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Fine-scale evaluation of two standard 16S rRNA gene amplicon primer pairs for analysis of total prokaryotes and archaeal nitrifiers in differently managed soils
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JGI@25: Expanding Metagenomics to Capture Viral Diversity
… conditions and a specific microbial host to replicate. Sequencing genetic material directly from samples sidesteps … , these environmental metagenomes began to offer a window into viral existence. Along with highlighting the viruses in … of this field, the JGI has leveraged metagenomics to boost understanding of environmental viruses. In 2016, Nikos …
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Virus-Host Interactions and Genetic Diversity of Antarctic Sea Ice Bacteriophages
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Finding the Fermenters
… The Science Most organisms use oxygen to convert food into energy. However, in environments with little or no … at the University of California, Davis and UC Santa Barbara generated a list of prokaryotes with fermentative metabolism … project . They also used the tool to predict possible functions from 733 metagenome-assembled rumen genomes. …
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Analyses of expressed sequence tags from the maize foliar pathogen Cercospora zeae-maydis identify novel genes expressed during vegetative, infectious, and reproductive growth
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Genomic analysis of 94 SEMIA strains isolated from common bean nodules: species diversity and genes related to nodulation, nitrogen fixation, and tryptophan metabolism
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Virus Discoveries that Keep Getting Bigger
… Sequence-based studies — from metagenomics to single-cell work — have quickly accelerated understanding of giant viruses. The Science In the last … have used culture-independent approaches to gain insight into the  genomes of giant viruses. In a new review, …
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An Addiction Crucial to a Fungus’ Reproduction
… organisms (symbionts) are transmitted between host generations, researchers investigated the role that bacteria … with the fungi and bacteria, while the DOE JGI team sequenced and annotated a host genome (Rm ATCC 52813) as … are potential sustainable sources of alternative fuels, so understanding fungal-bacterial relationships can shed light …
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JGI Contributes Eight to 2023 Highly Cited Researchers list
… tool called geNomad that identifies and classifies mobile genetic elements based upon their gene content and their genetic sequences. Roux was first author on a study featuring a new …
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Game On: High School Students Drive Everglades Metagenomics Study
… credits her high school teacher with inspiring her to get into science and wanted to pay it forward. Defining a … images from Google maps to plan their route, and had to adapt when they noticed while collecting the samples on … DNeasy PowerSoil Kits and sent the samples to the JGI for sequencing.  While JGI processed, sequenced, and analyzed …
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JGI@25: Mapping Switchgrass Traits with Common Gardens
… impressive amount of biomass which could then be converted into sustainable biofuels . For its importance to the DOE … candidate bioenergy feedstock crop. In 2018, the JGI had sequenced and assembled the genomes of two varieties of a … has allowed the research team to associate climate adaptations with switchgrass biology. Switchgrass has a large …
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The genome of Polaromonas naphthalenivorans strain CJ2, isolated from coal tar‐contaminated sediment, reveals physiological and metabolic versatility and evolution through extensive horizontal gene transfer
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