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Phylogenetic relationships of Puccinia horiana and other rust pathogens of Chrysanthemum × morifolium based on rDNA ITS sequence analysis

Hossein Alaei Shah Vali Anar UGent, Mathias De Backer, Jorinde Nuytinck UGent, Martine Maes, Monica Höfte UGent and Kurt Heungens (2009) Mycological Research. 113(6-7). p.668-683
abstract
Isolates of the most important Puccinia species that have been reported on Chrysanthemum × morifolium were collected and the sequences of their ribosomal DNA internal transcribed spacers ITS1 and ITS2 were determined and used as phylogenetic markers. The focus of this study was on Puccinia horiana, due to its quarantine status and its impact in commercial chrysanthemum production. Three technical adjustments were needed to reliably obtain the nucleotide sequences starting from fresh or dried samples. The complete rDNA ITS nucleotide sequences of P. horiana, Puccinia chrysanthemi, and Puccinia tanaceti isolates of varying age and geographic origin were determined. We also identified an as yet undescribed Puccinia species on six old herbarium samples from chrysanthemum. This new species is morphologically similar to P. chrysanthemi and near identical to recent rust samples from Artemisia tridentata. P. tanaceti could not be confirmed as a pathogen of chrysanthemum. Different rDNA ITS sequences were present in P. horiana, with intra-isolate and inter-isolate variability in the length of three nucleotide repeat regions in the different rDNA tandem copies. We also identified three ITS types within P. horiana, with the rarer types displaying up to 67 bp nucleotide sequence differences. These rarer ITS types were detected at low copy number in all isolates. In general, very little rDNA ITS sequence variation was observed between P. horiana isolates from 1903 and 2003, and among isolates from different continents. Phylogenetic analyses using distance, Maximum Likelihood and Bayesian methods confirmed P. horiana, P. chrysanthemi, and the new Puccinia sp. as well-resolved groups, with P. horiana clustering in the clade where the economically important rust species of the Poaceae are located, and P. chrysanthemi and the new Puccinia sp. clustering in the clade where the majority of the rust fungi with hosts in the Asteraceae is located.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
Chrysanthemum white rust, DNA extraction, Nucleotide repeats, Puccinia tanaceti, Puccinia chrysanthemi
journal title
Mycological Research
Mycol. Res.
volume
113
issue
6-7
pages
668 - 683
Web of Science type
Article
Web of Science id
000267100100002
JCR category
MYCOLOGY
JCR impact factor
2.921 (2009)
JCR rank
4/19 (2009)
JCR quartile
1 (2009)
ISSN
0953-7562
DOI
10.1016/j.mycres.2009.02.003
language
English
UGent publication?
yes
classification
A1
id
714167
handle
http://hdl.handle.net/1854/LU-714167
date created
2009-07-06 11:55:10
date last changed
2016-12-19 15:43:35
@article{714167,
  abstract     = {Isolates of the most important Puccinia species that have been reported on Chrysanthemum {\texttimes} morifolium were collected and the sequences of their ribosomal DNA internal transcribed spacers ITS1 and ITS2 were determined and used as phylogenetic markers. The focus of this study was on Puccinia horiana, due to its quarantine status and its impact in commercial chrysanthemum production. Three technical adjustments were needed to reliably obtain the nucleotide sequences starting from fresh or dried samples. The complete rDNA ITS nucleotide sequences of P. horiana, Puccinia chrysanthemi, and Puccinia tanaceti isolates of varying age and geographic origin were determined. We also identified an as yet undescribed Puccinia species on six old herbarium samples from chrysanthemum. This new species is morphologically similar to P. chrysanthemi and near identical to recent rust samples from Artemisia tridentata. P. tanaceti could not be confirmed as a pathogen of chrysanthemum. Different rDNA ITS sequences were present in P. horiana, with intra-isolate and inter-isolate variability in the length of three nucleotide repeat regions in the different rDNA tandem copies. We also identified three ITS types within P. horiana, with the rarer types displaying up to 67 bp nucleotide sequence differences. These rarer ITS types were detected at low copy number in all isolates. In general, very little rDNA ITS sequence variation was observed between P. horiana isolates from 1903 and 2003, and among isolates from different continents. Phylogenetic analyses using distance, Maximum Likelihood and Bayesian methods confirmed P. horiana, P. chrysanthemi, and the new Puccinia sp. as well-resolved groups, with P. horiana clustering in the clade where the economically important rust species of the Poaceae are located, and P. chrysanthemi and the new Puccinia sp. clustering in the clade where the majority of the rust fungi with hosts in the Asteraceae is located.},
  author       = {Alaei Shah Vali Anar, Hossein and De Backer, Mathias and Nuytinck, Jorinde and Maes, Martine and H{\"o}fte, Monica and Heungens, Kurt},
  issn         = {0953-7562},
  journal      = {Mycological Research},
  keyword      = {Chrysanthemum white rust,DNA extraction,Nucleotide repeats,Puccinia tanaceti,Puccinia chrysanthemi},
  language     = {eng},
  number       = {6-7},
  pages        = {668--683},
  title        = {Phylogenetic relationships of Puccinia horiana and other rust pathogens of Chrysanthemum {\texttimes} morifolium based on rDNA ITS sequence analysis},
  url          = {http://dx.doi.org/10.1016/j.mycres.2009.02.003},
  volume       = {113},
  year         = {2009},
}

Chicago
Alaei Shah Vali Anar, Hossein, Mathias De Backer, Jorinde Nuytinck, Martine Maes, Monica Höfte, and Kurt Heungens. 2009. “Phylogenetic Relationships of Puccinia Horiana and Other Rust Pathogens of Chrysanthemum × Morifolium Based on rDNA ITS Sequence Analysis.” Mycological Research 113 (6-7): 668–683.
APA
Alaei Shah Vali Anar, H., De Backer, M., Nuytinck, J., Maes, M., Höfte, M., & Heungens, K. (2009). Phylogenetic relationships of Puccinia horiana and other rust pathogens of Chrysanthemum × morifolium based on rDNA ITS sequence analysis. Mycological Research, 113(6-7), 668–683.
Vancouver
1.
Alaei Shah Vali Anar H, De Backer M, Nuytinck J, Maes M, Höfte M, Heungens K. Phylogenetic relationships of Puccinia horiana and other rust pathogens of Chrysanthemum × morifolium based on rDNA ITS sequence analysis. Mycological Research. 2009;113(6-7):668–83.
MLA
Alaei Shah Vali Anar, Hossein, Mathias De Backer, Jorinde Nuytinck, et al. “Phylogenetic Relationships of Puccinia Horiana and Other Rust Pathogens of Chrysanthemum × Morifolium Based on rDNA ITS Sequence Analysis.” Mycological Research 113.6-7 (2009): 668–683. Print.