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ARS Home » Northeast Area » Beltsville, Maryland (BARC) » Beltsville Agricultural Research Center » National Germplasm Resources Laboratory » Research » Publications at this Location » Publication #407739
Research Project: Characterization and Detection of Viruses that Impact the Exchange and Curation of Plant Germplasm

Location: National Germplasm Resources Laboratory

Title: Genome-wide analysis of citrus yellow vein clearing virus in California reveals high genetic variability

Author
item Abrahamian, Peter
item TIAN, TONGYAN - California Department Of Food And Agriculture
item POSIS, KATIE - California Department Of Food And Agriculture
item YU, DORIS - California Department Of Food And Agriculture
item BLOMQUIST, CHERYL - California Department Of Food And Agriculture
item VIDALAKIS, GEORGIOS - University Of California, Riverside
item Roy, Avijit
item NUNZIATA, SCHYLER - Animal And Plant Health Inspection Service (APHIS)
item ADDUCI, BENJAMIN - Animal And Plant Health Inspection Service (APHIS)
item NAKHLA, MARK - Animal And Plant Health Inspection Service (APHIS)
item MAVRODIEVA, VESSELA - Animal And Plant Health Inspection Service (APHIS)
item RIVERA, YAZMIN - Animal And Plant Health Inspection Service (APHIS)

Submitted to: American Phytopathological Society Annual Meeting
Publication Type: Abstract Only
Publication Acceptance Date: 5/15/2023
Publication Date: N/A
Citation: N/A

Interpretive Summary:

Technical Abstract: Citrus yellow vein clearing virus (CYVCV) is an emerging citrus virus known to occur in Asia and widely spread across China. In February 2022, a lemon (Citrus limon) tree showing characteristic symptoms of vein clearing and vein chlorosis was found in a residential property in the city of Tulare in Tulare County, California during a routine survey conducted by California Department of Food and Agriculture. CYVCV was detected using real-time reverse transcription PCR (RT-qPCR) and confirmed using conventional RT-PCR and Sanger sequencing. An intensive survey was conducted following the first detection resulting in 3,019 plant samples collected and tested for CYVCV. An incidence rate of approximately 20 % was found in citrus, while non-citrus plants tested negative. To evaluate the genetic variability of CYVCV in California, a subset of 24 samples were selected for high throughput sequencing. A total of 17 near complete contigs were assembled and genome termini were completed using RACE PCR. Genome-based phylogeny of the sequenced isolates with publicly available genomes revealed two major CYVCV groups: a Chinese and a US-emerging group. Genetic analysis of the U.S. genomes showed that 13 out of 17 isolates were distinctly related to the Chinese population and formed a separate group. The remaining four U.S. isolates showed weak homology to isolates from India, Pakistan, and South Korea. Overall, CYVCV populations show high differentiation which indicates movement of infected plant materials into previously CYVCV free areas.