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Institutional User Agreements
… with an active JGI User Agreement older than January 2024 will be required to execute a 2024 version .  The recent updates were approved by the DOE …
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Plant-Microbial Interactions Group
Resident viruses can be found in a myriad of bacterial strains, whereby they can modulate host metabolism, gene … patterns in root cross-sections. … 10.1038/s41579-020-0381-4 10.1038/s41396-020-0637-z 10.1038/s41477-024-01666-3 …
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Natural Prodcast Episode 3: The Primer, Part 3
… and listen to the first two parts ( part 1 is here and part 2 is here ) so you understand what’s happened so far in the … able to explore DNA sequencing and actually get to the DNA sequence – sequences for the genes that code for the … Something that’s you know …  ALISON: Central! DAN: That’s why they called it that! But for, maybe, people who are less …
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Honey Bee Gut Microbiota Divvy Up Dinner
Gilliamella  primarily degrades pectin. But not all strains of  Gilliamella  are capable of pectin metabolism.  Bifidobacterium strains, on the other hand, are abundant in glycoside … is a division of labor by these bacterial groups. But why the strain variability? The authors think the reason may …
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Frequently Asked Questions: Proposal Submission
… for advice!      … The deliverables can range from raw sequence data to well-annotated assembled genomes to … listing of approved proposals can be found here. All sequence data will be accessible on the JGI Data Portal.   … … the CSP and FICUS programs? … How much will it cost me to sequence or synthesize my target or obtain metabolomics …
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Secondary Metabolites Program
… of cell-free based expression platforms: Only 10-20% of BGCs are expressed under standard laboratory … computational analyses of BGC size and complexity, BGC sequence composition, metabolic similarity & compatibility, … of horizontal gene transfer. … The SMC provides complete sequence and annotation data for secondary metabolite …
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A Grass Model to Help Improve Giant Miscanthus
Miscanthus  sequence offers insights into benefits of polyploidy and perenniality. The Science A reference genome sequence and genomic toolkit for the perennial grass  … and Environmental Research under Award Number DE-SC0018420. The work conducted by the U.S. Department of Energy …
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A Grass Model to Help Improve Giant Miscanthus
Miscanthus  sequence offers insights into benefits of polyploidy and perenniality. The Science A reference genome sequence and genomic toolkit for the perennial grass … and Environmental Research under Award Number DE-SC0018420. The work conducted by the U.S. Department of Energy …
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Accelerating Metagenomics Discoveries with Deep Learning
… from whole samples rather than single cells or isolated strains, is easy to generate, but difficult to assemble and … of proteins in order to conduct more efficient protein sequence alignments. He also aims to detect structural … Deep learning algorithms can vectorize faces… … so, why not proteins?         … The U.S. Department of Energy …
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A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks
… a computational pipeline to sift and characterize RNA virus sequences.  A zoo once offered a coloring book featuring … a colored-in page of that book. Published online September 28, 2022, in Cell , a team led by researchers at Tel Aviv … to defend against RNA,” Roux noted, “although it’s unclear why this is so rarely detected.” Developing Approaches for …
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Natural Prodcast Episode 9: Roger Linington
Apple Podcasts or wherever you’re getting this and tell me why you’re listening. DAN: But, now, here’s Natural Prodcast … Yeah, that’s right. We were postdocs together in the mid 2000s, I guess. You were working for Brad Moore. I was … And that’s been followed by developments in pulse sequences and improvements in the ways in which you acquire …
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A New Actinobacterial Chapter in the Genomic Encyclopedia of Bacteria and Archaea
… these gaps of knowledge. In a study published November 11, 2022, in Cell Genomics , the team focused on Actinobacteria … Group. Many of these bacterial and archaeal genome sequences have been generated using techniques that the JGI … for which quality DNA has been provided by the team. These strains have been characterized physiologically and …
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