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… getting them out to you all. But for now, here is episode 10 of Natural Prodcast, the primer on genome mining. Hey, … Catalog of Earth’s Microbiomes. Nature  Biotechnology . 2020 Nov 9. doi: 10.1038/s41587-020-0718-6) DAN UDWARY: Yeah, I think that … Microbiomes” paper is here . Read the associated JGI news release here . Software we discussed, used for genome …

… so there are– I hesitate to make a guess but maybe 50 to 100 different strains and they are in individual tubules.  … in the field, these glacial bacteria grow slow and it’s not 100% clear that we know what their biological activities … call this the needle in the Haystack. Because if we have 10,000 features which one do we look at because we are a …

… learning to identify new divergent lineages and expand the Tree of Life. We then investigate the coding potential to … list available at Google Scholar. Dutkiewicz, Z. et al (2025) “ Proposal of Patescibacterium danicum gen. nov., sp. … Communications , Volume 5 Issue 1. Wittmers, F. et al (2024) “ Non-photosynthetic lineages sibling to Cyanobacteria …

… from candidate phyla, major branches in the phylogenetic tree without cultivated representatives. The “Great … valuable reference genomes in under-populated areas of the tree of life, as reference genomes are critical to serve as … and sequencing of rumen microbiome members from the Hungate1000 Collection.” Nat Biotechnol 36(4): 359-367 (2018). …

… Europe. So if there are any kind of dated references to the news, that’s why. But it was a really fun conversation. And … in the early 2000s? Late 2000s? NADINE ZIEMERT: No, yeah, 2010. ALISON TAKEMURA: 2010, OK. You’re a young faculty. … all these very, very related genomes, right – on their 16S level, they’re almost identical! But seeing all these …

… So they’re in the picomolar range. ALISON: Picomole… is [10 to the] minus twelve, right? BEN: Yeah, yeah. Well, we … So I wanted to ask you also about – because you were in the news recently – TSRI has acquired the Pfizer strain … we have here – all of them were collected before 2016, before that true enforcement of the Nagoya protocol. And …

… heard of the Salem Witch Trials back in the what? 15th, 16th century.  ALISON: Yeah, I lived in Massachusetts for a … But where taxol comes from is, from the bark of the yew tree, is where it was originally discovered. And so that … right? It turns out, it takes the bark from three yew trees in order to make enough or to isolate enough taxol to …

… hard to believe in retrospect. BILL FENICAL: Well, in 2021, absolutely hard to believe. But when you go way back, … convince those people of that fact, however, a long time, 10 years! ALISON TAKEMURA: Wow. It’s all happened so fast. I … course using modern phylogenetic tools measuring genes, the 16S gene, and comparing it with everything that’s known. So …

… we talked about sponges, go pull a sponge or extract some tree bark. And so you’re just taking something, you’re … the number was. But I want to say it was like less than 10. Since, you know, a recent decade.  DAN: I’m sure that’s … to check her stat and she was absolutely correct. Since 2010 there have been eight new antibiotics added to the …

… And I set that up. And we finally got that to work 10 years later. But in the meantime there, we had people … a teaspoon of soil from outside, you maybe have to do a 10,000-fold dilution to plate that out. The deeper you go in … example of this where an organism, you can beat it to death by culturing it. You just never find the compound. And …

… which took place a few weeks ago, in January of 2020. So, you might hear us referencing a conference, and … first started out the natural product community was almost 100% bacterial. Only people working in mycotoxins worked … do you check if they’re there? Like we always talk about 16S for bacteria, but we don’t talk about it so easily with …

… And you have these different types of particulate like 2.5, 10 PPMs and just the size of the particle and how far they … there a way to do that? DAN UDWARY: Well, so there’s good news and bad news on that. So one of the things that we’re trying to do … Metabolites Collaboratory SMC Workshop Materials from the 2023 JGI Annual Meeting Using the SMC Website API Endpoints …