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Abstract Detail


Systematics Section

Narro, Martha [1], Boyle, Brad [2], Lu, Jerry [3], Hopkins, Nicole [1], Piel, William [4], Raygoza Garay, Juan Antonio [1], Lowry, Sonya [1], Matasci, Naim [1], Freeland, Chris [5], McKay, Sheldon [1], Enquist, Brian [2].

The TNRS: a Taxonomic Name Resolution Service for Plants.

Correcting and standardizing taxonomic names is a major challenge for virtually every field of plant biology. Even large organismal databases such as GBIF, SpeciesLink, VegBank, SALVIAS, TraitNet, GenBank and TreeBASE suffer from taxonomic error and uncertainty, with up to 30% of taxon-author strings unmatched to a validly-published name, and 5-20% of published names synonymous. Despite the growing availability of digitized sources of names1,2,3,4, identifiers2,4 and taxonomic opinion3,5, the task of correcting taxonomy within existing data sets remains a time-consuming and largely ad hoc process. The need for tools for automated standardization of taxonomic names has never been greater.The TNRS, or Taxonomic Name Resolution Service6 is an online tool for automated and user-assisted standardization of taxonomic names of plants. The result of collaboration between the iPlant Tree of Life project (iPToL), the Botanical Information and Ecology Network (BIEN), the Missouri Botanical Garden (MOBOT) and many others, the TNRS builds upon and extends existing open source solutions such as the GNI name parser and the Taxamatch fuzzy matching algorithm. The primary source of reference names and synonymy used by the TNRS is MOBOT's Tropicos database with additional sources to be added in the near future. Features include batch parsing and correction of misspelled names and authorities, extraction of embedded botanical annotations and morphospecies strings, conversion of synonyms to accepted names, flagging of inherently ambiguous names (e.g., pro parte synonyms) and the standardization of higher taxonomic categories such as family. Currently accessible as a publicly-accessible stand-alone version6, the TNRS will soon be available within the feature-rich iPlant Discovery Environment. A RESTful web service will provide additional functionality, such as the ability to discover and correct names of internal nodes of phylogenies.References:[1] www.ipni.org,[2] ww.globalnames.org[3] www.tropicos.org[4] www.ubio.org[5] www.theplantlist.org[6] http://tnrs.iplantcollaborative.org

Broader Impacts:


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Related Links:
Taxonomic Name Resolution Service (TNRS)


1 - iPlant Collaborative, University of Arizona
2 - University of Arizona, Ecology and Evolutionary Biology
3 - Cold Spring Harbor Laboratory, Plant Biology
4 - Yale University, Peabody Museum of Natural History
5 - Missouri Botanical Garden, Center for Biodiversity Informatics

Keywords:
TNRS
iPlant Collaborative
Taxonomic Name Resolution.

Presentation Type: Poster:Posters for Sections
Session: P
Location: Khorassan Ballroom/Chase Park Plaza
Date: Monday, July 11th, 2011
Time: 5:30 PM
Number: PSY064
Abstract ID:338


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