Culture-independent approaches for studying viruses from hypersaline environments

Hypersaline close-to-saturation environments harbor an extremely high concentration of virus-like particles, but the number of haloviruses isolated so far is still very low. Haloviruses can be directly studied from natural samples by using different culture-independent techniques that include transmission electron microscopy, pulsed-field gel electrophoresis, and different metagenomic approaches. Here, we review the findings of these studies, with a main focus on the metagenomic approaches. The analysis of bulk viral nucleic acids directly retrieved from the environment allows estimations of viral diversity, activity, and dynamics and tentative host assignment. Results point to a diverse and active viral community in constant interplay with its hosts and to a “hypersalineness” quality common to viral assemblages present in hypersaline environments that are thousands of kilometers away from each other.Our work on halophilic viral assemblages has been funded by the projects CGL2006-12714-CO2-01, CGL2006-12714-CO2-02, CGL2009-12651-C02-01, and CGL2009-12651-C02-02 from the Spanish Ministry of Science and Innovation that include funds from the European Community (FEDER funding) and by the project ACOMP/2009/155 from the Generalitat Valenciana