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A Collaboration to Improve Plant Genome Annotations Across Species
… which specializes in genome improvement for plants. As part of that partnership, the JGI and HudsonAlpha researchers led … This resource also helps in performing cross-species comparative transcriptomics. *The HudsonAlpha Genome … resource like this important to the field of plant genetics/genomics? Avinash: Having a better handle on the gene …
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For the Tiniest Archaea, A Genomic Switch of Friend or Foe
… The Science Within the archaeal domain, there is a group of tiny hitchhikers. These organisms are abundant and yet … interactions are difficult to study in the lab. Metagenomics provides new views of these relationships.  … compounds. However, no microbe works alone. Archaea, bacteria, and viruses all operate in concert to form the …
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JGI@25: A Single Cell, Myriad Microbial Discoveries
… In honor of the JGI's 25th anniversary in 2022, we have revisited a … first closed and finished genome derived from an uncultured bacterial single cell – a symbiont of the green … in carbon fixation in the dark ocean. Combining single cell genomics and synthetic biology, a team studying microbial …
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Fungus Fuels Tree Growth
… start pinning down how a fungal symbiont spurs growth of poplar, a potential biofuel feedstock.     The Science The fungus  Mortierella … poplar genes associated with plant defense (e.g. jasmonic acid and salicylic acid). The team also observed that the … the Oak Ridge National Laboratory (ORNL) sponsored by the Office of Biological and Environmental Research at the …
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Making a Lichen Together
… For the first time, a team analyzes the transcriptomes of a lichen fungus and alga to understand their partnership … partner, either a eukaryotic microalga or a cyanobacteria, is known as the “photobiont.” Photobiont and … in the lichen lifestyle. The team’s results appear in  BMC Genomics . To explore the genomes, Armaleo and colleagues …
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Bacterial Genome Annotation
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Comparative Analysis of 126 Cyanobacterial Genomes Reveals Evidence of Functional Diversity Among Homologs of the Redox-Regulated CP12 Protein    
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Comparative genomics, proteomics and transcriptomics give new insight into the exoproteome of the basidiomycete Hebeloma cylindrosporum and its involvement in ectomycorrhizal symbiosis
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A comparative genomics screen identifies a Sinorhizobium meliloti 1021 sodM-like gene strongly expressed within host plant nodules
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Horizontal gene transfer in Histophilus somni and its role in the evolution of pathogenic strain 2336, as determined by comparative genomic analyses
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Identification of candidate genes in Arabidopsis and Populus cell wall biosynthesis using text-mining, co-expression network analysis and comparative genomics
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Comparative genomic analysis of the gut bacterium Bifidobacterium longum reveals loci susceptible to deletion during pure culture growth
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