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Evolution of a Fungal Gene Expression Regulator
… Describing the largest analysis to date of the modified DNA base 5mC variations in fungi. The Science Changing an A, … genomes and epigenomics, researchers are unwrapping complex mechanisms of genome-wide regulation and cataloging … The work conducted by the US Department of Energy Joint Genome Institute, a DOE Office of Science …
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Nikos Kyrpides
… 2004 to lead the Genome Biology Program and the development of the comparative analysis platforms for microbial genomes … Joint Genome Institute, Dr. Kyrpides led the development of the genome analysis and Bioinformatics core at Integrated … his postdoctoral studies with Carl Woese at the University of Illinois at Urbana-Champaign and at Argonne National …
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Using BLAST to Teach “E-value-tionary” Concepts
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A Guide to Gene‐Centric Analysis Using TreeSAPP
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Contrasting Community Assembly Forces Drive Microbial Structural and Potential Functional Responses to Precipitation in an Incipient Soil System
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The Genomes OnLine Database (GOLD) v.5: a metadata management system based on a four level (meta)genome project classification
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Analysis of Porphyra Membrane Transporters Demonstrates Gene Transfer among Photosynthetic Eukaryotes and Numerous Sodium-Coupled Transport Systems      
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An Enzyme Family that Helped Shape Nitrogen Metabolism on Our Planet
… characteristics — creating many different ways of processing nitrogen. To boost crops more efficiently in … analysis of the AT enzyme family, the JGI provided DNA synthesis capabilities to enable functional testing of … ATs. This replacement has allowed AT enzymes to evolve in complex ways.  Finally, to take a closer look at the …
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Making a Lichen Together
… For the first time, a team analyzes the transcriptomes of a lichen fungus and alga to understand their partnership … is a superorganism: one being that is actually comprised of two (or more) participants. One is a fungus (usually … carbon and nitrogen fixers in alpine and high latitude ecosystems, deciphering their internal molecular mechanisms can …
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JGI@25: Fueling Investigation into Methane-Making Microbes
… In honor of the JGI's 25th anniversary in 2022, we have revisited a … inhibit microbial methane production. Another effort is in using microbial understanding to formulate a vaccine for … to provide colleagues at the Salk Institute with genomic DNA samples from Ruminococcus flavefaciens (XPD3002). With …
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Steven Wilson
… Since 2018, Mr. Wilson has served as the Systems Engineering Group lead.   The group is responsible … and supporting applications that span the lifecycle of activities at JGI - proposal submission and review, … approach, an ability to work with others to break down complex issues into achievable tasks, and an ability to get …
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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… communities than ever before — especially with the prospect of meta-analyses boosted by AI and Machine Learning — JGI … catalyzed by microbial communities. By pairing RNA or DNA sequencing with tracings of stable, heavy isotopes, SIP … and participation — is especially important in microbial ecosystems. These communities harbor tens of thousands of …
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