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Sequence comparisons of global chrysanthemum stunt viroid variants: multiple polymorphic positions scattered through the viroid genome

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Abstract

The nucleotide sequences of cDNA clones of three chrysanthemum stunt viroid (CSVd) isolates (one each from the USA, China, and Australia) were determined and analyzed. The sequences of CSVd cDNA clones of the US and Australian isolates were both quasi-species, while the cDNA clones of the Chinese isolate contained only a single variant. A comparison of the nucleotide sequences of 117 isolates and cDNA clones obtained from 16 countries showed that in some cases identical CSVd isolates were found in several countries and from multiple locations within the same country. CSVd isolates differed as much in sequence between countries as within countries. Sequence variation was observed at 103 sites scattered through the CSVd genome, and was not associated predominantly with a single variable region, as was the case with several other viroids. While some sequence changes were associated with CSVd found in other host species, it is unknown if these changes are required for infection of those species.

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Acknowledgments

The authors thank Hans-Peter Mühlbach for searching and providing parts of the thesis of J. Müller-Derlich, Arnis Druka for sharing unpublished information as the origin and sequence of the Latvian isolates of CSVd, Teruo Sano for sharing information concerning the origin of the sequence presented in GenBank Accession number E13156, and Bong Nam Chung for providing materials used in this analysis. This work was supported by Grant Number RDA-PJ007984 from the Next-Generation BioGreen21 Program of the Rural Development Administration, Republic of Korea.

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  1. Department of Horticultural Sciences, Seoul Women’s University, Seoul, 139-774, Republic of Korea

    Ju-Yeon Yoon & Peter Palukaitis

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  1. Ju-Yeon Yoon
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  2. Peter Palukaitis
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Correspondence to Peter Palukaitis.

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Yoon, JY., Palukaitis, P. Sequence comparisons of global chrysanthemum stunt viroid variants: multiple polymorphic positions scattered through the viroid genome. Virus Genes 46, 97–104 (2013). https://doi.org/10.1007/s11262-012-0811-0

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  • DOI: https://doi.org/10.1007/s11262-012-0811-0

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