Assessing microbiome engraftment extent following fecal microbiota transplant with q2-fmt
Fig 3
Schematic representation of possible engraftment assessments with q2-fmt.
A) How did the donated microbiome alter the recipient’s microbiome? This subfigure illustrates that the community-coalescence pipeline and PEDF action could be used to evaluate how the donated microbiome alters the recipient’s microbiome. With longitudinal data, as presented by our tutorial data, q2-fmt also allows for investigation of the resilience of those alterations. B) Which features are important in the engraftment? This subfigure illustrates that the detect-donor-features pipeline and PRDF action can both assess what features are important to the engraftment, although they investigate this in different ways. The detect-donor-features pipeline evaluates which features are over-represented in the donor/reference relative to the recipient (seen in orange diverging barplots), while PRDF identifies features that successfully engrafted in multiple recipients, suggesting microbes that might be more amenable to engrafting. C) Are recipient features maintained or lost after FMT intervention? This subfigure illustrates the usage of detect-donor-features and PPRF to assess recipient features that are over-represented in the recipient relative to the donor/reference (seen in blue diverging barplots), and to investigate what proportion of the recipient features persist after FMT engraftment. Presented data is from Taur et al. (2018) [2]. Interactive versions of all figures presented here are available in the project documentation at https://q2-fmt.readthedocs.io.