DNA barcoding of oomycetes with cytochrome c oxidase subunit I and internal transcribed spacer

Molecular Ecology Resources - Tập 11 Số 6 - Trang 1002-1011 - 2011
G.P. Robideau1,2, Arthur W. A. M. de Cock3, Michael D. Coffey4, Hermann Voglmayr5, Henk J. Brouwer3, Kanak Bala6, David W. Chitty6, N. L. Désaulniers6, Quinn Eggertson6, Claire M. M. Gachon7, Chia-Hui Hu8, Frithjof C. Küpper7, Tara L. Rintoul6, Ehab Sarhan4, E.C.P. Verstappen9, Yonghong Zhang4, P.J.M. Bonants9, Jean B. Ristaino8, C. André Lévesque1,2
1Agriculture and Agri‐Food Canada, 960 Carling Ave., Ottawa, Ontario, Canada K1A 0C6
2Biology Department, Carleton University, 1125 Colonel By Dr., Ottawa, Ontario, Canada K1S 5B6
3CBS KNAW Fungal Biodiversity Centre, Uppsalalaan 8, 3584 CT Utrecht, The Netherlands
4Department of Plant Pathology and Microbiology, University of California, Riverside, CA, 92521, USA
5Systematic and Evolutionary Botany, Faculty Center Biodiversity, University of Vienna, Rennweg 14, 1030 Wien, Austria
6Agriculture and Agri-Food Canada, 960 Carling Ave., Ottawa, Ontario, Canada K1A 0C6
7Culture Collection for Algae and Protozoa, Scottish Association for Marine Science, Scottish Marine Institute, Oban PA37 1QA, UK
8Department of Plant Pathology, North Carolina State University, Raleigh, NC 27695 USA
9Plant Research International, Droevendaalsesteeg 1, 6708 PB Wageningen, The Netherlands

Tóm tắt

AbstractOomycete species occupy many different environments and many 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.

Từ khóa


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Molecular Ecology Resources

Tập 11 Số 6

1002-1011

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