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Conserved unique peptide patterns (CUPP) online platform 2.0: implementation of +1000 JGI fungal genomes.
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JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom
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The genome of the polyextremophilic yeast, Naganishia friedmannii, reveals adaptations involved in stress response pathways, carbohydrate metabolism expansion, and a limited DNA repair repertoire
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Quantitative DNA Stable Isotope Probing Identifies Active Microorganisms Assimilating Volatile Fatty Acids in Full-Scale Enhanced Biological Phosphorus Removal Processes
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A Revamped Amplification Method that Enables Nearly Complete Single-Cell Genomes
… The U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … like plasmids, the picture is far from complete.  In 2021 , scientists at St. Jude Children’s Research Hospital … with the JGI. Working together, they found most bacterial genomes from water and soil communities were at …
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Understanding Wildfire Recovery, Starting in Soil
… in Nature Microbiology , went a step further, using both DNA and messenger RNA (mRNA) sequencing to identify those … samples, they reconstructed and examined over six hundred bacterial genomes — mainly actinobacteria, as well as … and growth.  This study builds on the pyrophilous fungi the JGI has previously sequenced , and provides a powerful …
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A Community Resource for Secondary Metabolite Researchers
… BGC sequence data from over 1.3 million publicly available bacterial and archaeal genome and contig sources.  The … The U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … from isolate and metagenome data.   The SMC ( smc.jgi.doe.gov ) is designed with two main objectives. First …
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2025 NeLLi Symposium
… Nevada, Las Vegas, and the Desert Research Institute, the 2025 NeLLi Symposium delves into the most recent expansions … is a continuation of the previous NeLLi Symposia. In this 2025 Symposium, we will showcase the latest research on the … This symposium series will provide an overview of the bacterial, archaeal and microeukaryote diversity cataloged …
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New Vision, New Mission, New Plan: The JGI’s Next Five Years
… New 5-year strategic plan outlines how the JGI will advance the bioeconomy, leveraging partnerships to … Serve the Changing Planet (download a copy at jointgeno.me/2024StrategicPlan .) This plan aligns the DOE Office of … the genomes of individual organisms or environmental DNA, and then using advanced capabilities to understand …
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IMG/VR
… JGI's Simon Roux describes the structure and content of the IMG/VR v3 database (img.jgi.doe.gov/vr), the latest release of IMG database …
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An Improved Method of RNA Isolation from Loblolly Pine (P. taeda L.) and Other Conifer Species
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Taking Stock of the Known and Unknown Microbial Space
… to the global research community.  Published January 17, 2025 in Science Advances , researchers at the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at … still unknown.  “We took a deep dive into over 1.8 million bacterial and archaeal genomes to see how much of their …
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