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Not one of our normal interviews, but instead it’s two interviews in one. My new co-host, Jackie Winter, has … is like, what’s your origin story in natural products? Why are you doing this? JACLYN WINTER: I’ll kind of go back … have an E. coli strain that we’ve been working on that we sequenced the genome. And it has 17 resistant genes on a …

… be proposing a larger project that requires the work of two or more DOE user science facilities. That’s kind of out … at JGI start with sequencing, but where else did those sequences go? Like, what are the other scientific tools we … that describe the work. In general. Scientific merit and why it’s important. The DOE mission is one of these …

… so they’re secondary metabolite peptides. And there are two ways that nature does this. The more well-known … you maybe explain what’s going on with their biology and why they’re so important to natural products? ERIC:  Sure. … turns a peptide, for example, from a disordered sequence into an antibiotic that kills bacteria through a …

… use. … For DNA synthesis projects: data are subject to a  two-year embargo starting at construct or strain delivery.  Detailed sequence information for constructs are made publicly … until publication by PIs or at a set time (most recently, two years after release to JGI portals). JGI will no longer …

The  1000 Fungal Genomes Project is a five-year project to sequence 1000 fungal genomes from across the Fungal Tree of … of fungi. Mycocosm enables users to navigate across sequenced fungal genomes, and to conduct comparative and … resource hub that provides access to publicly available sequenced algal genomes and genome annotations generated by …

… … For sequencing projects, once work is under way, raw sequence data is released to NCBI’s Sequence Read Archive on a regular basis, in accordance with …

… the foundation for a large-scale CSP proposal submission. Sequence requests should not exceed 3 Tb in total. Proposals … any time as brief white papers. Applicants may submit up to two proposals per year (but may be listed as co-PI on an …

… then genomics happened. Dan: Yeah, I did my first genome sequence with you. Brad: That’s right,  Dan: JGI did it in … Sequencing Program, and they worked with us to sequence two genomes. Those were of Salinospora tropica and arenicola … working with you, Dan, on this one, and we said, “Well, why don’t we have you know, the bioinformaticians go against …

… out, you probably want to go back and listen to the first two parts ( part 1 is here and part 2 is here ) so you … able to explore DNA sequencing and actually get to the DNA sequence – sequences for the genes that code for the … Something that’s you know …  ALISON: Central! DAN: That’s why they called it that! But for, maybe, people who are less …

… about the basics of genome mining, which is using DNA sequence to identify and interpret biosynthetic, secondary … biological perspective, like what was this bacterium, and why did your group want to study it? Marnix Medema: You mean … better to do it together, to join forces instead of to make two competing tools. If we had known about your tool, Dan, …

… intriguing. The squid – the Hawaiian bobtail squid has two organs that solely house– whose sole function is to … does some really exciting work there. And I thought, well, why don’t we try to go to Alaska and see what we can find … with any kind of gene cluster identification, doing it with sequence alone you have to have some kind of a template to …

… that got me into natural products to be truthful. So, well, two things. My PhD work was with a fungal pathogen called … out introns and dealing with, you know, weirdness in the sequence. You know, some clusters are not clustered…   … it so easily with fungi. So…   NANCY: Yeah, I don’t know why. For example, with that – actually there’s a good talk …