Extended Data Fig. 2: Microbial DNA and mtDNA damage patterns.
From: Reconstruction of ancient microbial genomes from the human gut
a, Microbial damage patterns of the palaeofaeces and the Boomerang soil samples as identified by DamageProfiler88. A medium-quality or high-quality reconstructed genome was used as reference for its respective sample. All MAGs used as reference genomes for the palaeofaeces are of known gut microbial species. The red line indicates the average frequency of C-to-T substitutions across all contigs per bin and the blue line indicates the average frequency of G-to-A substitutions across all contigs per bin. The shaded areas show the s.d. (1026.1.4 Lib4_10_bin.21, n = 488 contigs; 1043.4.1 Lib4_11_bin.16, n = 133 contigs; 3567.1.1 Lib4_12_bin.1, n = 278 contigs; AW107 Lib4_1_bin.1, n = 208 contigs; AW108 Lib4_2_bin.20, n = 337 contigs; AW110A Lib4_3_bin.88, n = 210 contigs; UT30.3 s02_bin.338, n = 74 contigs; UT43.2 Lib3_9_bin.57, n = 174 contigs; Zape1 Lib4_6_bin.125, n = 212 contigs; Zape2 Lib4_7_bin.21, n = 241 contigs; Zape3 Lib4_8_bin.68, n = 324 contigs). Contigs with fewer than 1,000 reads aligned were removed from the analysis. b, mtDNA damage patterns of the palaeofaeces as identified by mapDamage2.087. Human mtDNA (rCRS) was used as reference. The red line indicates the average frequency of C-to-T substitutions and the blue line indicates the average frequency of G-to-A substitutions. Samples AW110A and Zape2 did not have enough mtDNA reads for mtDNA damage assessment.
