Extended Data Fig. 6: Metabolite profiles in CRC patients and nATF6IEC mice.
From: ATF6 activation alters colonic lipid metabolism causing tumour-associated microbial adaptation
a, Boxplot comparison of fatty acid intensities in tumor and tumor-adjacent tissue stratified for EOCRC (n = 99 patients) and LOCRC (n = 152 patients). Displayed are intensity differences for two fatty acids that show significant abundance in tumor tissue for EOCRC in addition to EOCRC. Boxes depict interquartile range (IQR), whiskers extend to furthest non-outlier values (no more than 1.5 x IQR), and the centre lines indicate the median value. Only fatty acids with p-values (FDR corrected) <0.05 are shown. Statistical significance was determined using a paired T-test. b, Mirror plots of MS/MS spectra for the annotation of fatty acids at 10, 20 and 40 eV. The plots compare the experimental MS/MS spectra (top, blue) with the standard compound spectra (bottom, red) for selected fatty acids. Correct annotation occurs when retention time, high-resolution mass, precursor and diagnostic fragment ions are similar between the analyte and the CRC-sample. c, Percentage of saturated fatty acids (SAFA) in NT (n = 6 mice) and T (n = 5 mice) tissue after quantification of total FA using GC-MS. Boxes depict interquartile range (IQR), whiskers extend to furthest non-outlier values (no more than 1.5 x IQR), and the centre lines indicate the median value. Statistical significance was calculated using pairwise Wilcoxon-tests and adjusted for multiple comparisons using the Benjamini-Hochberg procedure. d, Spearman’s rank correlation of percentage SAFA and tumor number, with 95% confidence intervals, after quantification of total FA using GC-MS. e, Representative images of intestinal organoids on day 1 (d1) and day 7 (d7) after culture, for the fl/fl and tg/tg genotype. Scale bars: 50 µm (n = 4 replicates, with n = 149 cysts for fl/fl d1, n = 170 cysts for tg/tg d1, n = 57 cysts for fl/fl d7 and n = 111 cysts for tg/tg d7). f, Quantification of organoid size as the sum of two dimensions in µm at d1 and d7 for the fl/fl and tg/tg genotype, with group mean denoted by a horizontal red bar (n = 4 replicates, with n = 149 cysts for fl/fl d1, n = 170 cysts for tg/tg d1, n = 57 cysts for fl/fl d7 and n = 111 cysts for tg/tg d7). Statistical significance was determined by a one-way ANOVA and Sidak’s test for multiple comparison (p < 0.0001). g, Quantification of the number of crypts per cyst at d7 for the fl/fl and the tg/tg genotype, with group mean denoted by a horizontal red bar (n = 4 replicates, with n = 149 cysts for fl/fl d1, n = 170 cysts for tg/tg d1, n = 57 cysts for fl/fl d7 and n = 111 cysts for tg/tg d7). Statistical significance was determined by a one-way ANOVA and Sidak’s test for multiple comparison. A significant p-value < 0.05 is represented as an asterisk: *p < 0.05, **p < 0.01. ***p < 0.001, ****p < 0.0001.