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An Age of CRAGE: Advances in Rapidly Engineering Non-model Bacteria
… A group led by JGI scientists have made strides in improving and applying a method that allows researchers to quickly modify diverse bacterial … is central to our ability to offer host-engineering for our users,” says JGI Director Nigel Mouncey. Using CRAGE, JGI …
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Mining Public Databases Yields Largest Map of Fungal Mitochondrial Genomes to Date
… assembled. The team identified 15 core genes shared across all fungi, and found that some of these genes have moved … discovered more than 6,000 mitochondrial sequences previously unrecognized within existing public databases and … that carry them were strikingly different in both size and organization: Mitochondrial genome size and structure varied …
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The ectomycorrhizal fungus Paxillus involutus converts organic matter in plant litter using a trimmed brown‐rot mechanism involving Fenton chemistry
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High-Quality Draft Genome Sequence of Desulfovibrio carbinoliphilus FW-101-2B, an Organic Acid-Oxidizing Sulfate-Reducing Bacterium Isolated from Uranium(VI)-Contaminated Groundwater
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Thermus sediminis sp. nov., a thiosulfate-oxidizing and arsenate-reducing organism isolated from Little Hot Creek in the Long Valley Caldera, California
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Kjiersten Fagnan
… Kjiersten Fagnan began working with JGI in 2012 as a NERSC bioinformatics computing consultant, after completing a petascale … Research Division. As a postdoc, her research focused on stable and accurate computational methods for … is the JGI's Chief Informatics Officer. Click to learn more about how the JGI supports the entire data life cycle …
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A Revamped Amplification Method that Enables Nearly Complete Single-Cell Genomes
… Studying the  genomes of microorganisms is incredibly useful for understanding the microbiome of the earth, but … access the genomes of uncultured  microbes , scientists usually employ two different methods; shotgun metagenomic … The U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at …
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JGI-Enabled Research Demonstrates the Existence of New Methane-Makers
… New studies show methanogenesis is not exclusively for Euryarchaeota. Atmospheric levels of methane, a … produced in environments without oxygen through a process called methanogenesis. Methanogenic microorganisms therefore … Alternate Metabolic Pathways And there is something special about these new lineages recently tied to methanogenesis. …
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Chloroflexi CL500-11 Populations That Predominate Deep-Lake Hypolimnion Bacterioplankton Rely on Nitrogen-Rich Dissolved Organic Matter Metabolism and C1 Compound Oxidation
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Leo Baumgart
… doctoral research in synthetic biology and microfluidics at the University of California, San Diego. As the … binding sites and which has been applied to a wide range of JGI user science projects spanning bacteria, fungi, and plants. … of California, San Diego Postdoctoral training in bioinformatics, Lawrence Berkeley National Lab …
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Giant Bacteria Found in Guadeloupe Mangroves Challenge Traditional Concepts
… be single bacterial cells, visible to the naked eye. The unusual size is notable because bacteria aren’t usually visible without the assistance of microscope. “It’s … explained. “This kind of discovery opens new questions about bacterial morphotypes that have never been studied …
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Computationally Classifying Fungal Lifestyles
… and feedstocks for biomass and biofuel production. Learning about the ecology and evolution of  Dothideomycetes could … (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … phylogenetic tree for  Dothideomycetes . The data allowed the team to reclassify 25  Dothideomycetes species, …
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