Статья

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

Kessy AbarenkovInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaLeho TedersooInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaR. Henrik NilssonDepartment of Plant and Environmental Sciences, University of Gothenburg, Box 461, 405 30 Göteborg, SwedenKai VellakInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaIrja SaarInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaVilmar VeldreInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaErast ParmastoInstitute of Agriculture and Environment, Estonian University of Life Sciences, 181 Riia St., 51014 Tartu, EstoniaMarko ProusInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaAnne AanNatural History Museum of Tartu University, 46 Vanemuise St., 51014 Tartu, EstoniaMargus OtsNatural History Museum of Tartu University, 46 Vanemuise St., 51014 Tartu, EstoniaOlavi KurinaInstitute of Agriculture and Environment, Estonian University of Life Sciences, 181 Riia St., 51014 Tartu, EstoniaIvika OstonenInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaJanno JõgevaNatural History Museum of Tartu University, 46 Vanemuise St., 51014 Tartu, EstoniaSiim HalapuuNatural History Museum of Tartu University, 46 Vanemuise St., 51014 Tartu, EstoniaKadri PõldmaaInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaMärt TootsInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, EstoniaJaak TruuInstitute of Molecular and Cell Biology, University of Tartu, 23 Riia St., 51010 Tartu, EstoniaKarl‐Henrik LarssonNatural History Museum of Oslo University, Box 1172, Blindern, N-0318 Oslo, NorwayUrmas KõljalgInstitute of Ecology and Earth Sciences, University of Tartu, 46 Vanemuise St., 51014 Tartu, Estonia

2010en

ABI

Аннотация

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 annotated with metadata, making it difficult to target and extract entries of interest with any degree of precision. Here we describe the web-based workbench PlutoF, which is designed to bridge the gap between the needs of contemporary research in biology and the existing software resources and databases. Built on a relational database, PlutoF allows remote-access rapid submission, retrieval, and analysis of study, specimen, and sequence data in INSD as well as for private datasets though web-based thin clients. In contrast to INSD, PlutoF supports internationally standardized terminology to allow very specific annotation and linking of interacting specimens and species. The sequence analysis module is optimized for identification and analysis of environmental ITS sequences of fungi, but it can be modified to operate on any genetic marker and group of organisms. The workbench is available at http://plutof.ut.ee .

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Идентификаторы

DOI: 10.4137/ebo.s6271

Цитирования и источники

Цитирований: 3Использованных источников: 0

Показатели — AkademScholar