Die Laufkäfer Baden-Württembergs. Ulmer Eugen Verlag, Stuttgart (Germany).
[Ref 2] Gesellschaft für Angewandte Carabidologie, e.V.G. Lebens- Raumpräferenzen Der Laufkäfer Deutschlands – Wissensbasierter Katalog, Pp. 1–45. Angewandte Carabidologie, Supplement V., 2009.
[Ref 3] Müller-Motzfeld, Gerd. Die Käfer Mitteleuropas 2. Adephaga 1: Carabidae (Laufkäfer). Edited by H. Freude, K.W. Harde, and G.A. Lohse. 2nd ed. Vol. 2. 11 vols. Krefeld: Goecke u. Evers, 2004.
[Ref 4] Trautner, Jürgen, Michael Bräunicke, Josef Kiechle, Mathias Kramer, Jörg Rietze, Arno Schanowski, and Karin Wolf-Schwenninger. Rote Liste Und Artenverzeichnis Der Laufkäfer Baden-Württembergs (Coleoptera: Carabidae). 3rd ed. Naturschutz-Praxis, Artenschutz 9, 2005.
[Ref 5] Schmidt, J., Jürgen Trautner, and Gerd Müller-Motzfeld. ‘Rote Liste Und Gesamtartenliste Der Laufkäfer (Coleoptera: Carabidae) Deutschlands’. In Rote Liste Der Gefährdeten Tiere, Pflanzen Und Pilze Deutschlands, edited by H. Gruttke, S. Balzer, M. Binot-Hafke, H. Haupt, N. Hofbauer, G. Ludwig, G. Matzke-Hajek, and M. Ries, Vol. Band 4: Wirbellose Tiere (Teil 2). Naturschutz Und Biologische Vielfalt, 70 (4). Bonn: Bundesamt für Naturschutz, 2016.
Variable description for raw_trap_counts.csv
plot_id, date_set, duration: see above on all_data_carabids_df.csv
trap: trap location - CE (plot center), NW (northwestern quadrant) or SE (southeastern quadrant)
carabidae_n: total number of carabid individuals captured in each trap
abax_ovalis to licinus_hoffmanseggii: number of individuals captured for each species, per trap
comments: explanations of why several traps were not used in further analyses
R session information
R version 4.2.2 (2022-10-31 ucrt)
Platform: x86_64-w64-mingw32/x64 (64-bit)
Running under: Windows 10 x64 (build 19045)
Matrix products: default
locale:
[1] LC_COLLATE=Portuguese_Portugal.utf8 LC_CTYPE=Portuguese_Portugal.utf8 LC_MONETARY=Portuguese_Portugal.utf8
[4] LC_NUMERIC=C LC_TIME=Portuguese_Portugal.utf8
attached base packages:
[1] grid stats graphics grDevices utils datasets methods base
other attached packages:
[1] MuMIn_1.47.5 ggeffects_1.2.3 DHARMa_0.4.6 MASS_7.3-58.2 lme4_1.1-31 Matrix_1.5-3 car_3.1-2\
[8] carData_3.0-5 vegan_2.6-4 lattice_0.20-45 permute_0.9-7 iNEXT_3.0.0 corrplot_0.92 gridExtra_2.3\
[15] metR_0.14.0 ggrepel_0.9.3 scales_1.2.1 cowplot_1.1.1 lubridate_1.9.2 forcats_1.0.0 stringr_1.5.0\
[22] dplyr_1.1.2 purrr_1.0.1 readr_2.1.4 tidyr_1.3.0 tibble_3.2.1 ggplot2_3.4.2 tidyverse_2.0.0
[29] plyr_1.8.8
loaded via a namespace (and not attached):
[1] Rcpp_1.0.10 utf8_1.2.3 R6_2.5.1 backports_1.4.1 stats4_4.2.2 pillar_1.9.0 rlang_1.1.1\
[8] rstudioapi_0.14 minqa_1.2.5 data.table_1.14.8 nloptr_2.0.3 checkmate_2.2.0 splines_4.2.2 munsell_0.5.0
[15] compiler_4.2.2 pkgconfig_2.0.3 mgcv_1.8-41 tidyselect_1.2.0 fansi_1.0.4 tzdb_0.4.0 withr_2.5.0\
[22] nlme_3.1-162 gtable_0.3.3 lifecycle_1.0.3 magrittr_2.0.3 cli_3.6.1 stringi_1.7.12 cachem_1.0.8
[29] reshape2_1.4.4 generics_0.1.3 vctrs_0.6.3 boot_1.3-28.1 tools_4.2.2 glue_1.6.2 hms_1.1.3\
[36] abind_1.4-5 parallel_4.2.2 fastmap_1.1.1 timechange_0.2.0 colorspace_2.1-0 cluster_2.1.4 memoise_2.0.1
Methods
Data on carabid activity-density and species richness was collected from pitfall traps placed in 135 1-ha plots (3 traps per plot), active from April to June of 2020. Relative abundance of roe deer was obtained through camera trapping in the same plots, from spring 2019 to spring 2021. Further details on how these and other variables were measured are provided in the associated article. Further details on the dataset structure and units used are provided in a README file.