Dietary effect on phylogenetic composition of the chicken´s crop (A) and cecal (B) microbiome.

<p>Cladograms of both sections show a comparative evaluation of the experimental treatments effects on the structure of the chicken´s GIT microbiome. Effects are calculated through LDA Effect Size [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0164735#pone.0164735.ref053" target="_blank">53</a>], a two-module algorithm. In the first module, technical triplicates of each dietary group (<i>n</i> = 2) were subjected to non-parametric Kruskal-Wallis test to detect features with significant differential abundance with respect to the experimental treatments. In the second module, tabular abundance data formatted in the previous module are subjected to Linear Discriminant Analysis [<a href="http://www.plosone.org/article/info:doi/10.1371/journal.pone.0164735#pone.0164735.ref021" target="_blank">21</a>] to estimate the effect size of each differentially abundant feature. The only diets and bacterial families showing statistical significance (p<0.05) in the previous statistical tests are visualized in the figures. Yellow dots refer to bacterial specimens whose protein pattern and abundance did not score a statistical significant effect (p>0.05) in any of the experimental diets. Bacterial families legend: <b>(A)</b> a: <i>Lactobacillaceae</i>; b: <i>Veillonellaceae</i>; c: <i>Other families</i>; d: <i>Bradyrhizobiaceae</i>. <b>(B)</b> a: <i>Bacteroidaceae</i>; b: <i>Clostridiaceae</i>; c: <i>Eubacteriaceae</i>; d: <i>Lachnospiraceae</i>; e: <i>Ruminococcaceae</i>; f: <i>Lactobacillaceae</i>; g: <i>Other families</i>; h: <i>Helicobacteraceae</i>.