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A k-mer-based approach for phylogenetic classification of taxa in environmental genomic data.
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Frederik Schulz
… Schulz joined the DOE Joint Genome Institute in 2016 and is leading the New Lineages of Life Group. His research … eukaryotic microbes and viruses in environmental sequence data. Dr. Schulz employs multi-omics (metagenomics, … discovery pipeline and enrichment metagenomics for terrestrial protists. These approaches enable novel …
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Computationally Classifying Fungal Lifestyles
… Machine learning methods were applied on sequenced fungal … of fungi, by lifestyles. The machine “learned” to identify data generated in part through the 1000 Fungal Genomes … (CSP) , as several approved proposals have contributed toward filling gaps on the fungal Tree of Life, including …
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Complete Genome of Oil-Rich Alga Reveals Ideal Platform for Bioengineering
… Streamlined genome with precise gene targeting transforms oil-producing alga into a powerful platform for … targeting in the genome in the November 2025 issue of The Plant Cell. Auxenochlorella is an allodiploid hybrid of two … This work was supported by the Department of Energy (DOE) Office of …
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Picking Up Threads of Cotton Genomics
… Analysis reveals cotton genome stability across global … D are available for comparative analysis on JGI’s plant data portal  Phytozome , which is a community repository and … Science “The results described in this  Nature Genetics publication will facilitate deeper understanding of cotton …
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Four Researchers Join JGI User Executive Committee
… Four researchers have been elected to the User Executive Committee of … advanced genomic capabilities, large-scale AI-ready data and expertise to the global research community to study … of bio-based products and next-generation technologies, and toward a secure energy portfolio for DOE priorities.  Bik is …
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Corymbia Genome Expands Terpene Synthesis Knowledge
… Genome annotations of two C. citriodora subspecies broaden … Australia but is increasingly farmed in other countries for essential oil production. The recent assembly of two … from a biofuels production perspective. By using genomic database alignment tools, researchers searched for TPS genes …
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Engagement Webinar: Utilizing long-read sequencing for metagenomics and DNA modification detection
… This webinar focused on how the JGI employs single-molecule, long-read … (PacBio) metagenomes can be included, which do not count toward the 1Tb cap. PacBio metagenomes are currently … sequenced without pooling, which yields ~ 180 Gb of data per library. Q: How much DNA/coverage is required for …
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High-resolution genetic mapping of allelic variants associated with cell wall chemistry in Populus
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Advancements in the application of NanoSIMS and Raman microspectroscopy to investigate the activity of microbial cells in soils
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Capturing Single Cell Genomes of Active Polysaccharide Degraders: An Unexpected Contribution of Verrucomicrobia
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Tracking heavy water (D2O) incorporation for identifying and sorting active microbial cells
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