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Streamlining Regulon Identification in Bacteria
… transcription factors with their target genes. The Science Regulons are a group of genes that can be turned on … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … Both are members of the JGI’s Secondary Metabolite Science Program, which Mouncey leads. RIViT-seq is a three-step …
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2025 Progress Report
… JGI researchers demonstrate how their laboratory and data science efforts support users, advance foundational science … and professional expertise to support the global research community in studies of complex biological and environmental …
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Extracting the Secrets of Secondary Metabolites
… helps further demystify biosynthetic gene clusters.  The Science Microbial secondary metabolites, those molecules not … the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … into other bacteria, thereby enhancing the scientific community’s understanding of how secondary metabolites are …
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Predominant Acidilobus-Like Populations from Geothermal Environments in Yellowstone National Park Exhibit Similar Metabolic Potential in Different Hypoxic Microbial Communities
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Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages
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Soil compartments (bulk soil, litter, root and rhizosphere) as main drivers of soil protistan communities distribution in forests with different nitrogen deposition
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Rex Malmstrom
… of the Microscale Applications group. Before joining the JGI in 2010, he made the first ever measurements of in situ … to culture these microbes in the lab. After joining the JGI, he formed the Microscale Applications group to operate … a similar single-cell genomics pipeline that provides JGI users access to the genomes of uncultured microbes.  His …
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Data Discovery Tool Helps Identify Microbial Roles within Metagenomes
… provide insights into environmental tendencies The Science The  Metagenome Stability Diagram — a tool within … Office of Science’s Biological and Environmental Research program because it also allows scientists to understand the … mSystems paper , a team at the DOE Joint Genome Institute (JGI), a DOE Office of Science User Facility located at …
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Mining Public Databases Yields Largest Map of Fungal Mitochondrial Genomes to Date
… By leveraging new tools and large-scale data mining, JGI researchers nearly tripled the available fungal … potential for AI-driven studies of energy metabolism. The Science Researchers produced nearly 10,000 new annotations … MycoCosm — a platform widely used across the research community — the work lowers technical barriers for …
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A Revamped Amplification Method that Enables Nearly Complete Single-Cell Genomes
… more complete genomic results from single cells. The Science Studying the  genomes of microorganisms is … The U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … their analysis goals. Offering this tool establishes the JGI as a leader in single-cell genomic amplification at a …
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JGI-Enabled Research Demonstrates the Existence of New Methane-Makers
… the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … metagenomics to sample the entirety of a microbial community out in its natural environment, scientists have … and environmental characterization and cleanup. The JGI provides integrated high-throughput sequencing and …
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Mike Sneddon
… Dr. Sneddon is the Advanced Analysis Group Lead in the Data Science and Informatics Department at the Joint Genome … and bioinformatics annotation pipelines that support JGI’s portals, tools, and the DOE’s emerging AI-enabled … large-scale genomics and lab informatics. Prior to joining JGI in late 2025, he served as Director of Scientific …
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