Nucleotide analysis of pome fruit virus isolates detected in apple and pear samples
Ferretti, L.; Hallan, V.; Rana, T.; Ram, R.; Dhir, S.; Negi, A.; Lakshmi, V.; Thockchom, T.; Zaidi, A.A. Barba, M.
Proceedings of 21st International Conference on Virus and other Graft Transmissible Diseases of Fruit Crops
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In the framework of a joint research project between Italy and India field surveys were done in different pear and apple
growing areas of North of India and Central and Southern Italy. Samples were collected from plants belonging to
common and local varieties and molecularly analyzed for the detection of the main pome fruit viruses (Apple stem
pitting virus, Apple stem groving virus, Apple chlorotic leaf spot virus, Apple mosaic virus) by using harmonized
The sequence homology was evaluated and a phylogenetic tree was built, on the basis of which, the Indian isolate of
ASGV showed maximum sequence identity at a nucleotide level to Italian isolates when analyzed by BLAST
(http://blast.ncbi.nlm.nih.gov/Blast.cgi). Similarly, a maximum identity, ranging from 90-93%, was found for the Italian
isolates of ASPV and pear and apple isolates from Poland, while a sequence homology ranging from 83 to86% was
observed within the Indian isolates of ASPV. Multiple alignment of the Indian pome ACLSV-isolates indicate
maximum variability in the middle portion while the first 140 nucleotides are maximally conserved and shared a
percent identity at nucleotide level of 86-100% with the Italian isolates.
The ApMV Indian isolates showed maximum (92-99%) sequence homology to the Korean isolate (AY125977) from
apple. However, a comparison with other isolates from different host plant species revealed a clustering of Indian
isolates with a Czech isolate from pear and a sequence homology of 84 to 98%. Phylogenetic analysis showed that
sequence variability was independent to the geographical origin or the host for all the investigated viruses.