First reports of several viruses and a viroid including a novel vitivirus in Japan, found through virome analysis of bulk grape genetic resources.

Autor: Ito T; Institute for Plant Protection, National Agriculture and Food Research Organization (NARO), Akitsu, Higashihiroshima, Hiroshima, 739-2494, Japan. itotaka@affrc.go.jp.
Jazyk: angličtina
Zdroj: Virus genes [Virus Genes] 2024 Dec; Vol. 60 (6), pp. 684-694. Date of Electronic Publication: 2024 Aug 20.
DOI: 10.1007/s11262-024-02101-7
Abstrakt: Virome analysis was performed on 174 grape genetic resources from the National Agriculture and Food Research Organization, Japan. A total of 20 bulk samples was prepared by grouping the vines into batches of 6-10 plants. Each of the bulk samples was analyzed using high-throughput sequencing, which detected 27 viruses and 5 viroids, including six viruses and one viroid reported in Japan for the first time (grapevine viruses F, L, and T, grapevine Kizil Sapak virus, grapevine Syrah virus 1, grapevine satellite virus, and grapevine yellow speckle viroid 2). In addition, a novel vitivirus was detected with a maximum nucleotide sequence identity of only 58% to its closest relative, grapevine virus A (GVA). The genome of this novel virus was 7,461 nucleotides in length and encoded five open reading frames showing the typical genomic structure of vitiviruses. Phylogenetic trees of vitiviruses placed it in a distinct position nearest to GVA or grapevine virus F (GVF) in genomes and amino acids of deduced replication-associated protein (RAP) and coat protein (CP). The amino acid sequence identities of RAP and CP with GVA, GVF, and other vitiviruses were a maximum of 53% and 73%, respectively, which were significantly below the species demarcation threshold of 80% in the genus. The low identity and phylogenetic analyses indicate the discovery of a novel vitivirus species provisionally named grapevine virus P.
Competing Interests: Declarations Conflict of interest The author belongs to NARO. The author has no conflict of interest. Research involving human participants and animals This article does not contain any studies with human participants or animals performed by the author.
(© 2024. The Author(s), under exclusive licence to Springer Science+Business Media, LLC, part of Springer Nature.)
Databáze: MEDLINE
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