Výsledky vyhledávání - "Vilmar Veldre"

Akademický článek

Tidying up international nucleotide sequence databases: ecological, geographical and sequence quality annotation of its sequences of mycorrhizal fungi.

Autor: Leho Tedersoo, Kessy Abarenkov, R Henrik Nilsson, Arthur Schüssler, Gwen-Aëlle Grelet, Petr Kohout, Jane Oja, Gregory M Bonito, Vilmar Veldre, Teele Jairus, Martin Ryberg, Karl-Henrik Larsson, Urmas Kõljalg

Publikováno v: PLoS ONE, Vol 6, Iss 9, p e24940 (2011)

Sequence analysis of the ribosomal RNA operon, particularly the internal transcribed spacer (ITS) region, provides a powerful tool for identification of mycorrhizal fungi. The sequence data deposited in the International Nucleotide Sequence Databases

Externí odkaz: https://doaj.org/article/6505976ecd50480f939e4efbe47ab144

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Evolution of nutritional modes of Ceratobasidiaceae (Cantharellales, Basidiomycota) as revealed from publicly available ITS sequences

Autor: Florent Martos, Vilmar Veldre, Urmas Kõljalg, Kessy Abarenkov, Leho Tedersoo, Marc-André Selosse, Mohammad Bahram, Heidi Tamm

Publikováno v: Fungal Ecology. 6:256-268

Fungi from the Ceratobasidiaceae family have important ecological roles as pathogens, saprotrophs, non-mycorrhizal endophytes, orchid mycorrhizal and ectomycorrhizal symbionts, but little is known about the distribution and evolution of these nutriti

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::d3b296674da5c9c26b9cff9ae88e570e
https://doi.org/10.1016/j.funeco.2013.03.004

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A note on the incidence of reverse complementary fungal ITS sequences in the public sequence databases and a software tool for their detection and reorientation

Autor: Karl-Henrik Larsson, Martin Eckart, Sara Branco, Vilmar Veldre, Martin Hartmann, Yann J. K. Bertrand, R. Henrik Nilsson, Johan F. Alfredsson, Zheng Wang, Urmas Kõljalg, Christopher Quince, Anna Godhe, Kessy Abarenkov

Publikováno v: Mycoscience. 52:278-282

Reverse complementary DNA sequences––sequences that are inadvertently cast backward and in which all purines and pyrimidines are transposed––are not uncommon in sequence databases, where they may introduce noise into sequence-based research.

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::e1ca8e5dbeb184d4623c939ac8c30f8b
https://doi.org/10.1007/s10267-010-0086-z

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V-REVCOMP: automated high-throughput detection of reverse complementary 16S rRNA gene sequences in large environmental and taxonomic datasets

Autor: K. Johanna Björkroth, Parag Vaishampayan, Martin Hartmann, Christopher Quince, Salome Schneider, Steven J. Hallam, Charles G Howes, William W. Mohn, R. Henrik Nilsson, Per Johansson, Anthony C. Yannarell, Kessy Abarenkov, Vilmar Veldre

Publikováno v: FEMS Microbiology Letters. 319:140-145

Reverse complementary DNA sequences - sequences that are inadvertently given backwards with all purines and pyrimidines transposed - can affect sequence analysis detrimentally unless taken into account. We present an open-source, high-throughput soft

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::1206691fda441b10048426cf4fc405c9
https://doi.org/10.1111/j.1574-6968.2011.02274.x

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PlutoF—a Web Based Workbench for Ecological and Taxonomic Research, with an Online Implementation for Fungal ITS Sequences

Autor: Olavi Kurina, Leho Tedersoo, Jaak Truu, Karl-Henrik Larsson, Irja Saar, Kai Vellak, Vilmar Veldre, Janno Jõgeva, Siim Halapuu, Mart Toots, Margus Ots, Kessy Abarenkov, Marko Prous, Ivika Ostonen, Erast Parmasto, Urmas Kõljalg, Anne Aan, Kadri Põldmaa, R. Henrik Nilsson

Publikováno v: Evolutionary Bioinformatics
Evolutionary Bioinformatics, Vol 2010, Iss 6, Pp 189-196 (2010)
Evolutionary Bioinformatics, Vol 6 (2010)

DNA sequences accumulating in the International Nucleotide Sequence Databases (INSD) form a rich source of information for taxonomic and ecological meta-analyses. However, these databases include many erroneous entries, and the data itself is poorly

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::ac64cea66bc091a63fdae6c5236546c0
http://europepmc.org/articles/PMC3023303

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An open source software package for automated extraction of ITS1 and ITS2 from fungal ITS sequences for use in high-throughput community assays and molecular ecology

Autor: Martin Hartmann, Anthony S. Amend, Johannes Bergsten, Erik Kristiansson, R. Henrik Nilsson, Martin Ryberg, Vilmar Veldre, Kessy Abarenkov, Martin Unterseher, Ari Jumpponen

Publikováno v: Fungal Ecology. 3:284-287

We introduce an open source software utility to extract the highly variable ITS1 and ITS2 subregions from fungal nuclear ITS sequences, the region of choice for environmental sampling and molecular identification of fungi. Inclusion of parts of the n

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_________::2a626d42b5b33b627d694a85e5695423
https://doi.org/10.1016/j.funeco.2010.05.002

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An open source chimera checker for the fungal ITS region

Autor: Erik Kristiansson, Sara Brosche, Vilmar Veldre, Martin Ryberg, Johan F. Alfredsson, Pierre De Wit, Stephan Nylinder, Rolf Henrik Nilsson, Kessy Abarenkov

Publikováno v: Molecular Ecology Resources. 10:1076-1081

The internal transcribed spacer (ITS) region of the nuclear ribosomal repeat unit holds a central position in the pursuit of the taxonomic affiliation of fungi recovered through environmental sampling. Newly generated fungal ITS sequences are typical

Externí odkaz: https://explore.openaire.eu/search/publication?articleId=doi_dedup___::9744076daeb3ab6a0539217251ee8864
https://doi.org/10.1111/j.1755-0998.2010.02850.x

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