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… learning methods were applied on sequenced fungal genomes to classify gene families. The Science As a proof of … class  Dothideomycetes includes fungi that obtain nutrients from decaying organic matter (saprobes), and many plant … predicting plant pathogens (blue) vs saprobes (green). (From Haridas S et al.  Studies in Mycology , 2020.) Using …

Over the course of eight weeks this past summer, 10 students from UC Merced worked closely with JGI scientists on research projects that contribute to the larger mission of the U.S. Department of Energy. … The topics students worked on ranged far and wide — from implementing new data visualization tools, to using …

What if we understood plants and how they adapt to their ever-changing environments better? We could unlock … and bioenergy crops. But most available genomes are from narrow swaths of the plant tree of life. One project …

… the latest release of IMG database dedicated to viral genomes assembled from metagenomes. He also demonstrates briefly how to leverage novel capabilities of IMG/VR to browse and …

The Secondary Metabolism Collaboratory encourages user engagement. The Science In addition to … it is the largest repository of BGC sequence data from over 1.3 million publicly available bacterial and … gene clusters and secondary metabolites information from isolate and metagenome data.   The SMC ( …

… chilly waters of Antarctica, tiny ocean-dwellers called phytoplankton play an outsize role in cycling carbon and … on microalgal communities across different ocean latitudes from pole to pole, using metatranscriptome and metagenome data from the JGI. With multiple threads of evidence showing that …

Methane Metabolism. Methane-producing archaea are estimated to produce 500 million tons of methane a year, which is over … user facility, report the discovery of a novel archaeum from a hot spring that has the genetic machinery to perform … small pools of cells that were then sequenced separately. From these samples, 111 metagenome-assembled genomes (MAGs) …

… abide by the concept, “the more the merrier,” with respect to their genomes. In their base state, they are diploids with two genome copies, one from each parent. Having three or more genome copies from … in a single reference genome is insufficient. “We really have to evaluate polyploid genomes in a pan-genomic …

Every fall, a mysterious green growth appears on top of farmers’ fields: a microbial community that might be … researchers Mary Ann Bruns and Terry Bell are digging in to understand how. …

With a full genome sequence, researchers have been able to look into soybean’s strengths – along with a fungus that threatens this important crop. Hear more about that work from researchers Gary Stacey (University of Missouri), Peter …

… a bioenergy plant? Meet Miscanthus , an attractive addition to your garden and a potential fuel for the future. But, to be competitive in the market, both energy policy and … Miscanthus will need some upgrades. In this episode, hear from scientists working on understanding Miscanthus biology …

… final episode of our series on a giant metagenome assembly from Wisconsin’s Lake Mendota. In the last two episodes, …