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JGI@25: Expanding Metagenomics to Capture Viral Diversity
… Roux , the Viral Genomics Group Lead at the JGI.  To understand the microbiome systems underpinning a broad range of environmental challenges, … all over the world, including 3,908 isolate reference DNA viruses and 264,413 computationally identified viral …
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Genome sequence of the thermophilic fresh-water bacterium Spirochaeta caldaria type strain (H1T), reclassification of Spirochaeta caldaria, Spirochaeta stenostrepta and Spirochaeta zuelzerae in the genus Treponema as Treponema caldaria comb. nov.,
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Genome sequence of the chemoheterotrophic soil bacterium Saccharomonospora cyanea type strain (NA-134T)
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Fungus Fuels Tree Growth
… it can thrive in the soil as a saprophyte, living off decaying organic matter, or as an endophyte, living between … found among and within poplar trees, and in an effort to understand its influence on the plant, a team of scientists … larger by dry weight than without PM193  . By contrast, using a different endophytic fungus,  Ilyonectria europaea , …
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The Surprising Structure of a Shrub Willow Sex Chromosome
… Scientists found both a gene likely important for sex determination and a shared genetic architecture with Y chromosomes in mammals: a structure that helps correct deleterious mutations. The Impact Shrub willow and its close … the shrub willows through the  Community Science Program , using long-read sequencing to assemble the repetitive areas …
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Virus Discoveries that Keep Getting Bigger
… to single-cell work — have quickly accelerated understanding of giant viruses. The Science In the last thirty … boast larger genomes than many bacteria. Until recently, understanding of giant viruses came primarily from sampling an … detecting giant viruses in sequence data is read-mapping: using giant virus reference genomes to search for giant …
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JGI@25 RECAP: 2022 Annual Meeting features historical perspectives on JGI’s 25 years
… work of the human genome project, which spanned nearly two decades, was filled with ups and downs, challenges and triumphs, … time (1986) 98% of the human genome was thought to be junk DNA, so there was quite a bit of resistance to use resources …
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Taking Stock of the Known and Unknown Microbial Space
… help map out microbial diversity hotspots Over the past few decades, advancements in sequencing technologies have led to an … of the current state of microbial genomic biodiversity. Using publicly available genome sequence data generated over … The U.S. Department of Energy Joint Genome Institute, a DOE Office of …
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2025 NeLLi Symposium
…   Registration has closed   Registration fees: Regular attendees  (LBNL and external): $400  Industry: $450  Students and postdocs (including LBNL students and postdocs): $250      Hosted by the DOE Joint … on November 4 at the National Atomic Testing Museum at the Desert Research Institute. Metagenomic and single-cell …
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An Earth Month Look at Sustainability Efforts at the JGI
… This year, a new group at the Lab, the Sustainable Garden Club, hosted a DIY Succulent Workshop and Plant Sale. … efforts dovetail into sustainability commitments for the wider Berkeley Lab. “We’re shifting now to our net-zero … even before moving to Berkeley, the JGI committed to using Stirling freezers to store samples, which use less …
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JGI-Enabled Research Demonstrates the Existence of New Methane-Makers
… methane as an energy source.  Until recently, our understanding of these methanogenic microorganisms was … single-celled organisms thrive in most  environments devoid of oxygen and until recently were thought to be the … from different phyla are capable of methanogenesis. Using metagenomics eliminates confirmation bias, because it …
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Calculating the Costs of Multiple Switchgrass Gene Copies
… Institute for Biotechnology (HudsonAlpha), and the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a … alters genomic diversity, fitness, and adaptability. Using a combination of genomic, quantitative genetic, … shifts. (C4 plants use a more efficient form of photosynthesis that reduces water loss, compared to the process …
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