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149958 - Genomic Characterisation of an Isolate of Brassica Yellows Virus Associated with Brassica Weed in Tasmania.pdf (1.7 MB)

Genomic characterisation of an isolate of Brassica Yellows Virus associated with Brassica weed in Tasmania

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posted on 2023-05-21, 07:29 authored by Muhammad Umar, Farooq, T, Robert TeggRobert Tegg, Thangavel, T, Calum WilsonCalum Wilson
Brassica yellows virus (BrYV), a tentative species in the genus Polerovirus, of the Solemoviridae family, is a phloem-restricted and aphid-transmitted virus with at least three genotypes (A, B, and C). It has been found across mainland China, South Korea, and Japan. BrYV was previously undescribed in Tasmania, and its genetic variability in the state remains unknown. Here, we describe a near-complete genome sequence of BrYV (genotype A) isolated from Raphanus raphanistrum in Tasmania using next-generation sequencing and sanger sequencing of RT-PCR products. BrYV-Tas (GenBank Accession no. OM469309) possesses a genome of 5516 nucleotides (nt) and shares higher sequence identity (about 90%) with other BrYV isolates. Phylogenetic analyses showed variability in the clustering patterns of the individual genes of BrYV-Tas. Recombination analysis revealed beginning and ending breakpoints at nucleotide positions 1922 to 5234 nt, with the BrYV isolate LC428359 and BrYV isolate KY310572 identified as major and minor parents, respectively. Results of the evolutionary analysis showed that the majority of the codons for each gene are evolving under purifying selection, though a few codons were also detected to have positive selection pressure. Taken together, our findings will facilitate an understanding of the evolutionary dynamics and genetic diversity of BrYV.

Funding

Horticulture Innovation Australia

History

Publication title

Plants

Volume

11

Issue

7

Article number

884

Number

884

Pagination

1-14

ISSN

2223-7747

Department/School

Tasmanian Institute of Agriculture (TIA)

Publisher

MDPI AG

Place of publication

Switzerland

Rights statement

Copyright: © 2022 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons 4.0 International (CC BY 4.0) license (https://creativecommons.org/licenses/by/4.0/).

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  • Open

Socio-economic Objectives

Field grown vegetable crops

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