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Genomic Encyclopedia of Bacterial and Archaeal Type Strains, Phase III: the genomes of soil and plant-associated and newly described type strains
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In depth metagenomic analysis in contrasting oil wells reveals syntrophic bacterial and archaeal associations for oil biodegradation in petroleum reservoirs
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IMG-ABC: new features for bacterial secondary metabolism analysis and targeted biosynthetic gene cluster discovery in thousands of microbial genomes
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First Monoploid Reference Sequence of Sugarcane
… crop that very efficiently converts solar energy into plant biomass, which can then be crushed to extract the … To create this reference sequence, the team relied on bacterial artificial chromosomes (BACs), vectors that can … as a reference. The final sugarcane sequence generated is 382 Mb; 25,316 protein-coding gene models were predicted with …
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A Better Way to Find RNA Virus Needles in the Proverbial Database Haystacks
… a colored-in page of that book. Published online September 28, 2022, in Cell , a team led by researchers at Tel Aviv … together, learned from JGI’s Nikos Kyrpides that his Microbiome Data Science group was also working on RNA virus … datasets from the JGI’s Integrated Microbial Genomes & Microbiomes (IMG/M) system. “We then looked into many more …
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Digging into Microbial Ecosystems Deep Underground
… -Mike Wilkins, Colorado State University GI users and microbiome researchers Mike Wilkins and his graduate student … published paper with first author Amundson in the journal Microbiome . The work builds off a proposal approved through … National Laboratory. Letters of Intent are due March 16, 2022 to freely access resources at multiple DOE user …
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Susannah Tringe Named 2020 DOE Lawrence Award Recipient
… , one of eight scientists and engineers who received the 2020 Ernest Orlando Lawrence Award , one of DOE’s highest … was recognized for “advances in sequence-based studies of microbial assemblies, revealing the roles of … communities in carbon cycling, in interactions with plants, and as drivers of methane production, nutrient …
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Designer DNA: JGI Helps Users Blaze New Biosynthetic Pathways
… design and synthesis superpower. Through a series of case studies, JGI scientific users share how they’ve worked with … Terpenes are made via a tangled network of enzymes in plants. To better pinpoint the biosynthetic routes that … more than 10 papers, including two Nature Plants publications, in five years, have come out of the …
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JGI@25: A Single Cell, Myriad Microbial Discoveries
… In honor of the JGI's 25th anniversary in 2022, we have revisited a number of … first closed and finished genome derived from an uncultured bacterial single cell – a symbiont of the green … waters. The top image on the left shows how, from a single bacterial cell (seen here in a glass capillary), researchers …
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Jane Grimwood Named HudsonAlpha Genomics Chair
… Grimwood heads the Library Construction group for the JGI Plant Program . Her collaborations with the JGI began soon … Cited Researchers list assembly by Clarivate Analytics. In 2020, she was named a Yellowhammer Woman of Impact.     … large-scale multi-institutional JGI projects and resulting publications that Grimwood contributed to include: A 2021 …
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Benjamin Cole
… Dr. Cole is interested in studying how plants interact with their environment. Prior to joining the Joint Genome Institute, his focus was primarily on how plants interpret different light cues by altering their growth program, and on how plants coordinate their gene expression with light and …
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Characterizing Communities: JGI Announces Latest CSP Portfolio
… Institute (JGI), a DOE Office of Science user facility, 24 large-scale proposals have been accepted from 70 full … Many fungi have beneficial symbiotic relationships with plants and bacteria; in many instances, fungal physiology is … The proposal targets the CSP focus area in plant microbiomes, as well as those in inter-organismal …
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