Search

The Metagenome Program uses advanced sequencing technologies to … comprising the largest public collection of plasmid sequences identified from genomes, SAGs, MAGs, metagenomes … effort aimed to develop standards, processes, and infrastructure for an integrated microbiome data ecosystem. … …

So he could see really into this– so he could look into the structure, really seeing that. And I’m always just looking … of cases, we still have to go through publications to get proteins, and their functions, and all that stuff. And … that easily can identify secondary metabolite pathways in metagenomes, which is still hard to do. We are mining a lot …

When submitting sequences to the JGI DNA Synthesis program, please include the following items: … Sequence files …

… … DAN: Welcome back for episode 9 of Natural Prodcast. This week, … So, I’ve always known Roger as an expert in natural product structure elucidation, but more recently, he’s been leading … And that’s been followed by developments in pulse sequences and improvements in the ways in which you acquire …

Our research is focused on the discovery and characterization of novel bacterial, … to find novel functions that may impact microbiome structure and biogeochemical cycles. Research Team    … A …

… a class of natural product with a really cool chemical structure. We try to explain it, but it’s chemistry, so I … And in DNA is all that the same molecule, just different sequences BEN: The other thing I think about JGI is, really, … So, we were essentially using brute force to isolate the proteins. The proteins are the biological version of the …

… into the lab, it was already basically there. We were just seeking out the last few pieces and trying to understand the … a community effort of putting together the natural product structures that are known. I forget how many structures are … if an order is uncultured (blue; represented only by metagenome-assembled genomes or MAGs) or cultured (gray; …

… in: DNA and RNA sequencing, Sample and library preparation, DNA synthesis and pathway engineering Mass spectrometry … metabolites and unidentified features in spectra. 167/214 Metagenome Metatranscriptome Environmental transcript … sequence Assembly, annotation ( IMG/M ), mapping 273/273 Metagenome Cell Enrichments Obtained by physical separation …

With collaborative user projects, the JGI’s Plant Program delves … including deep learning algorithms for gene annotation and protein folding models, to improve the accuracy of … It is now available for both eukaryotic and microbial metagenome assemblies. It is also available as an app in …

… on this: Most of the machinery in any living organism are proteins, which are made up of chains of amino acids. … the end, we took an approach that was kind of a simplified metagenome sequencing approach to pick this system apart.  … of fantastic science, mainly in marine natural products structure elucidation, and he trained some of the greats in …

… usually serve as dimers, and then they will bind to certain sequences of DNA. And when they bind to those certain … bind similar ligands. And so one of-- DAN: OK. The similar proteins are going to bind similar molecules. Yeah, OK. … enzymes show a lot of similarity to them in the primary structure. However, the reaction that they perform is …

… us about forthcoming efforts in paired-omics data sets and seeking to interpret function from BGCs. It’s a long, wide … cluster database, and a tool for predicting natural product structures from genomes. And I was writing grants furiously … primer episode, we talked about genome mining through some metagenome associated genomes. And yes, antiSMASH is …