DOI: 10.6084/m9.figshare.12814637.v1
title: The results of the comparative taxonomic and genomic analysis of the viromes from Lake Baikal and other freshwater bodies

description: The dataset contains the tables and files that demonstrate the results of a comparative genomic, taxonomic and functional analysis of viral communities from Lake Baikal and other freshwater lakes [1-8]. Taxonomic identification of the sequences (metagenomic reads) was carried out using the BLASTn [9] and DIAMOND [10] programs against the NCBI RefSeq complete viral genome and proteome database [11]. De novo assembly was carried out using SPAdes 3.13.0 metagenomics assembler, metaSPAdes [12]. The «VirSorter» tool [13] was used for identifying the viral scaffolds and viral proteins. Functional annotation of viral proteins in the viromes of Lake Baikal was carried out using COG (Clusters of Orthologous Groups) [14] and KEGG pathway [15] classification groups. For taxonomic analysis, comparisons of DNA reads with complete viral genomes using the BLASTn program were carried out on five high performance nodes Intel Xeon E5-2695 v4 "Broadwell" CPU (2 CPUs, 36 cores total, with 128 Gb RAM per node), total calculation time ~ 24 hours. Comparisons of DNA reads with complete viral proteomes using the DIAMOND program were carried out on five high performance nodes Intel Xeon E5-2695 v4 "Broadwell" CPU (2 CPUs, 36 cores total, with 128 Gb RAM per node), total calculation time ~ 3 hours. The paired reads assembly was performed using AMD Opteron 6278 (8 CPU, 64 cores total), 945 Gb RAM, total assembling time ~ 399 hours.<br><b>Full list of Supplementary Materials</b><b><br></b><b>Figures</b>Figure S1: A complete scheme of bioinformatic analysis. The stages of the analysis are highlighted with red boxes, the resulting datasets are blue with a dashed stroke, and the databases (DB) used are purple.<br>Figure S2: Dominated viral families in the investigated Baikal viromes. The percentages greater than one percent are shown in the diagrams.<br>Figure S3: The general functional annotation of the Baikal virome datasets using the COG (A) and KEGG pathway (B) databases.<br>Figure S4: The phyla of the hosts predicted for revealed Baikal viruses using the Virus-Host database (A) and the VirHostMatcher-Net software (B).<br><b>Tables</b><br>Table S1: The list and taxonomy of virotypes revealed in analyzed freshwater viromes (initial number of reads per virotype).<br>Table S2: The list and taxonomy of virotypes revealed in analyzed freshwater viromes (number of reads per virotype normalized to genome length).<br>Table S3. The list and taxonomy of virotypes revealed in analyzed freshwater viromes (number of reads per virotype normalized to genome length for 95% dominant pool).<br>Table S4: Taxonomic identification of the Baikal viral scaffolds, the similarity of detected ORFs and RefSeq proteins, and the number of virome reads per scaffold.<br>Table S5: Main and secondary KO (KEGG Orthology) functional categories of predicted viral proteins and the number of reads related to these functions in the Baikal samples.<br>Table S6: COG (Clusters of Orthologous Groups) classification of viral proteins revealed in the Baikal viromes (the columns indicate the number of reads per COG functional category for each sample).<br>Table S7: The predicted viral proteins or enzymes identified with the COG database in the Baikal viromes (the columns indicate the number of reads for each protein in the samples).<br>Table S8: The auxiliary metabolic genes (AMGs) revealed among predicted proteins in the Baikal viromes.<br>Table S9: The known hosts for the Baikal virotypes identified using the Virus-Host database.<br>Table S10: The list of the hosts predicted for the revealed Baikal viruses using the VirHostMatcher-Net software.<br><b>Files</b><br>File S1: Scaffolds obtained using the metaSPAdes software.<br>File S2: Viral scaffolds identified with the VirSorter tool.<br>File S3: Viral proteins identified with the VirSorter tool.<br><b>References</b><br>1. 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