Add scleractinian coral traits (Coral Trait Database)

Joins species-level coral functional traits to a taxify() result by looking up accepted_name. Values are aggregated from the long-format Coral Trait Database (numeric traits by median, categorical traits by mode).

Usage

add_coral_traits(x, cols = NULL, verbose = TRUE)

Arguments

x

A data.frame returned by taxify().

cols

Which columns to attach: NULL (default) the curated set, "all" every column the source carries, or a character vector of names. See enrichment_cols.

verbose

Logical. Default TRUE.

Value

The same data.frame with additional columns:

coral_symbiotic_state

Zooxanthellate / azooxanthellate.

coral_growth_form

Typical growth form (massive/branching/...).

coral_coloniality

Colonial / solitary.

coral_substrate_attachment

Attached / unattached.

coral_sexual_system

Hermaphrodite / gonochore.

coral_larval_development_mode

Spawner / brooder.

coral_symbiont_clade

Symbiodinium clade.

coral_corallite_width_max_mm

Maximum corallite width (mm).

coral_colony_max_diameter_cm

Maximum colony diameter (cm).

coral_growth_rate_mm_yr

Linear extension rate (mm/year).

coral_depth_lower_m

Lower depth limit (m).

coral_depth_upper_m

Upper depth limit (m).

coral_skeletal_density_g_cm3

Skeletal density (g/cm3).

Details

Source: Coral Trait Database (Madin et al. 2016, Scientific Data, CC BY 4.0). Coverage: ~1.5k coral species.

References

Madin JS et al. (2016) The Coral Trait Database, a curated database of trait information for coral species from the global oceans. Scientific Data 3:160017. doi:10.1038/sdata.2016.17

Examples

if (FALSE) { # \dontrun{
taxify("Acropora millepora", backbone = "gbif") |>
  add_coral_traits()
} # }