surprised that the infrageneric ranks not infrequently used in Botanical nomenclature are not included - viz. Section, Subsection, Series and Subseries
And confused as to the logic of using 'varietas' and 'forma' when, for example, kingdom is used rather than regnum ... I would suggest either all Latin forms or both Latin and English forms of the rank terms. Accepting that 'variety' has been used used as an alternative to what might be the more correct cultivar.
Paul
-----Original Message----- From: tdwg-tag-bounces@lists.tdwg.org [mailto:tdwg-tag-bounces@lists.tdwg.org] On Behalf Of Scott Federhen, NCBI Sent: 13 July 2009 15:54 To: Roderic Page Cc: Technical Architecture Group mailing list Subject: Re: [tdwg-tag] NCBI taxonomy in RDF
Hi Rod:
In case it helps at all, our rank list is -
norank superkingdom kingdom subkingdom superphylum phylum subphylum superclass class subclass infraclass cohort subcohort superorder order suborder infraorder parvorder superfamily family subfamily tribe subtribe genus subgenus species group species subgroup species subspecies varietas forma
Several of these are not on the TDWG list (cohort, parvorder, species group & subgroup) or are spelled differently (varietas, forma).
Unranked nodes can appear anywhere in the classification, and sibling nodes may be of different rank.
Cheers,
:Scott
On Jul 12, 2009, at 5:14 AM, Roderic Page wrote:
Dear Kevin,
But the reality is that a taxon concept may have a rank that's not in the TDWG vocabulary (e.g., an informal rank), and existing name databases may disagree about the rank. For example, a nomenclator may have a name that was published as a subgenus, but a concept database (such as NCBI) may use it as a genus.
I guess I'm keen on capturing what is actually out there, not what ideally should be out their.
Regards
Rod
On 12 Jul 2009, at 06:59, Kevin Richards wrote:
I suspect the rankString (as well as the rank property) was deprecated from the TaxonConcept class because the rank and rankString properties are also on the TaxonName class (http://rs.tdwg.org/ontology/voc/TaxonName ), where it is far more appropriate to have them - ie Taxon Concepts are not the best place to put rank info.
Kevin
From: tdwg-tag-bounces@lists.tdwg.org [tdwg-tag- bounces@lists.tdwg.org] On Behalf Of Roderic Page [r.page@bio.gla.ac.uk ] Sent: Sunday, 12 July 2009 5:25 a.m. To: Technical Architecture Group mailing list Subject: [tdwg-tag] NCBI taxonomy in RDF
I've been playing with expressing the NCBI taxonomy in TDWG RDF. The results are described at http://iphylo.blogspot.com/2009/07/ncbi-rdf.html (see also http://iphylo.blogspot.com/2009/07/ncbi-taxonomy-tdwg-vocabularies-an d-rdf.html for some background).
It's still incomplete (I've not put links up and down the tree yet), but for now the focus is on expressing links to nomenclators that support LSIDs (such as IPNI and Index Fungorum) so that I can annotate the NCBI taxonomy via SPARQL queries.
One minor comment, the property "rankString" has been deprecated (apparently), but it makes sense to retain this as there may well be ranks that a classification has that aren't in the TDWG vocabulary. Hence, I'd be keen for this NOT to be deprecated.
Regards
Rod
Roderic Page Professor of Taxonomy DEEB, FBLS Graham Kerr Building University of Glasgow Glasgow G12 8QQ, UK
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