Data from: Ecological connectivity shapes quasispecies structure of RNA viruses in an Antarctic lake ...

RNA viruses exist as complex mixtures of genotypes, known as quasispecies, where the evolution potential resides in the whole community of related genotypes. Quasispecies structure and dynamics have been studied in detail for virus infecting animals and plants but remain unexplored for those infecti...

Full description

Bibliographic Details
Main Authors: López-Bueno, Alberto, Rastrojo, Alberto, Peiró, Ramon, Arenas, Miguel, Alcamí, Antonio
Format: Dataset
Language:English
Published: Dryad 2015
Subjects:
Metagenomics
Genomics/Proteomics
Microbial Biology
Antarctic
Livingston Island
Antarc*
Online Access:https://dx.doi.org/10.5061/dryad.1dp6s
https://datadryad.org/stash/dataset/doi:10.5061/dryad.1dp6s
Description
Summary:RNA viruses exist as complex mixtures of genotypes, known as quasispecies, where the evolution potential resides in the whole community of related genotypes. Quasispecies structure and dynamics have been studied in detail for virus infecting animals and plants but remain unexplored for those infecting micro-organisms in environmental samples. We report the first metagenomic study of RNA viruses in an Antarctic lake (Lake Limnopolar, Livingston Island). Similar to low-latitude aquatic environments, this lake harbours an RNA virome dominated by positive single-strand RNA viruses from the order Picornavirales probably infecting micro-organisms. Antarctic picorna-like virus 1 (APLV1), one of the most abundant viruses in the lake, does not incorporate any mutation in the consensus sequence from 2006 to 2010 and shows stable quasispecies with low-complexity indexes. By contrast, APLV2-APLV3 are detected in the lake water exclusively in summer samples and are major constituents of surrounding cyanobacterial mats. ... : Contigs obtained with Newbler and CLC Genomic Workbench de novo assemblersContigs.zipAlignment of the RpRd domainRdRp_Alignment.faPhylogenetic tree based on RpRd domain alignmentRdRp_Tree.newickValidated SNVsValidated SNVs (CLC Genomic Workbench approach) for all APLV-quasispeciesAPLV_SNVs.xlsxPCA input for dinucleotide bias analysisDinucleotidePCA_131Picornavirales.txt ...

Similar Items