Staff Publications

Staff Publications

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    'Staff publications' is the digital repository of Wageningen University & Research

    'Staff publications' contains references to publications authored by Wageningen University staff from 1976 onward.

    Publications authored by the staff of the Research Institutes are available from 1995 onwards.

    Full text documents are added when available. The database is updated daily and currently holds about 240,000 items, of which 72,000 in open access.

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Record number 412022
Title DNA barcoding of oomycetes with cytochrome c oxidase subunit I and internal transcribed spacer
Author(s) Robideau, G.P.; Cock, A.W.A.M. de; Coffey, M.D.; Voglmayr, H.; Brouwer, H.; Bala, K.; Chitty, D.W.; Désaulniers, N.; Eggertson, Q.A.; Gachon, C.M.M.; Hu, C.H.; Küpper, F.C.; Rintoul, T.L.; Sarhan, E.; Verstappen, E.C.P.; Zhang, Y.; Bonants, P.J.M.; Ristaino, J.B.; Lévesque, C.A.
Source Molecular Ecology Resources 11 (2011)6. - ISSN 1755-098X - p. 1002 - 1011.
DOI http://dx.doi.org/10.1111/j.1755-0998.2011.03041.x
Department(s) PRI BIOINT Moleculair Phytopathology
Publication type Refereed Article in a scientific journal
Publication year 2011
Keyword(s) multiple sequence alignment - phylogenetic-relationships - molecular phylogeny - ribosomal dna - genus phytophthora - filamentous fungi - lsu rdna - pythium - mitochondrial - identification
Abstract Oomycete species occupymany different environments andmany ecological niches. The genera Phytophthora and Pythium for example, contain many plant pathogens which cause enormous damage to a wide range of plant species. Proper identification to the species level is a critical first step in any investigation of oomycetes, whether it is research driven or compelled by the need for rapid and accurate diagnostics during a pathogen outbreak. The use of DNA for oomycete species identification is well established, but DNA barcoding with cytochrome c oxidase subunit I (COI) is a relatively new approach that has yet to be assessed over a significant sample of oomycete genera. In this study we have sequenced COI, from 1205 isolates representing 23 genera. A comparison to internal transcribed spacer (ITS) sequences from the same isolates showed that COI identification is a practical option; complementary because it uses the mitochondrial genome instead of nuclear DNA. In some cases COI was more discriminative than ITS at the species level. This is in contrast to the large ribosomal subunit, which showed poor species resolution when sequenced from a subset of the isolates used in this study. The results described in this paper indicate that COI sequencing and the dataset generated are a valuable addition to the currently available oomycete taxonomy resources, and that both COI, the default DNA barcode supported by GenBank, and ITS, the de facto barcode accepted by the oomycete and mycology community, are acceptable and complementary DNA barcodes to be used for identification of oomycetes
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