Diversity and comparative genomics of chimeric viruses in Sphagnum- dominated peatlands

Virus Evolution
Achim QuaiserSimon Roux

Abstract

A new group of viruses carrying naturally chimeric single-stranded (ss) DNA genomes that encompass genes derived from eukaryotic ssRNA and ssDNA viruses has been recently identified by metagenomic studies. The host range, genomic diversity, and abundance of these chimeric viruses, referred to as cruciviruses, remain largely unknown. In this article, we assembled and analyzed thirty-seven new crucivirus genomes from twelve peat viromes, representing twenty-four distinct genome organizations, and nearly tripling the number of available genomes for this group. All genomes possess the two characteristic genes encoding for the conserved capsid protein (CP) and a replication protein. Additional ORFs were conserved only in nearly identical genomes with no detectable similarity to known genes. Two cruciviruses possess putative introns in their replication-associated genes. Sequence and phylogenetic analyses of the replication proteins revealed intra-gene chimerism in at least eight chimeric genomes. This highlights the large extent of horizontal gene transfer and recombination events in the evolution of ssDNA viruses, as previously suggested. Read mapping analysis revealed that members of the 'Cruciviridae' group are particularly preva...Continue Reading

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Citations

Sep 16, 2018·Applied and Environmental Microbiology·Joshua M A StoughSteven W Wilhelm
Jun 7, 2019·Microbiology Resource Announcements·Ignacio de la HigueraKenneth M Stedman
Feb 6, 2020·ELife·Michael J TiszaChristopher B Buck
Sep 3, 2020·MBio·Ignacio de la HigueraKenneth M Stedman
May 31, 2019·Virusdisease·V G Malathi, P Renuka Devi

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Methods Mentioned

BETA
nucleic acid extraction

Software Mentioned

Sequence Demarcation Tool ( SDT
PHYML
MetaVir
BLASTx
MUMmer
Biogenouest Galaxy
MUSCLE
PROMALS3D

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