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In particular, Drosophila melanogaster, the fruit fly, is one of the most powerful models for animal genetics and has a simple microbiome composed of 5 to 20 microbial species that can be reconstituted in the lab by brief treatment of eggs with bleach followed by association with defined bacterial species [4, 5]. [...]the fly model facilitates exploration of both host and bacterial genetics. Bacterial presence impacts various fly phenotypes including development [12], behavior [13, 14], life span [15], and disease resistance [16]. Since ingestion of microorganisms contributes to a substantial portion of the macronutrient and micronutrient intake of flies, it is unclear to what extent the effects of the microbiome are due to resident gut microbes versus microbes serving as agricultural goods for consumption from the food surface [17–20]. A feeding or foraging preference for specific bacteria was found independently by several labs [13, 30, 31]. [...]fly-associated bacteria can colonize the host, benefit the host, and benefit from the host, and the host seeks them out. [...]similar strains with similar abundance in the gut can have very different nutritional impacts on the host.