Exploration of plant transcriptomes reveals five putative novel poleroviruses and an enamovirus

Abstract

Transcriptome datasets available in public domain serve as valuable resource for identi cation and characterization of novel viral genomes. Poleroviruses are economically important plant-infecting RNA viruses belonging to the family Luteoviridae. In the present study, we explored the plant transcriptomes available in public domain and identi ed ve putative novel poleroviruses tentatively named as Foeniculum vulgare polerovirus (FvPV), Kalanchoe marnieriana polerovirus (KmPV), Paspalum notatum polerovirus (PnPV), Piper methysticum polerovirus (PmPV), Trachyspermum ammi polerovirus (TaPV) and a novel enamovirus named as Celmisia lyallii enamovirus (ClEV) in Foeniculum vulgare, Kalanchoe marnieriana, Paspalum notatum, Piper methysticum, Trachyspermum ammi and Celmisia lyallii, respectively. Coding-complete genomes (5.56−5.74 kb) of CIEV, KmPV, PnPV, PmPV and TaPV were recovered while only the partial genome of FvPV could be recovered. The genome organization of identi ed viruses except ClEV is 5'−P0−P1−P2−P3a−P3−P4−P5−3' while that of ClEV is 5'−P0−P1−P2−P3− P5−3'. Phylogenetic analysis and genome organization revealed the relatedness of FvPV, KmPV, PnPV, PmPV and TaPV to other poleroviruses and ClEV to other enamoviruses.

Metatranscriptomic Analysis Reveals Rich Mycoviral Diversity in Three Major Fungal Pathogens of Rice

“…He et al [ 21 ] recently reported that they identified 102 mammalian-infected viruses in 1941 game animals, with 65 described for the first time. In plant viruses, Sidharthan et al [ 22 ] previously reported the identification of five putative novel poleroviruses and an enamovirus through plant transcriptomes.…”

Revisiting the amalgaviral landscapes in plant transcriptomes expands the host range of plant amalgaviruses

“…The introduction of Next Generation Sequencing (NGS) technologies has led to the increased deposition of transcriptomic reads and transcriptome-assembled contigs in public domain databases like Short Read Archives (SRA) and Transcriptome Shotgun Assembly (TSA), respectively of National Centre for Biotechnology Information (NCBI) (Kavi Sidharthan et al, 2022). As the original researches generating the transcriptome data are not 'virome-centric', viral sequences that might be present in those data often go unnoticed.…”

Identification of a putative novel cholivirus in the transcriptome of Gymnema sylvestre R. Br

“…On the other hand, viral taxonomy is witnessing a shift from the traditional taxonomy to the sequence-based taxonomy, which advocates the inclusion of viral sequences known only from metagenomic data in the International Committee on Taxonomy of Viruses (ICTV) taxonomy scheme for comprehensively characterizing global virome [5]. The acceptance of sequence-based viral taxonomy paved way for data-driven virus discovery studies that identi ed several putative novel plant viruses in various plant transcriptomes [6,7,8,9,10,11,12]. Thus, in the present study, we explored the transcriptome datasets of G. sylvestre available in public domain for novel plant viral sequences and identi ed a putative novel cholivirus.…”