U.S. flagAn official website of the United States government
                    Here's how you know **Official websites use .gov**
                            
                            A **.gov** website belongs to an official government organization in the United States.
 **Secure .gov websites use HTTPS**
                            
                            A **lock** (                            
                              A locked padlock                                                      
                            
                            ) or **https://** means you’ve safely connected to the .gov website. Share sensitive information only on official, secure websites.


Menu Agricultural Research Service
						
                    U.S. DEPARTMENT OF AGRICULTURE
 Horticultural Crops Production and Genetic Improvement Research Unit: Corvallis, OR
 close



    Research

                    Research Projects
                                    Publications
                                    Collaborations
                                    News
                People

                    Staff Listing
                                    CareersSearch small
                    Search
            
            ARS Home
                                About ARS
                                Contact Us




ARS Home Pacific West Area Corvallis, Oregon Horticultural Crops Production and Genetic Improvement Research Unit Research





- Lee, Jungmin
- Soil and Air (212)
- Crop Production (305)

Research Project: **Location:
                            Horticultural Crops Production and Genetic Improvement Research Unit** Project Number: 2072-21000-057-010-G
                        
                        Project Type: Grant Start Date: Aug 1, 2020
                        
                        End Date: Oct 31, 2024 **Objective:**
                        
                        1. Characterize the virome associated with the grapevine disease complexes in fields.
2. Develop specific tools for detection and differentiation of newly described species and strains of important viruses.
3. Use the developed tools to survey Pacific Northwest states, to get a comprehensive picture of the presence of the novel virus strains.
4. Development of broad-spectrum diagnostic tools like RT-PCR to allow detection in the field. **Approach:**
                        
                        To characterize the viral population present in the Pacific Northwest (PNW), genomes of viruses will be recovered from previously identified infected plants, exhibiting symptoms corresponding to the main grapevine disease complexes in Idaho and other PNW vineyards. RNA will be extracted from those symptomatic field samples, depleted of ribosomal RNAs, and, after generating a library of cDNAs, submitted to the High-Throughput Sequencing (HTS) technology. Viromes of infected plants will be determined by assembling whole genomes to nearly completion based on HTS reads. Bioinformatic analyses will allow the identification of viral contigs by comparison with a virus database and the characterization of new strains. Re-sequencing of newly described genomes using conventional Sanger method will be applied to specific RT-PCR amplicons, to confirm and check the sequences. Emphasis will be given to viruses responsible for Grapevine Leafroll Disease (GLD), mainly Grapevine leafroll-associated virus-3 (GLRaV-3), and rugose wood complex (RWD), including Grapevine virus A (GVA) and B (GVB), which are the most commonly found in grapevines. The newly discovered sequences will serve as the basis for designing diagnostic primer sets to be used in RT-PCR for (i) specific detection of new strains of relevant pathogenic viruses; and (ii) improvement of current detection assay to detect typical viruses. We then propose to use the newly developed assays in Idaho as well as other PNW states, to assess virus diversity and prevalence in vineyards. Ultimately, these improved detection tools will be available for commercial testing of vegetative material in nurseries, used for propagation and grafting, to prevent an inadvertent dispersal of newly described strains. This will result in improved GLRaV-3 and other common virus detection in plant certification programs.


Return to top


Connect with ARS Sign up


ARS Home
                            USDA.gov
                            Plain Writing
                            Policies & Links
                            Civil Rights Statements
                            FOIA
                            Accessibility Statement
                            Privacy Policy
                            Non-Discrimination Statement
                            Quality of Information
                            USA.gov
                            WhiteHouse.gov