Bioinformatic tools
Protologger
Protologger
Protologger
An automated pipeline designed to help researchers gather the taxonomic, functional and ecological data needed to describe a novel bacterial species: http://protologger.de/
InvestiGUT
Protologger
Protologger
A searchable collection of human gut microbiota proteins, facilitating easy study of proteins ecology: https://github.com/Matt-Schmitz/InvestiGut
Spherical
Protologger
Spherical
An iterative approach to metagenomic assembly aimed at reducing the computational requirements for large datasets: https://github.com/thh32/Spherical
Host-specific isolate collections
Human
The Human intestinal Bacterial Collection (HiBC)
- 340 strains
- 198 species
- https://doi.org/10.1038/s41467-025-59229-9
Pig
The Pig intestinal Bacterial Collection (PiBAC)
- 117 strains
- 110 species
- https://doi.org/10.1038/s41467-020-19929-w
Mouse
Mouse
The second version of the Mouse intestinal Bacterial Collection (MiBC2)
- 212 strains
- 141 species
- https://doi.org/10.1016/j.chom.2022.09.011