A novel Actinidia cytorhabdovirus characterized using genomic and viral protein interaction features

Abstract

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Old and New Aphid-Borne Viruses in Coriander in Chile: An Epidemiological Approach

“…The complete replicase gene was amplified by PCR using primers indicated in Table S1 , sequenced, and aligned with the complete sequence obtained by HTS, with all fragments matching the assembled sequence at 100% nucleotide identity (GenBank accession number OR536958). The complete genome contained six predicted ORFs ( Figure 2 ), which were identically organized as the typical cytorhabdovirus genomic structure [ 31 ]. Looking at the positive-sense genomic RNA, the first gene encoded a nucleocapsid protein (pfam03216) of 480 amino acids and shared the highest identity with the N segment of the raspberry vein chlorosis virus RVCV (52.76%).…”

Identification and characterization of a novel Cytorhabdovirus associated with goji berry (Lycium barbarum L.) crinkle disease

“…The genome of GCVA consists of 14,812 nt and is predicted to encode six ORFs in the order 3′ leader-N-P-P4-M-G-L 5′ trailer ( Figure 2B ), which conforms to the basic canonical organization (3′ leader-N-P-M-G-L 5′ trailer) described for plant rhabdoviruses ( Dietzgen et al, 2020 ). GCVA shared the highest genomic sequence identity (65.80%) with YmVA (NC_076472), and its N and L proteins were 9.0–31.7% and 20.2–37.4% homologous at the aa level with the 10 most similar cytorhabdoviruses available in the GenBank database ( Figures 3B , D ; Supplementary Table S3 ), which met the criteria for species demarcation in the genus Cytorhabdovirus ( Wang et al, 2021 ). In the phylogenetic analysis deduced from the aa sequences of proteins L and N, the novel virus clustered together with YmVA within the cytorhabdovirus group ( Figures 4A , B ).…”

Annual (2023) taxonomic update of RNA-directed RNA polymerase-encoding negative-sense RNA viruses (realm Riboviria: kingdom Orthornavirae: phylum Negarnaviricota)

“…• Cytorhabdovirus actinidiae for Actinidia virus D (AcVD) discovered by HTS in golden kiwifruit (actinidiaceaen Actinidia chinensis Planch.) sampled in Jiāngxī Province (江西省), China [33]; • Cytorhabdovirus anthurii for Anthurium amnicola virus 1 (AntAmV1) discovered by HTS in Hawaiian tulip (araceaen Anthurium amnicola Dressler) sampled in Hawaii, USA [29]; • Cytorhabdovirus asclepiadis for Asclepias syriaca virus 1 (AscSyV1) discovered by HTS in common milkweed (apocynaceaen Asclepias syriaca L.) sampled in Illinois, USA [29]; • Cytorhabdovirus bemisiae for Bemisia tabaci-associated virus 1 (BeTaV1) discovered by HTS in whiteflies (aleyrodid Bemisia tabaci (Gennadius, 1889)) sampled in India [29]; • Cytorhabdovirus glehniae for Glehnia littoralis virus 1 (GlLV1) discovered by HTS in beach silvertop (apiaceaen Glehnia littoralis F. Schmidt ex Miq.) sampled in Fújiàn Province (福建省), China [29]; • Cytorhabdovirus kenyatuberosum for Kenyan potato cytorhabdovirus (KePCyV) discovered by HTS in potatoes (solanaceaen Solanum tuberosum L.) sampled in Kenya [unpublished, GenBank #MN689395]; • Cytorhabdovirus nymphaeae for Nymphaea alba virus 1 (NymAV1) discovered by HTS in European white water lily (nymphaeaceaen Nymphaea alba L.) sampled in Turkey [29]; • Cytorhabdovirus orchidaceae for Gymnadenia densiflora virus 1 (GymDenV1) discovered by HTS in marsh fragrant orchid (orchidaceaen Gymnadenia densiflora (Wahlenb.)…”

“…Cytorhabdovirus actinidiae for Actinidia virus D (AcVD) discovered by HTS in golden kiwifruit (actinidiaceaen Actinidia chinensis Planch.) sampled in Jiāngxī Province (江西省), China [ 33 ];…”