An interface to the Integrated Taxonomic Information System (ITIS)
How to cite ITIS. From https://itis.gov/citation.html
To cite data obtained from ITIS, the following citation format is offered as a suggestion:
ITIS is one of many different taxonomic data sources. Other include: Catalogue of Life (and COL+), NCBI taxonomy, International Plant Names Index, Index Fungorum, and more. The Wikipedia entry (https://en.wikipedia.org/wiki/Integrated_Taxonomic_Information_System) states that ITIS has a North American focus, but includes many taxa not in North America.
Stable, CRAN version
install.packages("ritis")
Dev version
remotes::install_github("ropensci/ritis")
The following are examples of some functions. There are many more avaiable.
matches only monomials
itis_search(q = "nameWOInd:/[A-Za-z0-9]*[ ]{0,0}*/")
#> # A tibble: 10 x 20
#> tsn nameWInd nameWOInd unit1 usage credibilityRati… completenessRat…
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 1400… Leucozo… Leucozona Leuc… valid No review; untr… unknown
#> 2 1401… Melangy… Melangyna Mela… valid No review; untr… unknown
#> 3 1401… Melisca… Meliscae… Meli… valid No review; untr… unknown
#> 4 1401… Ocyptam… Ocyptamus Ocyp… valid No review; untr… unknown
#> 5 1401… Parasyr… Parasyrp… Para… valid No review; untr… unknown
#> 6 1402… Pseudod… Pseudodo… Pseu… valid No review; untr… unknown
#> 7 1402… Salping… Salpingo… Salp… valid No review; untr… unknown
#> 8 1402… Scaeva Scaeva Scae… valid No review; untr… unknown
#> 9 1402… Sphaero… Sphaerop… Spha… valid No review; untr… unknown
#> 10 1402… Syrphus Syrphus Syrp… valid No review; untr… unknown
#> # … with 13 more variables: currencyRating <chr>, kingdom <chr>,
#> # parentTSN <chr>, rankID <chr>, rank <chr>, hierarchySoFar <chr>,
#> # hierarchySoFarWRanks <chr>, hierarchyTSN <chr>, otherSource <chr>,
#> # createDate <chr>, updateDate <chr>, hierarchicalSort <chr>,
#> # `_version_` <dbl>
matches only binomials
itis_search(q = "nameWOInd:/[A-Za-z0-9]*[ ]{1,1}[A-Za-z0-9]*/")
#> # A tibble: 10 x 24
#> tsn nameWInd nameWOInd unit1 unit2 usage unacceptReason credibilityRati…
#> <chr> <chr> <chr> <chr> <chr> <chr> <chr> <chr>
#> 1 1400… Syrphus… Syrphus … Syrp… mont… inva… junior synonym No review; untr…
#> 2 1400… Eupeode… Eupeodes… Eupe… neop… valid <NA> No review; untr…
#> 3 1400… Syrphus… Syrphus … Syrp… neop… inva… junior synonym No review; untr…
#> 4 1400… Eupeode… Eupeodes… Eupe… nigr… valid <NA> No review; untr…
#> 5 1400… Metasyr… Metasyrp… Meta… nigr… inva… junior synonym No review; untr…
#> 6 1400… Eupeode… Eupeodes… Eupe… perp… valid <NA> No review; untr…
#> 7 1400… Syrphus… Syrphus … Syrp… mead… inva… junior synonym No review; untr…
#> 8 1400… Syrphus… Syrphus … Syrp… perp… inva… junior synonym No review; untr…
#> 9 1400… Eupeode… Eupeodes… Eupe… ping… valid <NA> No review; untr…
#> 10 1400… Syrphus… Syrphus … Syrp… ping… inva… junior synonym No review; untr…
#> # … with 16 more variables: taxonAuthor <chr>, kingdom <chr>, rankID <chr>,
#> # rank <chr>, hierarchySoFar <chr>, hierarchySoFarWRanks <chr>,
#> # hierarchyTSN <chr>, synonyms <chr>, synonymTSNs <chr>, otherSource <chr>,
#> # acceptedTSN <chr>, createDate <chr>, updateDate <chr>, `_version_` <dbl>,
#> # parentTSN <chr>, hierarchicalSort <chr>
Get accepted names for a TSN
accepted_names(tsn = 504239)
#> # A tibble: 1 x 3
#> acceptedName acceptedTsn author
#> <chr> <chr> <chr>
#> 1 Dasiphora fruticosa 836659 (L.) Rydb.
Get common names for a TSN
common_names(tsn = 183833)
#> # A tibble: 3 x 3
#> commonName language tsn
#> <chr> <chr> <chr>
#> 1 African hunting dog English 183833
#> 2 African Wild Dog English 183833
#> 3 Painted Hunting Dog English 183833
Full hierarchy for a TSN
hierarchy_full(tsn = 37906)
#> # A tibble: 60 x 5
#> parentname parenttsn rankname taxonname tsn
#> <chr> <chr> <chr> <chr> <chr>
#> 1 "" "" Kingdom Plantae 202422
#> 2 "Plantae" "202422" Subkingdom Viridiplantae 954898
#> 3 "Viridiplantae" "954898" Infrakingdom Streptophyta 846494
#> 4 "Streptophyta" "846494" Superdivision Embryophyta 954900
#> 5 "Embryophyta" "954900" Division Tracheophyta 846496
#> 6 "Tracheophyta" "846496" Subdivision Spermatophytina 846504
#> 7 "Spermatophytina" "846504" Class Magnoliopsida 18063
#> 8 "Magnoliopsida" "18063" Superorder Asteranae 846535
#> 9 "Asteranae" "846535" Order Asterales 35419
#> 10 "Asterales" "35419" Family Asteraceae 35420
#> # … with 50 more rows
ritis
in R doing citation(package = 'ritis')