Real field data: ground-foraging ants recorded at experimental nutrient baits along the Mt Wilhelm elevational gradient in Papua New Guinea, from 200 to 3700 m, in the dry and the wet season (Moses et al. 2023). Baits offering six nutrient types were placed along transects at eight elevations 500 m apart. Ants were found up to 2200 m in both seasons and at 2700 m only once, in the dry season (one species at three baits); that record is left out so both seasons cover the same five elevations (200 to 2200 m) and can be compared directly. Each row is one species recorded at one bait. Only the Papua New Guinea part of the published cross-continental dataset is included, with the lead author's permission.
Format
A tibble with one row per bait and ant species, and 12 columns:
- site
Elevation band, such as
"MW0200"for 200 m.- elevation
Elevation band in metres.
- season
Sampling season,
"dry"or"wet".- transect
Transect number within the elevation band.
- bait
Bait identifier: the sampling unit for incidence-based estimates (
unit = bait).- baits
Number of baits set at that elevation and season, including baits no ant visited (
n_units = baits).- bait_type
Nutrient offered:
h2o,nacl,cho(sucrose),amino_acid,cho_amino_acidorlipid.- species
Ant morphospecies code.
- genus, subfamily
Ant genus and subfamily.
- guild
Trophic guild.
- workers
Number of workers at the bait.
Source
Mottl, O., Moses, J. and Klimes, P. (2023). Data and code for
"Nutrient use by tropical ant communities varies among three extensive
elevational gradients: a cross-continental comparison". Zenodo.
doi:10.5281/zenodo.8191946
(open access). Built by data-raw/png_ants.R in the
package source.
Details
Because ants recruit to baits, worker counts measure activity rather
than independent individuals. tidydiversity therefore counts each row
(one species at one bait) as one occurrence when no abundance column
is given, which is the default here: diversity is estimated from the
number of baits at which each species was recorded.
References
Moses, J., Peters, M. K., Tiede, Y., Mottl, O., Donoso, D. A., Farwig, N., Fayle, T. M., Novotny, V., Sanders, N. J. and Klimes, P. (2023). Nutrient use by tropical ant communities varies among three extensive elevational gradients: a cross-continental comparison. Global Ecology and Biogeography, 32, 2212-2229. doi:10.1111/geb.13757
Examples
png_ants
#> # A tibble: 369 x 12
#> site elevation season transect bait baits bait_type species genus subfamily
#> <chr> <int> <chr> <int> <chr> <int> <chr> <chr> <chr> <chr>
#> 1 MW02~ 200 dry 1 200_~ 60 cho lepm_0~ Lept~ Dolichod~
#> 2 MW02~ 200 dry 1 200_~ 60 cho mono_0~ Mono~ Myrmicin~
#> 3 MW02~ 200 dry 1 200_~ 60 lipid phei_0~ Phei~ Myrmicin~
#> 4 MW02~ 200 dry 1 200_~ 60 lipid tetr_0~ Tetr~ Myrmicin~
#> 5 MW02~ 200 dry 1 200_~ 60 amino_ac~ crem_0~ Crem~ Myrmicin~
#> 6 MW02~ 200 dry 1 200_~ 60 cho_amin~ crem_0~ Crem~ Myrmicin~
#> 7 MW02~ 200 dry 1 200_~ 60 lipid crem_0~ Crem~ Myrmicin~
#> 8 MW02~ 200 dry 1 200_~ 60 cho crem_0~ Crem~ Myrmicin~
#> 9 MW02~ 200 dry 1 200_~ 60 cho_amin~ rhyt_0~ Rhyt~ Ectatomm~
#> 10 MW02~ 200 dry 1 200_~ 60 cho crem_0~ Crem~ Myrmicin~
#> # i 359 more rows
#> # i 2 more variables: guild <chr>, workers <int>
div_hill(png_ants, q = 0, .by = season)
#> # A tibble: 10 x 5
#> season site q n diversity
#> <chr> <chr> <dbl> <dbl> <dbl>
#> 1 dry MW0200 0 47 16
#> 2 wet MW0200 0 76 21
#> 3 dry MW0700 0 23 15
#> 4 wet MW0700 0 58 28
#> 5 dry MW1200 0 29 13
#> 6 wet MW1200 0 57 20
#> 7 dry MW1700 0 17 5
#> 8 wet MW1700 0 34 10
#> 9 dry MW2200 0 13 6
#> 10 wet MW2200 0 15 5
# Incidence-based: baits as sampling units, including empty baits
div_estimate(png_ants, unit = bait, n_units = baits, .by = season, nboot = 0)
#> # A tibble: 30 x 8
#> season site q observed estimate se lower upper
#> <chr> <chr> <dbl> <dbl> <dbl> <dbl> <dbl> <dbl>
#> 1 dry MW0200 0 16 18.5 NA NA NA
#> 2 dry MW0200 1 12.3 15.2 NA NA NA
#> 3 dry MW0200 2 9.91 12.3 NA NA NA
#> 4 wet MW0200 0 21 32.9 NA NA NA
#> 5 wet MW0200 1 10.9 13.8 NA NA NA
#> 6 wet MW0200 2 6.99 7.57 NA NA NA
#> 7 dry MW0700 0 15 85.8 NA NA NA
#> 8 dry MW0700 1 11.8 39.2 NA NA NA
#> 9 dry MW0700 2 8.67 13.7 NA NA NA
#> 10 wet MW0700 0 28 75.4 NA NA NA
#> # i 20 more rows