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Community Science Program
The Community Science Program (CSP) provides the scientific … through independent peer review, and evaluated based on their DOE relevance.  For accepted proposals, sequencing, … … Prospective users with specific questions regarding their proposed research are encouraged to schedule time with …
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Sequencing Submission Requirements for DNA Synthesis
When submitting sequences to the JGI DNA Synthesis program, please include the following items: … Sequence files for all constructs should be emailed to  … several easy-to-use open source tools for converting DNA sequence files into well-formed GenBank files. ApE is an …
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Sequencing Technologies
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Natural Prodcast Episode 11: Marnix Medema
… 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 … of a plant, so the bacteria living on and inside the roots are protecting the plants against pathogens. So …
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Plant-Microbial Interactions Group
… function of these phage genes is the modulation of their bacterial host to colonize plant roots, as with Arabidopsis thaliana. Using a coupled … to capture both plant and fungal expression patterns in root cross-sections. … 10.1038/s41579-020-0381-4 …
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Natural Prodcast Episode 22: Alison Narayan
… trained in synthetic chemistry as were you and then made their way into the field of natural products in some way, … enzymes are, right? ALISON NARAYAN: Yes, and so that’s why I don’t like that sentence. I think that sometimes, we … association that might help? Like, if you have an unknown sequence or new flavin monooxygenases, you could say, oh …
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FICUS-NERSC/KBASE
… of the Joint Genome Institute is to serve the scientific community as a user facility pioneering functional genomics … … 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 …
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Natural Prodcast Episode 18: A CSP Primer
… at JGI start with sequencing, but where else did those sequences go? Like, what are the other scientific tools we … It helps the collaborator to inoperate the data and pursue their science more efficiently. DAN UDWARY: Yeah. I’m just … that describe the work. In general. Scientific merit and why it’s important. The DOE mission is one of these …
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Natural Prodcast Episode 2: The Primer, Part 2
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 … Frankia . And so the Frankia are bacteria that live in the root nodules of plants. And these guys were sequenced, and you can see that different Frankia have …
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Products
… 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 … separation of a biologically relevant unit from a microbial community, such as a microcolony, microbial aggregate, or a …
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Natural Prodcast Episode 13: Francisco Barona Goméz
… least, talk to us, first about my definitions of things and why I am wrong, and also talk about some of the great … natural product biosynthesis overall have had read some of their papers and one seminal book, which talks about this … to approach it is more related to what JGI does, which is sequence genomes. And we just published last year in the …
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Natural Prodcast Episode 12: Nadine Ziemert
… there are any kind of dated references to the news, that’s why. But it was a really fun conversation. And I think … around us. And we actually don’t know a lot about them by their mate, what their role in nature, how have they been … it would work, but we actually found fosmids. And we sequenced the whole fosmid at the time with Sanger …
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