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I worked on a team at the Broad that was looking to develop new methods for DNA sequencing of microbes. And what kept … in about a year’s time, we’d be doing a rate of around 1000 genomes per year and an order of magnitude more than … Canada. I just got back from a conference in Canada on antimicrobial resistance sponsored by the Garner foundation. And …

… read all 400 pages of her life and I feel like I have a new friend that I’m really eager to talk to. So our guest … it’s not that easy. There are still not that many plant genomes, certainly nowhere close to bacterial kinds of … that we found, indeed, that both formulations had some antimicrobial properties. But the one that was used in …

Right. Kate Duncan: And Pseudonocardia . And we’ve got new species which we’re currently in the process of almost … there have been huge advances in both. The cool thing about genomes is you can, well, if your assembly is good, you can … And sometimes, in terms of biological activities– like antimicrobial or something– sometimes a little difference is …

… for the US Department of Energy Joint Genome Institute, or JGI. JGI is a DOE Office of Science User Facility located at … right. So I did a PhD in microbiology at MIT, and I studied microbial ecology. I studied Vibrio species in the ocean, so … Secondary Metabolites Science Program here at JGI. It’s a new group formed under the director who has also got a long …

… tell us about this squid-microbe relationship. Or is it a microbial community with microbial community relationship?  … in how the community itself works together to elicit new metabolite production. And we are also interested in how … almost never Actinomycetes. And so when we look at their genomes we don’t get the same kind of information that we …

… that genome miners use, including antiSMASH, MIBiG, and newer efforts, like BiG-scape and BiG-SLiCE, and now the … and a tool for predicting natural product structures from genomes. And I was writing grants furiously to try to get … IMG kind of hooks into IMG’s data. IMG being Integrated Microbial Genomics at JGI, a large data set of bacterial …

… if we’re finding an audience outside of just us. If you’re new to natural products science, please let me know! I’m … to try and create an open source database of all known microbial natural products. So if you think about natural … accurate. And so we told people that if they would curate 1000 entries, that that would earn them authorship of the …

… … DAN UDWARY: Hey everyone and welcome back to a new session of Natural Prodcast. I’ve got two things I … you can always find at naturalprodcast.com or through the JGI website at jgi.doe.gov . There’s a lot more to talk … of thought with that. So some people are interested in cave microbial– people are interested in the more extreme …

… secondary metabolite peptides. And there are two ways that nature does this. The more well-known secondary metabolism … which might lead you to changes in bioactivity, and new uses for these peptides in medicine or materials science … can use peptides for! That’s what his collaboration with JGI is all about, and we talk about it a bit here. I have …

JGI Mission As a U.S. Department of Energy Office of Science … went on to advance basic science by sequencing scores of microbial species as well as several model organisms and … of Science. In December 2019, the JGI relocated to the newly-built Integrative Genomics Building (IGB), a home it …

… and we wish her all the best. Later on, I’ll introduce my new co-host, who I’m really excited to be working with, and … the user programs at the JGI, and I’m also the head of the microbial genome program. And I’m a scientist here. And have … for you, we sequenced thousands for you or thousands metagenomes. And I think also the quality that we provide. So …

… computational approaches to sift through thousands of metagenomes for signatures of viruses and novel microbial lineages, and reconstruct metabolic properties … Clum, A. et al. (2021)  DOE JGI metagenome workflow …