UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
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UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. / Köljalg, U.; Larsson, K.H.; Abarenkov, K.; Nilsson, H.R.; Alexander, I.J.; Eberhardt, U.; Erland, S.; Høiland, Klaus; Kjøller, Rasmus; Larsson, Ellen; Pennanen, Taina; Sen, Robin; Taylor, Andy F. S.; Tedersoo, Leho; Vrålstad, Trude; Ursing, Björn M.
In: New Phytologist, Vol. 166, No. 3, 2005, p. 1063-1068.Research output: Contribution to journal › Journal article › Research › peer-review
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TY - JOUR
T1 - UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi
AU - Köljalg, U.
AU - Larsson, K.H.
AU - Abarenkov, K.
AU - Nilsson, H.R.
AU - Alexander, I.J.
AU - Eberhardt, U.
AU - Erland, S.
AU - Høiland, Klaus
AU - Kjøller, Rasmus
AU - Larsson, Ellen
AU - Pennanen, Taina
AU - Sen, Robin
AU - Taylor, Andy F. S.
AU - Tedersoo, Leho
AU - Vrålstad, Trude
AU - Ursing, Björn M.
N1 - KEYWORDS DNA taxonomy • ectomycorrhiza • fungi • molecular identification • sequence database • UNITE
PY - 2005
Y1 - 2005
N2 - 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
AB - 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
U2 - 10.1111/j.1469-8137.2005.01376.x
DO - 10.1111/j.1469-8137.2005.01376.x
M3 - Journal article
C2 - 15869663
VL - 166
SP - 1063
EP - 1068
JO - New Phytologist
JF - New Phytologist
SN - 0028-646X
IS - 3
ER -
ID: 87491