Fig. 6

Genomic islands and biogeographic patterns of haloarchaea in hypersaline lakes from the Vestfold Hills and Rauer Islands. Reads from nine pooled metagenomes (Additional file 2: Table S11) were mapped onto the primary and secondary replicons of Hrr. lacusprofundi ACAM34, DL31 and Hht. litchfieldiae tADL. For a given reference sequence (replicon), the heat map shows centred and scaled by per location, median depth of coverage for each metagenome. Columns represent genomic bins on the reference, while rows represent depth of coverage for each geographic location. Hierarchical clustering of the correlation matrix was used to order rows and the resulting dendrogram is shown on the right. The heat-maps for the primary replicons highlight the differences in genomic islands present on primary replicons between the three species (also see coverage plots in Additional file 2: Figure S5). Features on genomic islands of the ACAM34 primary replicon are highlighted: provirus Hlac-Pro1 (star), S-layer gene (arrow). The heat map for the ACAM34 secondary replicon consists mainly of regions with either high or low coverage, highlighting high variability of secondary replicons within populations (also see the equivalent plots for the other secondary replicons in Additional file 2: Figure S6). The HCA reveals biogeographical clusters distinguishing the Rauer Island lakes from the Vestfold Hills lakes. All metagenomes were from summer except for Deep Lake 2014 winter (w). DL Deep Lake