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A Collaboration to Improve Plant Genome Annotations Across Species
… To provide broad plant genomic capabilities, the DOE Joint Genome Institute works in partnership with the … which specializes in genome improvement for plants. As part of that partnership, the JGI and HudsonAlpha researchers led … analysis, and ortholog function descriptions from nearest phylogenetic neighbors. Our pipeline allowed us to add …
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iPHoP: A Matchmaker for Phages and their Hosts
… With metagenomic sequencing, researchers have found more of these viruses than ever before, in all kinds of … opens the possibility of using phages to engineer microbial communities. One day, these phages could boost plant-microbe … This work was supported by the U.S. Department of Energy, Office of Science, Biological and Environmental …
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Metagenome Sequence Analysis of Filamentous Microbial Communities Obtained from Geochemically Distinct Geothermal Channels Reveals Specialization of Three Aquificales Lineages
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Genome-scale phylogenetic analyses confirm Olpidium as the closest living zoosporic fungus to the non-flagellated, terrestrial fungi
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Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool
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Phylogenetic proximity is a key driver of temporal succession of marine giant viruses in a five-year metagenomic time-series
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Extracting the Secrets of Secondary Metabolites
… further demystify biosynthetic gene clusters.  The Science Microbial secondary metabolites, those molecules not … for survival, may now be easier to characterize following a proof-of-concept study in which researchers paired CRISPR and … The work conducted by the US Department of Energy Joint Genome Institute, a DOE Office of Science …
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QTL × environment interactions underlie adaptive divergence in switchgrass across a large latitudinal gradient
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Quantitative DNA Stable Isotope Probing Identifies Active Microorganisms Assimilating Volatile Fatty Acids in Full-Scale Enhanced Biological Phosphorus Removal Processes
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High Five: Celebrating the JGI-UC Merced Genomics Internship Program
… than 20 UC Merced students have contributed to the research of 13 JGI scientists since the program’s inception. In 2014, … Ben Cole, a project scientist in Visel’s Genomics of Plant-Microbial Interactions Group who has mentored several of the … Ul-Hasan (2015 graduate intern): In her final year in the Quantitative & Systems Biology PhD program at UC Merced …
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Leo Baumgart
… Dr. Baumgart joined the DOE Joint Genome Institute in 2018, following his doctoral research in synthetic biology and microfluidics at the University of California, San Diego. As the … gene regulation at the level of individual cells across diverse plant tissues. Dr. Baumgart focuses on expanding …
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Building Sphagnum Genomic Resources
… Sphagnome data would enable researchers’ insights on their potential carbon cycling impact.   The … Science Program (CSP), researchers are developing a number of resources to build up Sphagnum as a plant model system … a versatile model system for studies of carbon cycling in diverse environments. In addition, this work reflects a …
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