Prokaryotic virus contig sequences from Mar Menor (time series, from October 2019 to October 2022), Mar Menor [Ghai et al. (2012], Albufera of Valencia [Ghai et al. (2012] and other datasets to reproduce figures, and surface water from several locations of the Mediterranean Sea [(López-Pérez et al. (2017) and Karsenti et al. (2011)].

### Prokaryotic virus contig sequences from Mar Menor (time series, from October 2019 to October 2022), Mar Menor [Ghai et al. (2012], Albufera of Valencia [Ghai et al. (2012], and surface water from several locations of the Mediterranean Sea [(López-Pérez et al. (2017) and Karsenti et al. (2011)]. The virus contig sequences were identified following the SOP recommended by Guo et al. 2021. First, VirSorter2 was applied using a score of 0.5 and candidate viruses were later inspected and sorted into confidence categories using CheckV. Functional annotation with DRAMv was utilized to manually inspect contigs carrying suspicious cellular genes. *datasets_Mar_Menor_viral_contigs.fna --> Mar Menor time-series *datasets_454_viral_contigs.fna --> Mar Menor [Ghai et al. (2012], Albufera of Valencia [Ghai et al. (2012] *datasets_Med_viral_contigs.fna --> surface water from several locations of the Mediterranean Sea [(López-Pérez et al. (2017) and Karsenti et al. (2011)]. ### Other data files to reproduce figures (inputs of R scripts): *vOTU_relative_abundances_MM_time_series.csv *total_nts_in_reads_per_metagenome_MM_time_series.csv *total_nts_in_reads_per_metagenome_Medit.csv *Med-MM_vOTU_abund_table.csv *MM_vOTU_abund_table.csv *Med-MM_vOTU_abund_hosts_table.csv *Med-MM_vOTU_abund_table_BACPHLIP.csv *Med-MM_vOTU_abund_table_lysogeny_markers.csv *MM_vOTU_abund_table_lysogeny_markers.csv *Med-MM_vOTU_abund_table_con_funciones.csv *MM_vOTU_abund_table_con_funcions_wo_underscores.csv *environmental_variables.csv