Fig. 5

Bacterial abundances in stool specimens of ASCT patients. Specimens were collected prior to administration of prophylactic antibiotics and radio-chemotherapeutic conditioning (pre-ASCT) and on days 0, 7 and 14 after ASCT (d0, d7, d14). a Microbial composition given as in relative abundances; (b) read counts scaled to a uniform count of the spike-in S. ruber and (c) log₂ ratios of Enterococcus of the last time point to pre-ASCT of patients 2, 4 and 5 as derived from relative abundances (light grey) and SCML (dark grey). In (a) and (b) the reads of the three spike-in bacteria are omitted. Additionally, the reads that contributed to the genus of Enterococcus are excluded from the Firmicutes phylum and coloured separately (purple)