Welcome to the DFI Commensal Isolate Library website!
Our biobank contains 1400+ sequenced isolates from healthy donors
You can browse our collection by searching taxonomy, BLASTing proteins of interest, or BLASTing 16S sequences to find closely related isolates
Individual bacterial isolates reported in DFI Symbiotic Strain Bank are available to the research community.
If you want to request strains:
For requests of ten isolates or fewer, please complete DFI Strain Request
Form1
and
Form2
. Staff members will contact you to confirm the shipping address, set up an MTA and coordinate delivery.
Requests for more than ten isolates are considered potential collaborative projects. Please direct these requests to
Eric G. Pamer
or
Laurie E. Comstock
for discussion.
v4.92
All available isolates in biobank:
You can filter or search for isolate of interest by taxonomy.
Genome: clean, NCBI currated asseblies/contigs
Info: a downloadable PDF file with detailed information about the isolate
All available circularized isolates in biobank:
You can filter or search for isolate of interest by taxonomy.
nContigs: # of final contigs
nCircular: # of circular contigs
totalLength: sum of all contigs in base pair
Phylogenetic tree made from 71 single-copy gene in a strain.(Anvio)
You can zoom in by selecting an area over the tree.
UMAP of all biobank isolates
using presense/absense of annotated products + hypothetical protein clusters
n_neighbors = 550
257078 total products
You are about to compare your own sequences to all Biobank proteins.
You can filter or search for isolate of interest by taxonomy, msk_id, or biosample ID.
If you have used isolates in this project, please cite:
Comprehensive analyses of a large human gut Bacteroidales culture collection reveal species and strain level diversity and evolution
Zhenrun J. Zhang, Cody G. Cole, Michael J. Coyne, Huaiying Lin, Nicholas Dylla, Rita C. Smith, Emily Waligurski, Ramanujam Ramaswamy, Che Woodson, Victoria Burgo, Jessica C. Little, David Moran, Amber Rose, Mary McMillin, Emma McSpadden, Anitha Sundararajan, Ashley M. Sidebottom, Eric G. Pamer, Laurie E. Comstock
bioRxiv 2024.03.08.584156;,doi:
https://doi.org/10.1101/2024.03.08.584156