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… week, we have our conversation with Professor Eric Schmidt, from the University of Utah. I’ve known Eric for a long time … 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 …

… And at the time, it was really exciting when people would sequence [DNA]. The genome was– well, that hadn’t really … polyketide synthase and then P3. We still don’t know why 20 years later. JACKIE WINTER: It’s pretty amazing, … in order to put them together to build pathways, to make novel compounds, or to find analogs. And that was Warp …

… 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 … time called Genbiotics , which was a large program to find novel antibiotics. And this particular project focused …

… in particular to study inter-organismal interactions. Novel approaches are being explored to predict microbial … resequencing, RNA sequencing and epigenomics. Expansion of sequence space:  The JGI generates reference genomes from … from isolates and single cells. This effort uncovers novel genes, protein families, and pathways, enhancing our …

… JGI Metabolomics Platform delivers rich metabolite profiles from diverse biological and environmental samples using … molecular profiles are generated for metabolites extracted from a variety of experimental samples, including organisms … as well as different types of environments (e.g. soil, lake).  A wide range of metabolites are identified using …

… the product and deliverables as well as target cycle times from sample receipt to completion of standard analysis.  Raw … sequencing products below. In addition, JGI will submit raw sequence data to  SRA at NCBI once the standard analysis is … in length, cloned into vector of choice Glycerol stock of sequence verified clone 102/NA DNA Synthesis Constructs …

… capabilities support researchers exploring how to convert sequence into functional assessments. This is done by … develops data science tools for workflow management and novel automations for DNA design, assembly and analysis … platform enables users to validate hypotheses generated from mining genomic data by designing and assembling …

… of their synthases so that we can start to use the DNA sequence to predict or just understand better the language … your interest in getting into natural products. DAN: Why are you here at SIMB? AARON PURI: Yeah. Thanks Jackie. … to identify what’s being made. In some cases it might be novel, in some cases it might be– might be a known structure …

… QC Protocol DNA Extraction 101 : tips, kits, and protocols (from PacBio) Guidance for sample collection and storage (from PacBio) Best practices for High Molecular Weight DNA extraction and quality control (from PacBio) 2) Review guidelines detailing quantity and …

… DAN: Alright, so I think we’ve covered a little bit about why they’re important. But one of the things I did want to … live in the root nodules of plants. And these guys were sequenced, and you can see that different Frankia have … often use primary metabolites as building blocks to produce novel molecules. And so we’ve got glycosides being made into …

… in the analysis and publication of the claimed genome sequences. This opportunity, provided by the Joint Genome … builds upon thousands of microbial genomes that have been sequenced by the JGI though not formally analyzed or … talent for biosciences.  Adopt-a-Genome has: ~20 faculty from institutions across the country Efforts in ongoing …

… Duncan: Yeah. I love actinomycetes. Dan Udwary: Tell us why. I mean, I know, but I think– Alison Takemura: I want to … of almost finished characterizing them. We’ve got genome sequences, which are just incredible. We’ve looked at the … currently exist. We looked at chemistry, so it’s really novel. And they’re just really exciting. And it really kind …