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Träfflista för sökning "WFRF:(Koljalg Urmas) srt2:(2005-2009)"

Sökning: WFRF:(Koljalg Urmas) > (2005-2009)

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1.
  • Bidartondo, Martin, et al. (författare)
  • Preserving accuracy in GenBank
  • 2008
  • Ingår i: Science. ; 319:5870
  • Tidskriftsartikel (övrigt vetenskapligt/konstnärligt)
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2.
  • Kõljalg, Urmas, et al. (författare)
  • UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
  • 2005
  • Ingår i: New Phytologist. - : Wiley. - 0028-646X .- 1469-8137. ; 166:3, s. 1063-1068
  • Tidskriftsartikel (refereegranskat)abstract
    • 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 BLAST n, 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 URLhttp://unite.zbi.ee.
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3.
  • Nilsson, R. Henrik, 1976, et al. (författare)
  • Taxonomic reliability of DNA sequences in public sequence databases: A fungal perspective
  • 2006
  • Ingår i: PLoS ONE. - : Public Library of Science (PLoS). - 1932-6203. ; 1:1
  • Tidskriftsartikel (refereegranskat)abstract
    • Background DNA sequences are increasingly seen as one of the primary information sources for species identification in many organism groups. Such approaches, popularly known as barcoding, are underpinned by the assumption that the reference databases used for comparison are sufficiently complete and feature correctly and informatively annotated entries. Methodology/Principal Findings The present study uses a large set of fungal DNA sequences from the inclusive International Nucleotide Sequence Database to show that the taxon sampling of fungi is far from complete, that about 20% of the entries may be incorrectly identified to species level, and that the majority of entries lack descriptive and up-to-date annotations. Conclusions The problems with taxonomic reliability and insufficient annotations in public DNA repositories form a tangible obstacle to sequence-based species identification, and it is manifest that the greatest challenges to biological barcoding will be of taxonomical, rather than technical, nature.
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  • Resultat 1-3 av 3

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