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… Hey, Alison Takemura: Hey, Dan. Dan Udwary: Today we’re going to talk to Kate Duncan. And Kate is– I should ask, you … studied chemistry, because she switched her degree program from geography to chemistry. So we were both enrolled as … is a whole bunch of information that maybe never makes its publication. And these are little tips, you know, how to …

… DAN UDWARY: You’re listening to the Department of Energy Joint Genome Institute’s … genome mining on more than 50,000 genomes that we derived from meta-genome sequences. As always, you’ll find … and how we do it here and maybe give an example of a recent publication. ALISON TAKEMURA: Awesome. Yeah, let’s dive in, …

… back to a new session of Natural Prodcast. I’ve got two things I wanted to tell you about in this introduction. First … our interview this week is with Professor Brian Bachmann from Vanderbilt University’s Chemistry Department, where he … you bring back these samples to lab, you’re using culture-dependent method to look at that biodiversity. So how do you …

… Microbes drive critical ecosystem functions and affect global nutrient cycling, however they do so under strong constraints exerted by viruses. Research in the viral genomics … While an ever-increasing number of phage and virus genomes have been assembled and reported from metagenomes, our understanding of the impacts of these …

… DAN: You’re listening to the US Department of Energy Joint Genome Institute’s … This time, we’ve got a great interview with Ben Shen, from the Scripps Research Institute in Jupiter Florida. This … DNA, recombinant DNA. So when I first started work, my independent work in and in 1995, I thought. I’m going to …

… of Natural Prodcast. A little bit of a bonus episode, since I’m off schedule, but this is an important one that … 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 …

… The JGI has diverse capabilities in: DNA and RNA sequencing, Sample … the product and deliverables as well as target cycle times from sample receipt to completion of standard analysis.  Raw … Q1  (median/75th percentile*) DNA Synthesis Constructs <5kb in size Single gene or multiple small genes assembled to …

… starts with a User Agreement — before any work can begin, including the submission of samples for sequencing, or … rights in technical data, project reporting to the DOE, and publication requirements. An official with authority is … and delays on the work. The transfer of a proposal from one commercial institution to a new commercial …

… All methanogenic archaea use one of three pathways for methanogenesis: hydrogen-dependent and CO2-reducing, or hydrogenotrophic (most … require the gene cluster for methane production known as Mcr. Until recently, the Mcr gene cluster was found only in … The U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility …

… Dan Udwary: You’re listening to the Department of Energy Joint Genome Institute’s … we get to present our conversation with Marnix Medema , from Wageningen University in the Netherlands. Marnix is … soils compared to the conducive soils? So which ones are enriched in the soils that are suppressive? And then also …

… Below is a brief description of the process needed to prepare and ship samples for sequencing by the JGI.  Additionally it includes instructions on accessing sample-level reports and … 1) Review JGI sample QC requirements and protocols Obtaining DNA and RNA of suitable quantity and quality has been …

… Research in the Woyke laboratory focuses on the utility of single-cell methods to access genetic material of … such effort is targeted at environmental cells that are from candidate phyla, major branches in the phylogenetic … uncultivated Bacteria and Archaea has steadily been widening since 2005. This gap is also reflected in the strongly …