I'm glad there's finally some evidence to support this theory, but it's not exactly a new line of thinking. There's already been literature published based around the correlation between gut flora and obesity, and one book that stands out and has actionable tips is '
The Diet Cure' [1]. I admittedly haven't got around to implementing it yet myself, but the concepts make sense. Either way, it was originally written in the late 90's, so I wouldn't expect it to be thoroughly modern in its reasoning and nomenclature with regards to these microbiome developments, but it's something...
[1] http://amzn.com/0143120859