the tnrs: a taxonomic name resolution service for plants naim matasci...
TRANSCRIPT
The TNRS: a Taxonomic Name Resolution Service for Plants
Naim Matasci([email protected])
The iPlant CollaborativeiEvoBio 2011
Jun 21-22, 2011
What is iPlant?
Discovery Environment
http://www.iplantcollaborative.org/discovery-environment-preview-access
4
Taxonomic uncertainty
1. Non-existent names• Misspellings• Contamination
• Annotations• Morphospecies• Digitization issues (frame shifts, character
encoding)Lexical variants (digitization conventions)
2. Synonymy• Nomenclatural synonyms• Taxonomic synonyms / concepts
3. Misidentifications, incomplete identifications
a) Centaurium curvistamineum (Wittr.) Abrams (1951)
b) Centaurium minimum (Howell) Piper (1915)
c) Centaurium muhlenbergii (Griseb.) Wight ex Piper (1906)
d) Centaurium muhlenbergii (Griseb.) Wight ex Piper forma albiflorum (Suksd.) St. John (1937)
e) Centaurium muhlenbergii (Griseb.) Wight ex Piper var. albiflorum Suksd. (1927)
f) Centaurodes muhlenbergii (Griseb.) Kuntze (1891)
g) Erythraea curvistaminea Wittr. (1886)
h) Erythraea minima Howell (1901)
i) Erythraea muhlenbergii Griseb. (1839)
Image: Gordon Leppig & Andrea J. Pickart
How to figure that out?
…or ask around at My-Plant.org
Makemake at de.wikipedia
Non-existent names: Herbarium specimens
*New World plant specimens, 34 herbaria, simple match against IPNI and TROPICOS, excluding authors
Total specimens: 1.1 million
Unique species names: 53,052
Published names (legitimate & illegitimate): 44,532
Misspelled names: 9371 (18%)
Specimens with misspelled names: 101,237 (9%)
Hans Hillewaert
Taxonomic Name Resolution Service
• Computer assisted standardization of plant names
• Corrects spelling errors and alternative spellings to a standard list of names
• Convert out-of-date names to currently accepted names
Availability
Source code (3-clause BSD)
http://github.com/iPlantCollaborativeOpenSource/TNRS
Web + API instructions
http://tnrs.iplantcollaborative.org
Availability
Source code (3-clause BSD)
http://github.com/iPlantCollaborativeOpenSource/TNRS
Web + API instructions
http://tnrs.iplantcollaborative.org
Questions, suggestions, collaborations