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High Sequence Variability Among Little cherry virus Isolates Occurring in British Columbia.

J Theilmann¹, S Orban¹, D Rochon¹

¹Agriculture and Agri-Food Canada, Pacific Agri-Food Research Centre, 4200 Highway 97, Summerland, British Columbia V0H 1Z0.

|February 24, 2019

Summary

Little cherry virus (LChV) causes severe disease in British Columbia cherries. Genetic analysis reveals significant LChV-LC5 sequence variability, impacting diagnostic accuracy for this cherry virus.

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Area of Science:

Plant Virology
Molecular Biology
Agricultural Science

Background:

Little cherry disease (LChD) in British Columbia is caused by at least two distinct viruses.
The LC5 isolate of Little cherry virus (LChV-LC5) is a key contributor to LChD.
Near-complete genome sequence and specific antibodies for LChV-LC5 are available.

Purpose of the Study:

To survey for LChV-LC5 infected cherry trees in British Columbia.
To analyze the genetic diversity of LChV-LC5 isolates.
To assess the implications of genetic variability on diagnostic methods.

Main Methods:

Enzyme-linked immunosorbent assays (ELISA) using LChV-LC5 antibodies for initial detection.
Reverse transcriptase polymerase chain reaction (RT-PCR) on multiple genomic regions.
Nucleotide and amino acid sequence analysis of 31 LChV-LC5 isolates.

Main Results:

A high level of sequence variability was observed among LChV-LC5 isolates.
Nucleotide sequence divergence ranged from 0 to 19.7%.
Amino acid sequence divergence ranged from 0 to 9.1%, with six distinct isolate groups identified.

Conclusions:

Significant genetic divergence exists within LChV-LC5 populations in British Columbia.
The observed variability necessitates careful consideration when selecting diagnostic tools for LChV surveys.
Further research into LChV diversity is crucial for effective disease management.