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Gene Expression: From On-Off Switch to Dial
Fine-tuning metabolic gene expression helps identify variants in yeast genes. The Science … a more nuanced library approach to tuning gene expression in metabolic pathways. Compared to the traditional way, … that is transferable to other systems, expanding the technologies available for other JGI users outside the realm …
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Evolution of a Fungal Gene Expression Regulator
… analysis to date of the modified DNA base 5mC variations in fungi. The Science Changing an A, C, T or G in a … considered for bioenergy feedstock development. Summary With the aim of producing at least one reference genome for … methyltransferase (MTase) variants. Using new sequencing technologies for producing both reference genomes and …
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For the Tiniest Archaea, A Genomic Switch of Friend or Foe
… some archaeal hosts and their hitchhikers. The Science Within the archaeal domain, there is a group of tiny … hitchhikers. These organisms are abundant and yet exceptionally small, with mini genomes to match. As a result, they … symbiotic interactions are difficult to study in the lab. Metagenomics provides new views of these relationships.  …
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Three Join the JGI User Executive Committee
… (UEC) recently welcomed three new members earlier this month – Sneha Couvilion of Pacific Northwest National … lead on PNNL’s Soil Microbiome SFA. She serves as Secretary within the Microbial Ecology Section of the Ecological … CSP and the JGI-EMSL FICUS programs and brings expertise in metagenomics and novel applications for long-read DNA …
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JGI@25: Following Fungi that Pry Apart Plant Polymers
… number of notable achievements that showcase our collaborations and capabilities to enable great science that will help … of California Santa Barbara. So plants don’t break down without a fight, but it’s an important battle to fine-tune. … an assistant professor at the University of Delaware — is  building on this work to explore an enzymatic ‘toolbox’ of …
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Shattering Expectations: Novel Seed Dispersal Gene Found in Green Millet
… natural diversity reveals seed dispersal in wild populations for the first time. For years, Elizabeth (Toby) Kellogg … with a reasonably accessible system,” said Schmutz. “Building the pan-genome and accessions allow us to see … DOE’s Office of Science is the largest supporter of basic research in the physical sciences in the United …
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JGI@25: Mapping Switchgrass Traits with Common Gardens
In honor of the JGI's 25th anniversary in 2022, we have … grass that can grow year-over-year on marginal soil and with few resources. Despite the low maintenance, it can … genome built off more than a decade of work; as sequencing technologies advanced, assembly and annotation of the genome …
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Busting the Unbreakable Lignin
… shows anaerobic fungi can degrade the hardiest of plant components   The Science There are three main ingredients to … anaerobic fungi could be used to effectively modify lignin without oxygen and make use of it, it would change the … component for the plant, like the brick-and-mortar of a building or the human skeleton. It’s more complex, and …
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A Complex Confection Decoded: Sugarcane Reference Genome
Sugarcane was the last major crop without a reference quality genome and now crop researchers … work toward advancing sugarcane biotechnology. The Science Considered the world’s most harvested crop by tonnage, … genome could help scale sustainable sugarcane conversion technologies for  biofuels and other bioproducts. Finally, …
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Gut Fungi: Unexpected Source of Novel Chemicals
… and help them digest their last leafy meal. In their evolutionary history, these fungi branched off early from aerobic … in their hunt for anaerobic fungi. By growing extracts without oxygen in ruminant fluid — which smells terrible … the fungi expressed biosynthetic gene clusters, which are “building blocks” of natural products. The team then …
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Dan Rokhsar
… in 2000 as the founding Associate Director for Computational Genomics, and led the computational efforts directed … IBM Watson Research Center, Yorktown Heights, NY … Publications … 2018 Marthella Foskett Brown Chair, … Genomics and Computational Biology … Education … Selected Publications … Awards and Honors …
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Kjiersten Fagnan
Kjiersten Fagnan began working with JGI in 2012 as a NERSC bioinformatics computing consultant, after completing a petascale postdoctoral … … About the JGI Chief Informatics Officer … Selected Publications … Awards and Honors …
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