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… metagenomics and metatranscriptomics provide invaluable information on virus diversity and activity in microbial … resources. The main focus of these resource development efforts currently include:  in silico host prediction for uncultivated phages improved annotation and …

… and curated data to support AI applications. In an effort to lead AI-driven genomic innovation to advance … characterized.  Our metabolomics platform delivers rich metabolite profiles from diverse biological and … for genome information with analysis tools for mining and prediction The JGI works in partnership with Berkeley Lab’s …

… I think it must’ve been about 2001, maybe, and so it was before smartphones and before laptops and everything. And I … just ties in with what I just said, this was the go-to for protocols for how to do things, how to work with these … is a whole bunch of information that maybe never makes its publication. And these are little tips, you know, how to …

… this time. Let’s jump right in. — DAN: So secondary metabolites. I kind of inferred through the stories I told … so secondary metabolism is throughout nature, except maybe for animals and humans, not as much. You know, we have this … things that they secrete out into the root nodule, and help condition that nodule, and communicate with bacteria, and …

… and scientists of secondary metabolism. Welcome back for our second season of Natural Prodcast. This first … se, how do you see genome mining and looking for secondary metabolites in the genome as relevant to the JGI mission? … and how we do it here and maybe give an example of a recent publication. ALISON TAKEMURA: Awesome. Yeah, let’s dive in, …

… genomics with metabolomics fuels the discovery  of novel metabolites, genes, and proteins. It also enables … biogeochemical processes, development of high performance plants and microbes, and understanding microbiome interactions. The  insights derived are crucial for advancing the bioeconomy, environmental sustainability, …

… Research in the Eloe-Fadrosh group focuses on using genome-resolved metagenomic approaches to identify and characterize genomic information from uncultivated microbes and viruses. We develop … approaches to sift through thousands of metagenomes for signatures of viruses and novel microbial lineages, and …

… Doering and Bryce Foster and too many others to name at JGI for the last two years or so. SMC is now released and ready … Yep. JACLYN WINTER: Yeah. And Paul had started his independent lab. And so there would– DAN UDWARY: Like Paul … And I think a lot of times, too, when we even look at publications, it’s always positive data, right? No one ever …

… of the process needed to prepare and ship samples for sequencing by the JGI.  Additionally it includes … 1) Review JGI sample QC requirements and protocols Obtaining DNA and RNA of suitable quantity and quality has been the rate-limiting step for many projects at the JGI. The quality of the starting …

… genome miners use, including antiSMASH, MIBiG, and newer efforts, like BiG-scape and BiG-SLiCE, and now the BiG-FAM … gene clusters. And also correlating these gene clusters to metabolites. So knowing, OK, which metabolites are actually … clusters for which is their expression activated under that condition? And we actually used sequence similarity …

… DAN: Hey, everybody. Welcome back for another episode of Natural Prodcast. Right now I’m … And that’s something that we are trying to do in our independent lab now is use these as a resource for natural … as we were mentioning before, of more complex secondary metabolites that an organism might want to use to affect its …

… Takemura, whose voice you’ll hear in a minute – we work for the US Department of Energy Joint Genome Institute, or … Nigel Mouncey, started and leads the JGI’s Secondary Metabolites Science Program, which I was hired into, and my … about terms and so I will probably end up interchangeably using the term secondary metabolite and specialized …