Precise tracking of bacterial strains replacement in Crohn’s disease patients after fecal microbiota transplantation from healthy household members

Objectives:

• To characterize the strain-level resolution;
• To track the transmission of strains after FMT using the tool¹ for analysis of co-occurring genome populations from metagenomes that allows highly accurate genome comparisons to detect engrafted microbial strains in recipient and
• To subsequently to pinpoint a therapeutically defined cocktail of gut microbial components as a safer and scalable alternative to FMT.

Outcome:
Responding patients will be colonized with the strains and substrains from colonizer healthy subjects.