Extended Data Fig. 7: F18-mix suppresses Klebsiella through nutrient competition, rather than by affecting quorum sensing, biofilm formation, stress response, or nitrate respiration.
From: Commensal consortia decolonize Enterobacteriaceae via ecological control
a, GF B6 mice were colonized with Kp-2H7 (wild-type or the indicated mutant strain), followed by oral administration of F18-mix. Faecal Kp-2H7 CFUs were counted. Data are presented as median ± IQR. The day 28 data were compared using the Mann-Whitney U test (two-sided) or the Kruskal-Wallis test with the Benjamini-Hochberg correction for multiple comparisons. b, c, GF mice were inoculated with either Kp-2H7 alone (n = 3) or Kp-2H7+F18-mix (n = 4). Two days after F18-mix administration, faecal samples were collected and subjected to bacterial RNA extraction and sequencing. KEGG pathway enrichment analysis was performed on Kp-2H7 genes with significantly different expression (q<0.001) between the groups. The number of genes within each pathway (consisting of >10 genes) that were up- or down-regulated in the Kp-2H7+F18-mix group compared to the Kp-2H7 only group are shown in (b). The expression levels of genes involved in carbohydrate metabolism, measured in transcripts per million (TPM), are displayed in (c). d, Expression of gluconate metabolism genes of Kp-2H7 in the faeces of mice colonized with Kp-2H7 only, Kp-2H7+F13-mix, or Kp-2H7+F18-mix was examined by qPCR in two technical replicates. Each dot represents data from an individual mouse. Data are presented as median ± IQR (c, d) and were analysed using the Kruskal-Wallis test with the Benjamini-Hochberg correction for multiple comparisons (d).
