VegBIEN taxonomic schema¶
- Table of contents
- VegBIEN taxonomic schema
Column-based form¶
- Each taxonomic rank gets a named column
- VegBIEN will contain columns for standard ranks
- Taxonomic ranks not part of the standard names will be stored in an extendable user-defined table
- Synonyms will be handled by the Veg+ automapping mechanism
- This ensures that each extended taxonomic rank has only one name for it in VegBIEN
- Free-form taxonomic ranks will also be allowed in a separate text field
VegBIEN taxonomic ranks¶
Primary¶
Note: Which rank the infraspecificEpithet goes in depends on the taxonRank
Extended¶
Primary ranks are in bold
| Name | Synonyms |
| above superfamily | |
| suprageneric | |
| *domain* | empire |
| superkingdom | |
| *kingdom* | |
| subkingdom | |
| infrakingdom | |
| superphylum | superdivision |
| *phylum* | *division* |
| subphylum | subdivision |
| infraphylum | infradivision |
| superclass | |
| *class* | |
| subclass | |
| infraclass | |
| superorder | |
| *order* | |
| suborder | |
| infraorder | |
| family group | |
| superfamily | |
| *family* | |
| subfamily | |
| infrafamily | |
| family subdivision | |
| supertribe | |
| tribe | |
| subtribe | |
| infratribe | |
| genus group | |
| *genus* | |
| subgenus | |
| infragenus | |
| genus subdivision | |
| section | |
| subsection | |
| series | |
| subseries | |
| infrageneric | |
| species aggregate | species group, species complex |
| species group | |
| *species* | specificEpithet |
| *subspecies* | infraspecificEpithet |
| subspecific aggregate | group, complex |
| below subspecies | |
| infraspecies | |
| biovariety | |
| pathovariety | |
| *variety* | |
| subvariety | |
| subsubvariety | |
| *forma* | form |
| subforma | subform |
| subsubforma | subsubform |
| special forma | special form |
| infraspecific | |
| candidate | |
| cultivated plants | |
| *cultivar* | |
| convar | |
| grex | |
| cultivar group | |
| graft-chimaera | |
| denomination class | |
Standard taxonomic ranks¶
DwC¶
| kingdom |
| phylum |
| class |
| order |
| family |
| genus |
| subgenus |
| specificEpithet |
| infraspecificEpithet |
| scientificName |
| scientificNameAuthorship |
| taxonRank |
VegBank¶
| Kingdom |
| Subkingdom |
| Superdivision |
| Division |
| Subdivision1 |
| Class |
| Subclass |
| Order |
| Suborder2 |
| Family |
| Subfamily2 |
| Tribe2 |
| Subtribe2 |
| Genus |
| Subgenus2 |
| Section2 |
| Species Aggregate2 |
| Species |
| Subspecies |
| Variety |
| Forma1 |
| Cultivar/Forma2 |
1 Appears only in the database
2 Appears only in the data dictionary
TCS¶
Also used by *VegX*
| Enum value | Abbreviation | Name | Synonyms | Examples | Notes | |
| TaxonomicRankAboveSuperfamilyEnum | ||||||
| taxsupragen | tax. supragen. | suprageneric | This value indicates that the rank of a name is unknown. Compare "incertae sedis" which is commonly used as a replacement for a taxon to group all taxa whose position in the classification or phylogenetic tree is uncertain. | |||
| dom | dom. | domain | empire | Archaea, Bacteria, Eukarya | ||
| superreg | superreg. | superkingdom | Eucaryota | |||
| reg | reg. | kingdom | Plantae Animalia | |||
| subreg | subreg. | subkingdom | ||||
| infrareg | infrareg. | infrakingdom | ||||
| superphyl_div | superphyl./div. | superphylum | superdivision | |||
| phyl_div | phyl./div. | phylum | division | Magnoliophyta Chordata | ||
