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Micro-Scale Applications Group
… the first quantitative Stable Isotope Probing (SIP) Metagenomics pipeline that utilizes internal analytical … various microscopy techniques … Stable isotope probing metagenomics: … Single cell: … For further details, please …
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Better Genome Editing for Bioenergy
… is a tantalizing microbial factory, capable of turning abundant biomass carbohydrates — glucose and xylose — into fatty … genes were essential to  Y. lipolytica . They identified 1,377, or 17.5 percent, of  Y. lipolytica ’s genes to be … rife with false negatives: that time, the team only found 359 genes to be essential. The team also tested for genes …
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A Collaboration to Improve Plant Genome Annotations Across Species
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Fungal & Algal Program
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An Enzyme Family that Helped Shape Nitrogen Metabolism on Our Planet
… located at Berkeley Lab. In addition to providing metagenome mining for computational analysis of the AT enzyme … a Swiss Army knife within a toolkit – a tool with some redundancy, that is both functionally versatile as well as … fungi and animal. This analysis led them to identify 2,938 putative AT  genes. Within the AT genes identified across …
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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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Evolution of a Fungal Gene Expression Regulator
… and fungi run the gamut from mutually beneficial to antagonistic. In fungi, 5mC is often found in transposable … the true diversity of the fungal kingdom. The abundance of fungal genomes underscores the need for a more … US Department of Energy under contract no. DE-AC02-05CH11231. The Georgia Advanced Computing Resource Center (GACRC) …
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An Automated Tool for Assessing Virus Data Quality
… recovered and identified from environmental samples (metagenomes). However, the quality and completeness of … tail – they individually decide that the elephant is either dangerous, akin to a carpet, or a harmless piece of rope. … U.S. Department of Energy under contract no. DE-AC02-05CH11231. This work was also supported the grant #2016/23218-0 …
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JGIota: A Tool to Find the Nomadic Genes that Help Microbes Adapt - geNomad
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Introducing New Members of the JGI User Executive Committee
… late 2022 and the election period concluded on Jan. 6, 2023. With the election, the following UEC members stepped down …
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Nikos Kyrpides
… comparative analysis platforms for microbial genomes and metagenomes (IMG). He became the Metagenomics Program head in … University of Crete, Greece … Pavlopoulos GA et al. (2023) Unraveling the functional dark matter through global … of Earth’s microbiomes. Nature Biotechnol . 39(4):499-509 Danko D, et al. 2021. A global metagenomic map of urban …
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I-Min (Amy) Chen
… updates and new features. Nucleic acids research Jan 2023 Camargo AP, Nayfach S, Chen I-MA, Palaniappan K, Ratner A, … et al. IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata. Nucleic acids … K, and Chu K. Maintaining a Microbial Genome & Metagenome Data Analysis System in an Academic Setting, SSDBM …
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