Skip to main content
ARS Home » Pacific West Area » Corvallis, Oregon » Horticultural Crops Research Unit » Research » Publications at this Location » Publication #348663
Title: Comparison between high throughput sequencing and current protocol for virus detection in berry fruit crops (Fragaria, Rubus and Vaccinium, spp.)

Author
item VILLAMOR, D - University Of Arkansas
item Martin, Robert
item TZANETAKIS, I - University Of Arkansas

Submitted to: Phytopathology
Publication Type: Abstract Only
Publication Acceptance Date: 3/2/2018
Publication Date: 4/9/2018
Citation: Villamor, D.E., Martin, R.R., Tzanetakis, I.E. 2018. Comparison between high throughput sequencing and current protocol for virus detection in berry fruit crops (Fragaria, Rubus and Vaccinium, spp.). Abstract for the International Congress of Plant Pathology 7/29/18-8/3/18 in Boston, MA.

Interpretive Summary:

Technical Abstract: A combination of biological indexing, serological and molecular assays is the current standard for virus detection in berry fruit crops (Fragaria, Rubus and Vaccinium, spp.). This panel of assays had been reliable in ensuring the production and release of virus tested propagation materials for these specialty crops. In recent years, high throughput sequencing (HTS) has gained wide acceptance for use in virus detection. Here, we compared HTS and the standard protocols for virus detection on 32 berry accessions (12 Fragaria, 10 Rubus and 10 Vaccinium). Analysis by HTS yielded comparable results with the current virus detection protocols but HTS was particularly superior in three aspects: (1) detection low-titer virus infections, (2) new or poorly characterized viruses, (3) speed at which analysis of virus profile is completed and (4) lower overall cost. Overall, these results confirm the efficacy of HTS for virus detection but further suggest its use to augment or possibly, replace the current virus detection protocols for berry crops.