Skip to main content
Fig. 3 | Genome Medicine

Fig. 3

From: Strain-resolved microbiome sequencing reveals mobile elements that drive bacterial competition on a clinical timescale

Fig. 3

Co-occurrence of multiple B. caccae strains with differing IS614 integrations. a Alignments of short reads from timepoints B, C, and D to a representative IS integration site reveal domination of the strain without the IS (“ancestral strain”) in timepoints in B and C, and domination of the strain harboring the insertion in D. Short-read alignments from B and C show many reads spanning over both left and right junctions (red), indicating global alignment to the ancestral sequence, while short-read alignments from D show many reads supporting the IS integration (blue), indicating read pairs or single reads spanning the IS. This demonstrates that the IS is present at this locus at timepoint D but is undetectable at timepoints B and C. b Estimated relative abundances of B. caccae ancestral strains and strains with an IS integration for all 18 detected IS614 integration sites. Integrations upstream of annotated antibiotic resistance genes norM, thyA2, and per1 are shaded. Major shifts in abundances amongst the strains with and without integrations upstream of norM and thyA2 can be seen between timepoints B and C and timepoints C and D, respectively. Integration sites are sorted by ancestral strain fraction in timepoint C

Back to article page