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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… which microbes are present in a sample, to generate data about which organisms are active, and which microbes are … microbial ecosystems. These communities harbor tens of thousands of different organisms who all consume different … for a SIP-focused workshop at the JGI in the fall of 2024. “ We wanted to get into the nitty gritty with the …
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ORT: A workflow linking genome-scale metabolic models with reactive transport codes.
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Enlarging Windows into Understanding Gene Functions
… the specific sequence of these four letters represents an organism’s genetic code, or genome, which underlies physical … (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … as tough as it has been 10 years ago,” he said. “We thought about reconstructing gene regulatory networks, understanding …
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Boosting Small Molecule Production in Super “Soup”
… to keep processes running smoothly. As reported August 26, 2021, in Nature Communications , researchers led by … and so one of the things that I think is so special about this collaboration is that we’re doing work in yeast, a key platform organism that has been used historically for making …
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From Competition to Cooperation
… walls, while brown rot cannot break down the lignin but use cellulose. Finally, there are soil saprotrophs, which degrade plant detritus. Despite the different modes of nutrition, many of these … in moving toward functional genomics studies to learn more about the inner workings of plant-host and …
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Learning to Look
Machine learning approach significantly expands inovirus diversity. To answer the question, “Where’s Waldo?” … only Waldo will have all of these features. As described July 22, 2019, in  Nature Microbiology , a team led by … methods to discover new anti-CRISPRs,” said Adair Borges, a graduate student in bacterial immunologist Joe …
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The genome portal of the Department of Energy Joint Genome Institute: 2014 updates
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Complete genome sequence of Chitinophaga pinensis type strain (UQM 2034T)
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How Filamentous Fungi Sense Food
Tracing gene regulatory networks in the model fungus  Neurospora crassa . The Science A team led by … degrade the plant biomass. In order to learn more about these regulatory networks in the model fungus  N. … and Development Program of Berkeley Lab, among other organizations. … We acknowledge the use of deletion strains …
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Cultivating Symbiotic Antarctic Microbes
… cultures reveal they are symbionts and not free-living organisms. The Science Researchers employed multiple … ecological consequences of microbe-microbe interactions. Using metagenomes recovered directly from environmental … researchers have been able to gain further insights about how microbes have adapted to thrive in polar …
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Fishing for Novel Cellulose Degraders
… (DOE) Joint Genome Institute (JGI), a DOE Office of Science User Facility located at Lawrence Berkeley National … and unknown. The challenge remains to learn more about what microbes are present in any given … than cellulose-degradation to tease out uncultivated microorganisms of interest from complex environmental samples. … …
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Eelgrass Proves to Be Much Younger Than We Thought
Recent study shows eelgrass has been around about 2.5 million years less than previously believed.  The Science Eelgrass, one of the most … US Department of Energy Joint Genome Institute (https://ror.org/04xm1d337), a US Department of Energy Office of Science …
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