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Metabolic analysis of the soil microbe Dechloromonas aromatica str. RCB: indications of a surprisingly complex life-style and cryptic anaerobic pathways for aromatic degradation
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Transcriptional and metabolic stasis define desiccation-induced dormancy in the soil bacterium Arthrobacter sp. AZCC_0090 until water vapor initiates resuscitation
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JGI@25: Expanding Metagenomics to Capture Viral Diversity
… In honor of the JGI's 25th anniversary in 2022, we have revisited a … and environmental challenges. Viruses are everywhere — in soil, the sea and, of course, the cells of other organisms. … can do. For example, understanding virus-host dynamics in soil microbiomes could allow for more accurate ecosystem …
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Building Sphagnum Genomic Resources
… Sphagnome data would enable researchers’ insights on their potential carbon cycling impact.   … estimate that they hold about 25 percent of the world’s soil carbon. In high latitudes, sphagnum can also act as a … The work conducted by the U.S. Department of Energy Joint Genome …
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High-quality permanent draft genome sequence of Ensifer medicae strain WSM244, a microsymbiont isolated from Medicago polymorpha growing in alkaline soil
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Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils
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Virus Discoveries that Keep Getting Bigger
… Sequence-based studies — from metagenomics to single-cell work — have quickly accelerated understanding of giant viruses. The Science In the … This work was conducted by the US Department of Energy Joint Genome Institute, a DOE Office of …
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An Enzyme Family that Helped Shape Nitrogen Metabolism on Our Planet
… Researchers looked across many organisms to see that … enzymes. Even during specializing or multiplying, ATs have maintained functional versatility with fewer enzyme copies. … has a relatively small set of around 20 ATs. These ATs have maintained a small and relatively constant number across …
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Bacteria and Fungi Divvy Up the Work in Forest Floor
… Bacterial enzymes play second fiddle to those from fungi when it … Pinpointing the processes happening on and in forest soil also better enriches models of global carbon and … what escapes to the atmosphere in the form of greenhouse gases (e.g., carbon dioxide, methane, and nitrous oxide). …
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Plotting a Model for Virus-Host Warfare Deep Below Ground
…   Visualizing a novel, candidate viral genome found in the deep subsurface ecosystem. The Science Altiarchaea are carbon-fixing microbes and targets of multiple … This work received funding by the Alfred P. Sloan foundation (grant …
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Doubling Down on Known Protein Families
… Using a novel computational approach, researchers confirm microbial diversity is wilder … ‘Dark Matter’ Microbial communities living everywhere from soils and stomachs to the deep sea are capable of doing a lot … preferred a specific environment — whether that be soil, animal hosts, marine ecosystems, etc.  “So, they must …
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What Happens Underground Influences Global Nutrient Cycles
… DOE user facilities EMSL and JGI announce FY 2020 collaborative … (BER), Brodie and his colleagues have been running a soil-warming experiment in the Sierra Nevada mountain range … ground, influencing the production of microbial greenhouse gases and volatile organic compounds. This was the seventh …
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