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Tanja Woyke Elected to American Academy of Microbiology
… Congratulations to the JGI’s Tanja Woyke , who has been … genetic material of uncultivated microbes and link their genomes to the roles they play in the environment. One … viruses (NCLDV) supergroup. As a result, the giant virus protein space grew from 123,000 to over 900,000 proteins, and …
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Soil compartments (bulk soil, litter, root and rhizosphere) as main drivers of soil protistan communities distribution in forests with different nitrogen deposition
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Transcriptomics reveal a mechanism of niche defense: two beneficial root endophytes deploy an antimicrobial GH18‐CBM5 chitinase to protect their hosts
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Complete genome sequence of the thermophilic, hydrogen-oxidizing Bacillus tusciae type strain (T2T) and reclassification in the new genus, Kyrpidia gen. nov. as Kyrpidia tusciae comb. nov. and emendation of the family Alicyclobacillaceae da Costa and
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Complete genome sequence of Planctomyces brasiliensis type strain (DSM 5305T), phylogenomic analysis and reclassification of Planctomycetes including the descriptions of Gimesia gen. nov., Planctopirus gen. nov. and Rubinisphaera gen. nov. and emended
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The Case for Conservation
… help improve crop yields.  The Science The fire moss Ceratodon purpureus is a short plant with a complex genome . Now, high-quality reference genome sequences of the male and female plants, each … The work conducted by the U.S. Department of Energy Joint Genome Institute was supported by the Office of Science of …
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First Monoploid Reference Sequence of Sugarcane
… Sorghum genome serves as a reference for the highly complex … Most species are diploids and have two sets of chromosomes, one from each parent. In contrast, many crops have multiple … The final sugarcane sequence generated is 382 Mb; 25,316 protein-coding gene models were predicted with more than 80 …
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An Age of CRAGE: Advances in Rapidly Engineering Non-model Bacteria
… that allows researchers to quickly modify diverse bacterial genomes. In 2019, the JGI’s Yasuo Yoshikuni and his team  announced in  Nature Microbiology an important addition to the synthetic biologist’s toolkit: a technique for  c … One , engineering different gene deletions in four gammaproteobacterial species, and then removing the editing …
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Expanding Virophage Diversity
… Virophages are small viruses with double-stranded DNA genomes that co-infect eukaryotic cells along with giant viruses. Virophages are small viruses with … share only four genes in common: major and minor capsid proteins (MCP and mCP, respectively), ATPase involved in DNA …
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Toward More Reproducible, Reusable Stable Isotope Probing Experiments
… As SIP experiments shed more light on microbial communities than ever before — especially with … proposal calls to the U.S. Department of Energy (DOE) Joint Genome Institute (JGI), a DOE Office of Science User … easier to compare?” said Malmstrom, who worked with JGI Metagenome Program head Emiley Eloe-Fadrosh to host researchers …
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Computationally Classifying Fungal Lifestyles
… Machine learning methods were applied on sequenced fungal genomes to classify gene families. The … that “taught” a computer how to classify 101 representative genomes of Dothideomycetes, the largest class of fungi, by … The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is …
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JGI@25: Mapping Switchgrass Traits with Common Gardens
… In honor of the JGI's 25th anniversary in 2022, we have … crop. In 2018, the JGI had sequenced and assembled the genomes of two varieties of a close relative and model … high-quality reference sequence of the complex switchgrass genome. The reference genome built off more than a decade of …
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