| subphyl_div | subphyl./div. | subphylum | subdivision | Magnoliophytina Vertebrata | ||
| infraphyl_div | infraphyl./div. | infraphylum | infradivision | |||
| supercl | supercl. | superclass | ||||
| cl | cl. | class | Magnoliopsida Mammalia | |||
| subcl | subcl. | subclass | Magnoliidae Eutheria | |||
| infracl | infracl. | infraclass | ||||
| superord | superord. | superorder | Magnolianae | |||
| ord | ord. | order | Magnoliales Primates | |||
| subord | subord. | suborder | Magnolineae Catarrhini | |||
| infraord | infraord. | infraorder | ||||
| TaxonomicRankFamilyGroupEnum | ||||||
| superfam | superfam. | superfamily | Magnoliacea | |||
| fam | fam. | family | Magnoliaceae Hominidae | |||
| subfam | subfam. | subfamily | Magnolioideae | |||
| infrafam | infrafam. | infrafamily | ||||
| TaxonomicRankFamilySubdivisionEnum | ||||||
| supertrib | supertrib. | supertribe | ||||
| trib | trib. | tribe | ||||
| subtrib | subtrib. | subtribe | ||||
| infratrib | infratrib. | infratribe | ||||
| TaxonomicRankGenusGroupEnum | ||||||
| gen | gen. | genus | Magnolia Homo | |||
| subgen | subgen. | subgenus | ||||
| infragen | infragen. | infragenus | ||||
| TaxonomicRankGenusSubdivisionEnum | ||||||
| sect | sect. | section | ||||
| subsect | subsect. | subsection | ||||
| ser | ser. | series | ||||
| subser | subser. | subseries | ||||
| taxinfragen | tax. infragen. | infrageneric | A name that appear between a genus name and a species epitheton and is not clearly marked as series or section, or other may be assigned to this rank until the true rank can be assigned by a taxonomic expert. | |||
| aggr | aggr. | species aggregate | species group, species complex | A loosely defined group of species. Zoology: "Aggregate - a group of species, other than a subgenus, within a genus. An aggregate may be denoted by a group name interpolated in parentheses." -- The Berlin/MoreTax model notes: "[these] aren't taxonomic ranks but cirumscriptions because on the one hand they are necessary for the concatenation of the fullname and on the other hand they are necessary for distinguishing the aggregate or species group from the microspecies." Compare subspecific aggregate for a group of subspecies within a species! | ||
| TaxonomicRankSpeciesGroupEnum | ||||||
| sp | sp. | species | Taxus baccata, Homo sapiens | |||
| ssp | ssp. | subspecies | Pinus nigra subsp. nigra Homo sapiens sapiens | |||
| subsp_aggr | aggr. | subspecific aggregate | group, complex | A loosely defined group of subspecies. Zoology: "Aggregate - a group of subspecies within a species. An aggregate may be denoted by a group name interpolated in parentheses." | ||
| TaxonomicRankBelowSubspeciesEnum | ||||||
| infrasp | infrasp. | infraspecies | ||||
| bv | biovar. | biovariety | ||||
| pv | pathovar. | pathovariety | ||||
| var | var. | variety | Pinus nigra var. caramanica (= "P. nigra subsp. nigra var. caramanica"; Taxus baccata var. variegata | Form, race, variety are not subject to regulation in zoology; see ICZN Article 1.3.4 | ||
| subvar | subvar. | subvariety | ||||
| subsubvar | subsubvar. | subsubvariety | ||||
| fm | fm. | form | Form, race, variety are not subject to regulation in zoology; see ICZN Article 1.3.4 | |||
| subfm | subfm. | subform | ||||
| subsubfm | subsubfm. | subsubform | ||||
