Document Detail


UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi.
MedLine Citation:
PMID:  15869663     Owner:  NLM     Status:  MEDLINE    
Abstract/OtherAbstract:
Identification of ectomycorrhizal (ECM) fungi is often achieved through comparisons of ribosomal DNA internal transcribed spacer (ITS) sequences with accessioned sequences deposited in public databases. A major problem encountered is that annotation of the sequences in these databases is not always complete or trustworthy. In order to overcome this deficiency, we report on UNITE, an open-access database. UNITE comprises well annotated fungal ITS sequences from well defined herbarium specimens that include full herbarium reference identification data, collector/source and ecological data. At present UNITE contains 758 ITS sequences from 455 species and 67 genera of ECM fungi. UNITE can be searched by taxon name, via sequence similarity using blastn, and via phylogenetic sequence identification using galaxie. Following implementation, galaxie performs a phylogenetic analysis of the query sequence after alignment either to pre-existing generic alignments, or to matches retrieved from a blast search on the UNITE data. It should be noted that the current version of UNITE is dedicated to the reliable identification of ECM fungi. The UNITE database is accessible through the URL http://unite.zbi.ee
Authors:
Urmas Kõljalg; Karl-Henrik Larsson; Kessy Abarenkov; R Henrik Nilsson; Ian J Alexander; Ursula Eberhardt; Susanne Erland; Klaus Høiland; Rasmus Kjøller; Ellen Larsson; Taina Pennanen; Robin Sen; Andy F S Taylor; Leho Tedersoo; Trude Vrålstad; Björn M Ursing
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't    
Journal Detail:
Title:  The New phytologist     Volume:  166     ISSN:  0028-646X     ISO Abbreviation:  New Phytol.     Publication Date:  2005 Jun 
Date Detail:
Created Date:  2005-05-04     Completed Date:  2005-06-29     Revised Date:  2006-11-15    
Medline Journal Info:
Nlm Unique ID:  9882884     Medline TA:  New Phytol     Country:  England    
Other Details:
Languages:  eng     Pagination:  1063-8     Citation Subset:  IM    
Affiliation:
Institute of Botany, University of Tartu, 40 Lai Str., EE-51005 Tartu, Estonia. urmas.koljalg@ut.ee
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MeSH Terms
Descriptor/Qualifier:
DNA, Ribosomal Spacer / chemistry
Databases, Nucleic Acid*
Mycorrhizae / genetics*
Chemical
Reg. No./Substance:
0/DNA, Ribosomal Spacer

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