2.6 Bacterial community function
Phylogenetic investigation of communities by reconstructing unobserved
statesĀ (PICRUSt) has been used extensively to infer approximate
microbial community functions based on amplicon sequences, although it
has some limitations (Douglas et al., 2020). The sequences corresponding
to each OTU were compared in the Greengenes database
(http://greengenes.lbl.gov) to obtain KEGG ortholog (KO) data (DeSantis
et al., 2006). Subsequently, community function richness and diversity
were calculated based on the KO prediction results, and the total number
of KO genes was divided by the number of OTUs to obtain the average
number of KO genes in an OTU.