Fig. 2

Bacterial richness, diversity and composition similarity between samples according to the sequencing platform. A On the left panel, boxplots show Chao index richness values; on the right, boxplots show Shannon index diversity values at the ASV level. B PCoA performed by Bray–Curtis distances on bacterial composition of all samples at the genus taxonomic level. C Venn’s diagram representing shared and unique species between platforms. Only species with a mean abundance > 0.1% were considered. * Stands for p-value < 0.05, ** for p-value < 0.01 in Wilcoxon tests. NA refers to bacterial genera that could not be assigned at the species level