Archives of Virology (2012) 157, 147-153

Naoto Yoshida, Hanako Shimura, Kazuo Yamashita, Masahiko Suzuki and Chikara Masuta (2012)
Variability in the P1 gene helps to refine phylogenetic relationships among Leek yellow stripe virus isolates from garlic
Archives of Virology 157 (1), 147-153
Abstract: Nucleotide sequences from the P1 gene and the 5' untranslated region of leek yellow stripe virus (LYSV), collected from several locations, were used to refine the phylogenetic relationships among the isolates. Multiple alignments revealed three distinct regions of insertions and deletions to classify LYSVs. In our phylogenetic analyses, the LYSV isolates separated into two major groups (N-type and S-type). S-type viruses had two large deletions compared to N-type viruses. Considering that the outgroup, onion yellow dwarf virus (OYDV) also has the sequences corresponding to the deletions in the S-type viruses, our study shows that the sequences missing in the S-type were present in the common ancestor of the N-type and S-type. In the phylogenetic trees, we found three distinct clades of isolates, from Uruguay (U), Okinawa (O) and Spain (Sp), suggesting that LYSVs have unique evolutionary histories depending on their garlic origins. The P1 gene of LYSV is thus quite suited to reflecting viral evolution, as recently suggested for other potyviruses.
(The abstract is excluded from the Creative Commons licence and has been copied with permission by the publisher.)
Link to article at publishers website
Database assignments for author(s): Chikara Masuta

Research topic(s) for pests/diseases/weeds:
general biology - morphology - evolution

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Pest and/or beneficial records:

Beneficial	Pest/Disease/Weed	Crop/Product	Country	Quarant.
	Leek yellow stripe virus		Spain (continental)
	Leek yellow stripe virus		Japan
	Leek yellow stripe virus	Onion/garlic/leek (Allium)	Uruguay