the tnrs: a taxonomic name resolution service for plants
DESCRIPTION
iPlant presentation given at iEvoBio 2011TRANSCRIPT
![Page 1: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/1.jpg)
The TNRS: a Taxonomic Name Resolution Service for Plants
Naim Matasci([email protected])
The iPlant CollaborativeiEvoBio 2011
Jun 21-22, 2011
![Page 2: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/2.jpg)
What is iPlant?
![Page 3: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/3.jpg)
Discovery Environment
http://www.iplantcollaborative.org/discovery-environment-preview-access
![Page 4: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/4.jpg)
4
![Page 5: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/5.jpg)
![Page 6: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/6.jpg)
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
![Page 7: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/7.jpg)
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
![Page 8: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/8.jpg)
How to figure that out?
…or ask around at My-Plant.org
![Page 9: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/9.jpg)
Makemake at de.wikipedia
![Page 10: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/10.jpg)
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%)
![Page 11: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/11.jpg)
Hans Hillewaert
![Page 12: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/12.jpg)
![Page 13: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/13.jpg)
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
![Page 14: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/14.jpg)
![Page 15: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/15.jpg)
![Page 16: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/16.jpg)
![Page 17: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/17.jpg)
Availability
Source code (3-clause BSD)
http://github.com/iPlantCollaborativeOpenSource/TNRS
Web + API instructions
http://tnrs.iplantcollaborative.org
![Page 18: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/18.jpg)
![Page 19: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/19.jpg)
![Page 20: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/20.jpg)
![Page 21: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/21.jpg)
![Page 22: The TNRS: a Taxonomic Name Resolution Service for Plants](https://reader033.vdocuments.us/reader033/viewer/2022061205/548106feb4af9f52348b4592/html5/thumbnails/22.jpg)
Availability
Source code (3-clause BSD)
http://github.com/iPlantCollaborativeOpenSource/TNRS
Web + API instructions
http://tnrs.iplantcollaborative.org
Questions, suggestions, collaborations