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BIGMAC : breaking inaccurate genomes and merging assembled contigs for long read metagenomic assembly
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JGI@25: Using Team Science to Build Communities Around Data
… a 2012 Community Science Program proposal. Joseph Spatafora of Oregon State University led the effort to sequence … for an encyclopedia of reference genomes for fungal metagenomics. Two more CSP proposals came in 2016 that would … along with 100 of his colleagues in the comparative plant genomics community. The project’s aim is to generate …
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Learning to Look
… inoviruses, which are filamentous viruses with small, single-stranded DNA genomes and a unique chronic infection … Simon Roux, a JGI research scientist in the  Environmental Genomics group . Training the Search Tool Inoviruses are stealth agents that can enter and exit through the cell membrane without lysing the bacterial host. They can …
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Microbial Genomics & Metagenomics (MGM) Workshop
… (JGI) is offering a five-day workshop on Microbial Genomics and Metagenomics. Details: mgm.jgi.doe.gov   This highly hands-on … Microbial Genomes & Microbiomes (IMG/M) data and workflows for computational analysis and interpretation of sequence …
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Four chromosome scale genomes and a pan-genome annotation to accelerate pecan tree breeding
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The Big Deal About Short Plants
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Designer DNA: JGI Helps Users Blaze New Biosynthetic Pathways
JGI DNA Synthesis Science Program. Fashioning DNA outside a cell is key to interrogating what genes do, how they work, … their collaborations. One review article in the collection, Genomics-enabled analysis of specialized metabolism in … PI on this project. “I view the program as an excellent platform to build collaborative research initiatives.” Yasuo …
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The genome of the seagrass Zostera marina reveals angiosperm adaptation to the sea
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JGI@25: Following Fungi that Pry Apart Plant Polymers
… plants can’t run away, they’ve evolved these really tough cell wall materials that keep microbes — and the enzymes … a chemical and biological engineer at the University of California Santa Barbara. So plants don’t break down without a … standards.  A year later, her team used proteomics, genomics and transcriptomics to discover another advantage …
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Bacteria and Fungi Divvy Up the Work in Forest Floor
… down tough plant fibers. The Science Walk in a temperate forest filled with Norway spruce trees, and microbial … suggest that fungi are breaking down plant fibers, like cellulose and lignin. Bacteria, on the other hand, appear to … of Science National User Facility , with the stroke of a single proposal. … This work was supported by the Czech …
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JGI@25: Cow Rumen and the Early Days of Metagenomics
Rumen microbes have the ability to break down hardy plant cell walls and therefore hold clues to how humans could do the same on an … in the journal Science. It detailed how they’d used metagenomics — a then-novel approach which allows scientists to …
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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… shed more light on microbial communities than ever before — especially with the prospect of meta-analyses boosted … this was the first workshop of its kind on SIP metagenomics,” Malmstrom said.  Increasingly, efforts like these … Berkeley National Laboratory, is committed to advancing genomics in support of DOE missions related to clean energy …
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