| fsp | f. sp. | special form | The ICBN does not formally cover formae specialis (art. 4, note 3). However, because of the economic importance of pathogenic f. sp., and since it is common practice to handle them as if the code would apply (i. e. priority usually observed, name quoted with author), they are included here. | |||
| taxinfrasp | tax. infrasp. | infraspecific | Undefined ranks (using either no rank identifier in botany, or using greek letters or symbols like stars, crosses) occur in very old publications. Most frequently these are to be interpreted as varieties, but occasionally they are forms or subspecies (see Stearn, W.T. 1957: Species plantarum (Facsimile); Introduction. 1. London, p. 90-95, 160-161, 163). The interpretation of these cases requires taxonomic knowledge that may not be available at the time when data are parsed. Such lack of knowledge can be expressed using this rank identifier. | |||
| cand | cand. | candidate | Candidatus' rank is proposed in bacteriology for putative taxa, which could not yet be studied sufficiently to warrant the creation of a name with a known rank. (Murray, R.G.E. & Schleifer, K.H.: Taxonomic notes: a proposal for recording the properties of putative taxa of procaryotes. Int. J. Syst. Bacteriol., 1994, 44, 174-176). | |||
| TaxonomicRankCultivatedPlants | ||||||
| cv | cult. | cultivar | The epithet is usually output in single quotes and may contain multiple words, see ICBN §28. Examples: Taxus baccata 'Variegata', Juniperus ×pfitzeriana 'Wilhelm Pfitzer'; Magnolia 'Elizabeth'. | |||
| convar | convar. | convar | Used in cultivated plants (ICNCP), but deprecated, see 'Some notes on problems of taxonomy and nomenclature of cultivated plants' by J. Ochsmann, http://www.genres.de/IGRREIHE/IGRREIHE/DDD/22-08.pdf | |||
| grex | grex | grex | a rank equivalent to cultivar group used principly for artificial hybrid swams in Orchidaceae. | |||
| cvgroup | cultivar. group | cultivar group | ||||
| graftchimaera | graft-chimaera | graft-chimaera | ||||
| denomclass | denomination class | Denomination classes are constructs under ICNCP for defining the scope within which a cultivar or Group epithet must be unique. | ||||
VegBIEN¶
taxonrank closed list:
| kingdom |
| subkingdom |
| superdivision |
| division |
| class |
| subclass |
| order |
| suborder |
| family |
| subfamily |
| tribe |
| subtribe |
| genus |
| subgenus |
| section |
| species aggregate |
| species |
| subspecies |
| authority |
| variety |
| cultivar/forma |
| binomial |
ITIS/USDA¶
| Name | Bob? | Brad? | |
| SubKingdom | N1 | Y | |
| SuperDivision | N1 | Y | |
| Division | Y | ||
| SubDivision | Y | ||
| Class | Y | ||
| SubClass | Y | ||
| Order | Y | ||
| Family | N1 | Y | |
| Family Common | |||
| Genus | Y | Y | |
| Species | Y | Y | |
| Subspecies | Y | Y | |
| Prefix | Y | Y | |
| Variety | Y | Y | |
| Subvariety | Y | Y | |
| Forma | Y | Y | |
| Forma Prefix | Y | Y | |
| Cultivar Name | N1 | ||
| Scientific Name | Y | Y | |
| Genera/Binomial | Y | ||
| Common Name | N1 | N | |
| Name | |||
| Hybrid Genus | Y | Y | |
| Hybrid Species Indicator | Y | Y | |
| Hybrid Subspecies Indicator | Y | Y | |
| Hybrid Variety Indicator | Y | Y | |
| Accepted Symbol | N1 | N | |
| Author | |||
| Category | N1 | N | |
| ITIS | N1 | ||
| Indicator | |||
| Parents | Y | N | |
| Quadranomial Author | Y | Y | |
| Questionable Taxon | Y | Y | |
| Symbol | N1 | N | |
| Synonym | N1 | N | |
| TSN | N1 | ||
| Trinomial Author | Y | Y | |
1 "No to these, assuming you have a hierarchy linked to the name" (e-mail on 2012-9-11)