Search

… 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 … IMG kind of hooks into IMG’s data. IMG being Integrated Microbial Genomics at JGI, a large data set of bacterial …

… tell us about this squid-microbe relationship. Or is it a microbial community with microbial community relationship?  … 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 …

… 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 …

… there are any kind of dated references to the news, that’s why. But it was a really fun conversation. And I think … us. And we actually don’t know a lot about them by their mate, what their role in nature, how have they been selected … it would work, but we actually found fosmids. And we sequenced the whole fosmid at the time with Sanger …

… the paradigm of how to discover natural products. So, why I’m very excited to be working with Dan, you, with the … develop enabling technologies. ie how to translate the ATGC sequence into discrete small molecules. So, Dan, I’m very … genomic revolution, to me, as a natural part chemist for microbial natural product, is that I love microbial natural …

… 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 … And sometimes, in terms of biological activities– like antimicrobial or something– sometimes a little difference is …

… bioactivity, and new uses for these peptides in medicine or materials science or really anything you can use peptides … 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 …

… interactions, the exploration of the functional dark matter as well as the development of novel methods to enable … A global metagenomic map of urban microbiomes and antimicrobial resistance. Cell . 184(13):3376-3393 Almeida A, et … al. (2017) Protein structure determination using metagenome sequence data. Science   355(6322):294-298 Paez-Espino D. et …

… will be required to assume responsibility for all material transfers. *University of California Campus : An … in addition to an active 2024 User Agreement or JGI BDLUA. MATERIAL TRANSFER AGREEMENT (MTA):  Before work can begin, … submitting researcher, and by LBNL. The Uniform Biological Material Transfer Agreement (UBMTA) and UBMTA Implementing …

… on the utility of single-cell methods to access genetic material of uncultivated taxa of interest. One such effort … in 1985, which highlights our skewed understanding of microbial metabolism towards a minority of cultivated … is also reflected in the strongly biased representation of sequenced genomes in the public domain, the bulk of which …

… at genomes and seeing where the really hard things to sequence were, and wondering what those … what those were … functional was these secondary metabolite pathways. So why was that? What is it about secondary metabolite pathways … Canada. I just got back from a conference in Canada on antimicrobial resistance sponsored by the Garner foundation. And …

… 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 … are familiar with JGI’s IMG data portal , the Integrated Microbial Genomics, there was a subsection of that called …