Circles represent scaffolds, scaled by the square root of their length. Only scaffolds ≥5 kbp are shown. Clusters of similarly coloured circles represent potential genome bins. These differential coverage plots were the starting points for further refinement and finishing of genome assemblies as described elsewhere23. a, binning of the scaffolds from enrichment culture ENR4 containing Ca. N. inopinata and three heterotrophic populations related to the Betaproteobacteria, Alphaproteobacteria, and Actinobacteria. b, binning of the scaffolds from enrichment culture ENR6 containing only Ca. N. inopinata and the betaproteobacterial accompanying heterotrophic organism. Enrichment ENR4, sample A, was used for comparison in differential coverage binning of culture ENR6.