RNAseq Analysis of Rhizomania-Infected Sugar Beet Provides the First Genome Sequence of Beet Necrotic Yellow Vein Virus from the USA and Identifies a Novel Alphanecrovirus and Putative Satellite Viruses.

Viruses
John J WeilandMelvin D Bolton

Abstract

"Rhizomania" of sugar beet is a soilborne disease complex comprised of beet necrotic yellow vein virus (BNYVV) and its plasmodiophorid vector, Polymyxa betae. Although BNYVV is considered the causal agent of rhizomania, additional viruses frequently accompany BNYVV in diseased roots. In an effort to better understand the virus cohort present in sugar beet roots exhibiting rhizomania disease symptoms, five independent RNA samples prepared from diseased beet seedlings reared in a greenhouse or from field-grown adult sugar beet plants and enriched for virus particles were subjected to RNAseq. In all but a healthy control sample, the technique was successful at identifying BNYVV and provided sequence reads of sufficient quantity and overlap to assemble > 98% of the published genome of the virus. Utilizing the derived consensus sequence of BNYVV, infectious RNA was produced from cDNA clones of RNAs 1 and 2. The approach also enabled the detection of beet soilborne mosaic virus (BSBMV), beet soilborne virus (BSBV), beet black scorch virus (BBSV), and beet virus Q (BVQ), with near-complete genome assembly afforded to BSBMV and BBSV. In one field sample, a novel virus sequence of 3682 nt was assembled with significant sequence similari...Continue Reading

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Citations

Jan 7, 2021·Viruses·Michael Goodin, Jeanmarie Verchot
Jul 27, 2021·Frontiers in Microbiology·Vanitharani RamachandranMelvin D Bolton

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Datasets Mentioned

BETA
MT227164
MT372831-MT372842
EU330455.1
MT227166
MT227163

Methods Mentioned

BETA
RNAseq
PCR
electrophoresis
reverse transcription PCR
in vitro transcription

Software Mentioned

Genewiz
BLASTn
MUSCLE
BLAST
RNAseq
RAxML

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