The bioBakery help forum

Quantifying uncultured bacteria


I am wondering if we can quantify uncultured bacteria using MetaPhlan.

To be specific, let’s assume I am interested in SGB1000 that is uncultured bacteria. Is it possible to make SGB1000-specific markers and quantify it from metagenomic data?

The 2019 Cell paper reported the metagenomic abundance of all SGBs, so I think it is possible but curious if it is done by Metaphlan or other computational tools.

Thank you for running the site and any comments will be appreciated!