Extensive personalized human gut strain collection
      with phenotypic data by CAMII

            Contains 16584 isolates spanning >400 taxa with a rich set of linked
            morphologic, phenotypic, taxonomic and WGS data

           Search in biobank

Culturomics by Automated Microbiome
Imaging and Isolation (CAMII) system

CAMII enables large-scale end-to-end generation of clonal
strains from diverse input microbiome samples.

Italian Trulli

Maximum capacity: 2,000 colonies per hour and 12,000 isolates per run


Standardized colony morphological data
gathering and analyzing

Morphological features of colonies significantly improved
strain isolation and cultivation

Italian Trulli

Scripts for analyzing colony images can be accessed at GitHub


Summary of biobanks

Summarize isolates information across different individuals in CAMII biobanks.

View details » Download data»

Search by Isolate

Check the information of isolates by keywords.

View details »

Search by Taxonomy

Search isolates by specific taxa or best match to provided 16S-V4 sequence

View details »

Search by Morphology

Search isolates by specific morphological features

View details »


Summary of biobanks

Summarize isolates information across different individuals in CAMII biobanks

Personalized gut isolates generated by CAMII

About isolates request

There are several ways to request specific isolates or collections generated by CAMII


Search by Isolate

Check the information of all isolates by keywords

Information of all isolates

Isolate ID Destination plate Destination well Culturing media Source plate Source index Source sample Isolation platform Isolation strategy Isolation date Taxonomy by 16SV4 Whole genome sequencing
Kindom Phylum Class Order Family Genus Species Purity (%) Hetergenity (%) Assembly size (bp) # of contigs Largest contig (bp) N50 (bp) GC content (%) # of PE reads 16SV4 sequence
Isolate ID Destination plate Destination well Culturing media Source plate Source index Source sample Isolation platform Isolation strategy Isolation date Taxonomy by 16SV4 Whole genome sequencing
Kindom Phylum Class Order Family Genus Species Purity (%) Hetergenity (%) Assembly size (bp) # of contigs Largest contig (bp) N50 (bp) GC content (%) # of PE reads 16SV4 sequence

Search by Taxonomy

Search isolates by specific taxa or find isolates that best match 16S sequence your provide

Isolate ID Destination plate Destination well Culturing media Source plate Source index Source sample Isolation platform Isolation strategy Isolation date Taxonomy by 16SV4 Whole genome sequencing
Kindom Phylum Class Order Family Genus Species Purity (%) Hetergenity (%) Assembly size (bp) # of contigs Largest contig (bp) N50 (bp) GC content (%) # of PE reads 16SV4 sequence
Matched sequence Percent identity Isolate ID Destination plate Destination well Culturing media Source plate Source index Source sample Isolation platform Isolation strategy Isolation date Taxonomy by 16SV4 Whole genome sequencing
Kindom Phylum Class Order Family Genus Species Purity (%) Hetergenity (%) Assembly size (bp) # of contigs Largest contig (bp) N50 (bp) GC content (%) # of PE reads 16SV4 sequence

Search by Morphology

Search isolates by specific morphological features

Isolate ID Destination plate Destination well Culturing media Source plate Source index Source sample Isolation platform Isolation strategy Isolation date Taxonomy by 16SV4 Whole genome sequencing
Kindom Phylum Class Order Family Genus Species Purity (%) Hetergenity (%) Assembly size (bp) # of contigs Largest contig (bp) N50 (bp) GC content (%) # of PE reads 16SV4 sequence

Download CAMII datasets

16S taxonomy, WGS and morphological features

Datasets of all isolates:

Datasets of all colonies visually captured: