The One Codex Blog

The One Codex and ATCC teams have been hard at work improving the ATCC Genome Portal. Since launching 6 months ago, we’ve more than doubled the number of genomes on the portal (adding more than 300 new genomes on top of our original 250) and created new features to help you navigate our collection of high-quality reference genomes. In this post, we’ll show you our new Gold genomes, help you browse the collection by tag, and show you how to access more granular contig details for each of our genomes.

In this post we take a look at a new paper from Eli Moss, Dylan Maghini, and Ami Bhatt that describes a new approach for assembling complete genomes using Oxford Nanopore’s MinION sequencer. Read on to find out more!

The new ATCC Genome Portal offers high-quality, authenticated genomes and annotations for many of the top items in ATCC’s catalog. Today, the portal includes over 365 closed, fully circularized bacterial genomes from ATCC’s collection. That’s 1 genome sequenced and closed per day in 2019! And we’re continuing to generate more data every month.

The One Codex Database is the most complete, all-in-one microbial genomics database available, and is now more comprehensive than ever! We’re very excited to announce that we’ve just released the latest update to our One Codex Database for shotgun metagenomics, now containing over 40% more curated genomes with 114,505 in total. What does this mean for you? Your shotgun microbiome analyses are now more accurate than ever, and one analysis provides a complete picture of all of the bacteria, viruses, and fungi in your samples.

We’ve made major updates to our library for fetching, analyzing, and visualizing your One Codex data in a Jupyter notebook. In this post we walk you through a handful of real-world examples of what you can do with these powerful new tools.