Fig. 1: Strain-level diversity and intrastrain-level genetic variations in individuals of the sponge C. concentrica.
From: Decoupling of strain- and intrastrain-level interactions of microbiomes in a sponge holobiont
a Phylogeny and abundance of archaeal and bacterial MAGs. Gray boxes show zero values. The maximum likelihood tree was constructed based on 40 single-copy marker proteins. The archaeal tree is rooted when the bacteria are treated as the outgroup, and the bacterial tree is rooted when the archaea are treated as the outgroup. The tree scale is shown. Branch supporting values ≥ 95% are shown as dots based on 1000 iterations of ultrafast bootstrapping of IQ-TREE. b Nucleotide diversity of the archaeal, bacterial, diatom, and sponge host MAGs. c Abundance of viral families. Gray boxes show zero values. d Nucleotide diversity of the viral families. For boxplots, data points of independent samples and the sample sizes are shown. The center lines represent median values. Box limits represent upper and lower quartiles. Whiskers represent 1.5 × interquartile range. Outliers are detected based on chi-squared scores using the R package outliers and are shown as dark red points. Source data are provided as a Source Data file.
