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Nucleotide Sequence Analysis for Assessment of Variability of Potato Leafroll Virus and Phylogenetic Comparisons

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Author(s): Kamil Haliloglu | Hidayet Bostan

Journal: Journal of Biological Sciences
ISSN 1727-3048

Volume: 2;
Issue: 9;
Start page: 582;
Date: 2002;
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Keywords: Phylogenetic | nucleotide comparison | conserved regions

ABSTRACT
Relationships were investigated by comparing the nucleotide sequences from 17 PLRV coat protein genes submitted in GenBank. The alignment of 479 positions required few gaps and these positions showed consensus among the sequences. Overall identity was 45.17%. A phylogenetic tree based on the nucleotide sequences was established. There are two major clusters originated from a common branch in the phylogram, but are distinct from each other. Australian isolate was found to be very distinct compared to other isolates in the phylogenetic relationship. In this study nine conserved region and their length ranging from 18 to 58 bp were found. Sequences of conserved regions are prerequisite to design PCR primers for group or isolate based diagnosis of viruses. This study provides preliminary information about relationships of CP genes of PLRV isolates to develop strategy in designing as well as engineering of CP based transgenic resistancy in plants.
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