Figure legends:
Figure 1 . Simpson and Shannon alpha diversity of different
cow’s milk samples.
Figure 2. Principle coordinates analysis (PCoA) based on
Bray-Curtis dissimilarity of different cow’s milk samples.
Figure 3. Composite bar graph of lactic acid producing bacteria
and pathogens with potential relevance to human health.
Online supporting information :
Figure S1. Bar plot of relative abundance of bacteria in the
different cow’s milk samples at phylum level, excluding low abundance
taxa.
Figure S2. Bar plot of relative abundance of organisms in the
different cow’s milk samples at genus level, excluding low abundance
taxa.
Figure S3 . Log2-transformed counts of taxa significantly
different in terms of relative abundance or frequency between fermented
versus unfermented samples. Taxa are merged at the lowest available
taxonomic level and samples were clustered using complete linkage
clustering of the Bray-Curtis dissimilarity matrix. Taxa were deemed
significantly different (in terms of abundance and/or absence/presence)
between fermented versus unfermented samples if they exhibited a fold
change (beta coefficient) of ≥ 1.5 and had an adjusted p-value of ≤ 0.05
and if at least one of the two groups compared had ≥ 60% of samples
with the given ASV/taxon, or, if the result of Fisher’s exact test was
significant (after multiple-testing correction by the Benjamini-Hochberg
method), using the R package metagenomeSeq.