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Tracking the Origins of Methane-Producing Microbes
… they found that one of the MAGs contained the complete set of genes needed for hydrogen-dependent and CO2-reducing … to address some of the most pressing challenges of our time. For more information, please visit  …
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Waiting to Respire
… Communications , two research teams joined forces and data sets to describe bacterial genomes for related (“sibling”) … named for Lynn Margulis, the main proponent of the significance of endosymbiosis in evolution of eukaryotes, and … a renowned science popularizer and communicator (and at one time, the spouse of Lynn Margulis). The information was then …
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Streamlining Regulon Identification in Bacteria
… genes. The Science Regulons are a group of genes that can be turned on or off by the same regulatory protein. … application of the technology, in principle, RIViT-seq can be applied to any transcription factors or regulatory … alternative sigma factors to initiate transcription of gene sets associated with functions like stress responses and …
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Viruses Reprogram Cells into Different Virocells
… of Michigan studying how virus infections cause significant metabolic changes in marine microbes, the answer is no. … 1, and 20% to 40% of the microbes are infected at any given time. Microbial viruses can thus have significant impacts on … to better represent how infections occur in natural settings. …
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Designer DNA: JGI Helps Users Blaze New Biosynthetic Pathways
… Terpenes are made via a tangled network of enzymes in plants. To better pinpoint the biosynthetic routes that … in the organism Clostridium autoethanogenum. The microbe can utilize carbon oxides, including the greenhouse gas … been possible without JGI’s support,” she says. Scientists can  harness the expertise and capabilities of the DNA …
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Trent Northen
… alignment of tandem mass spectra with statistical significance. SIMILE enables alignment of tandem mass spectra with … bacterial polyphenol metabolism in an anoxic wetland soil. Nat Commun. 2021 Apr 29;12(1):1-6. … Couradeau E et al. Probing the active fraction of soil microbiomes using BONCAT-FACS. Nat Commun. 2019 10(1):2770. …
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Help from Citrus’ Bitter, Hardier Cousin
… orange ripens only bitter, intensely sour fruit. Yet this plant, native to China and now disseminated around the … a UF/IFAS professor of citrus breeding genetics and longtime JGI collaborator, are senior authors of the  recent … The Plant Journal.  this study included the discovery of candidate genes that confer resistance to citrus greening …
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A Powerful Technique to Study Microbes, Now Easier
… help process experiments that measure microbial activity in soil. Now, the researchers and robots have made these …
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A Genomic Perspective Across Earth’s Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy
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Gene and transcript abundances of bacterial type III secretion systems from the rumen microbiome are correlated with methane yield in sheep
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The Megadata of Lake Mendota - Part 1: Many, Many Mers
… freshwater ecosystem works.  So a few years ago, when they set out to analyze 500 metagenomes, it was the biggest …
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How Maize Makes An Antibiotic Cocktail
… of chemicals called terpenes. Terpenes are important in plant growth, defense, and environmental interactions, and … to transfer into other plants because some of its enzymes can transform diverse terpene substrates into many products; … enzymes to another plant, such as  Sorghum bicolor — a  candidate bioenergy feedstock and  JGI Flagship Plant — …
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