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The More the Merrier: Making the Case for Plant Pan-genomes
… system traces polyploid genome evolution. Flowering plants abide by the concept, “the more the merrier,” … (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … and in the laboratory. “We are fortunate because the progenitor species of  Brachypodium hybridum are …
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iPHoP: A Matchmaker for Phages and their Hosts
…   To understand virus-host dynamics, computation helps fill in what cultivation can’t. The Science At first, viruses are … Applied to 216,015 high-quality virus sequences in the IMG/VR database, the iPHoP program generated many new …
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Waiting to Respire
… clues to ancestral bacteria’s energy sources. More than two billion years ago, cyanobacteria acquired the ability to … popularizer and communicator (and at one time, the spouse of Lynn Margulis). The information was then used to predict the metabolic strategies applied by a common …
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Evolution of a Fungal Gene Expression Regulator
… the DNA bases themselves can also be modified. The best-known example of a modified DNA base is a methylation of the … the genome. Many plant pathogens such as the fungi that cause poplar leaf rust, are rich in transposons, which may help the pathogens …
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Simon Roux Named 2025 ASM Microbiome Data Prize Awardee
Congratulations to US Department of Energy (DOE) Joint Genome Institute (JGI) staff scientist Simon Roux , who was recently selected as the 2025 recipient of the … Program, and coordinates the development of the virus and plasmid workflows for the National Microbiome Data …
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An Integrated Dataset to Understand Ecosystem Interaction
… soil dataset for understanding the dynamic relationship between poplar trees and their microbial partners. The Science … time. By collecting data from 27 different poplar ( Populus trichocarpa ) trees, as well as the soil surrounding … wildlife habitats and water-quality regulation. Focusing on the rhizosphere and interactions between the trees, …
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Polar Phytoplankton Need Zinc to Cope with the Cold
… some of their most important functions. Even in the chilly waters of Antarctica, tiny ocean-dwellers called … (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … a cold-adapted microalga: the diatom Fragilariopsis cylindrus . At that time, they noted that the F. cylindrus genome …
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Tracing the Evolution of Shiitake Mushrooms
New genomes highlight the diversity of white rot fungi in the genus Lentinula   The Science Shiitake mushrooms get their name from the same place they often …
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Designer DNA: JGI Helps Users Blaze New Biosynthetic Pathways
Fashioning DNA outside a cell is key to interrogating what genes do, how they work, and applying them to … (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … mining, empowering research collaborators to take on ambitious synthetic biology experiments. A recent special issue of …
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Dealing with Drought: Uncovering Sorghum’s Secrets
… becoming common images in many regions due to more extreme weather events such as heat waves, droughts and floods. The … (UC), Berkeley, UC Agriculture and Natural Resources (ANR), US Department of Agriculture P­­lant Gene Expression Center, … Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National …
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New Research Finds Flagella in the Terrestrial Roots of Marine Bacteria
Chloroflexota s ditched their flagella and other traits when migrating back to the ocean. The Science Scientists … microorganisms for biofuel production and other sustainable applications. Summary Hot springs are … A recent study published in  The ISME Journal     focused on a class within  Chloroflexota called  …
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Toward More Efficient Artificial Photosynthesis
The Science Chloroplasts are the factories in plant cells. Using photosynthesis, they take raw materials including sunlight, carbon and water, to convert … from the atmosphere than current natural processes and use it as a sustainable resource for making high-value …
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