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Single cell methods have become a key technique in prokaryotic biology as single cell isolation provides a means by which previously uncultured microbes can be grown in a lab by eliminating competition from faster growing organisms, or the link between microorganism and genome can reveal previously undiscovered microbial functions and metabolites from this ‘unculturable microbial dark matter’. Isolation of single cells is also key to reproduce a pure culture, where all cells in the culture are derived from a single progenitor cell. Therefore, single cell technologies offer the ability to isolate a single cell from an interfering population and the study of individual cells, unbiased by population effects.