Hello,
I am trying to do beta diversity analysis of Sanger sequence result (e.g., PCoA with unweighted UniFrac distance).
I have 39 sequences (16S rDNA 27f/1492r region using Sanger sequencing) from 12 bacterial isolates and phylogenetic tree generated with MEGA7. I could make a simple table with isolates and species based on the absent and presence of species. And I tried PCoA using PAST software (multivariate > oordination > Bray-Curtis). As shown below, it cannot consider any taxonomic relation. I am trying do-over, but I could only find resources to do with NGS data. Is there any way to do this on platform(s) or manually?
Hi Shan,
Thanks for your reply and sorry for the late response. I figured out and completed my analysis with mothur.
For those who might be in my situation, I have attached an example of step-by-step commands to calculate beta diversity of Sanger sequencing data.
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