15 results found
    1. Ecology
    2. Microbiology and Infectious Disease

    Ecology and evolution of viruses infecting uncultivated SUP05 bacteria as revealed by single-cell- and meta-genomics

    Simon Roux, Alyse K Hawley ... Matthew B Sullivan
    Single-cell amplified genome sequencing uncovers virus-host interactions in uncultivated sulfur-oxidizing bacteria with relevance to coupled biogeochemical cycling in marine oxygen minimum zones.
    1. Computational and Systems Biology

    Metabolic network percolation quantifies biosynthetic capabilities across the human oral microbiome

    David B Bernstein, Floyd E Dewhirst, Daniel Segrè
    A novel metabolic network analysis method enables large-scale computational predictions of biosynthetic capabilities across the human oral microbiome, revealing a unique cluster of fastidious microorganisms and potential metabolic interdependencies.
    1. Ecology
    2. Microbiology and Infectious Disease

    Global landscape of phenazine biosynthesis and biodegradation reveals species-specific colonization patterns in agricultural soils and crop microbiomes

    Daniel Dar, Linda S Thomashow ... Dianne K Newman
    Computational approach quantifies the abundance of phenazine-antibiotic producing and biodegrading bacteria in diverse soil and plant-associated habitats.
    1. Computational and Systems Biology
    2. Genetics and Genomics

    A computational screen for alternative genetic codes in over 250,000 genomes

    Yekaterina Shulgina, Sean R Eddy
    Five previously unknown alternative genetic codes are found in a screen of bacterial and archaeal genomes by a new computational method called Codetta, lending new insights into the process of their evolution.
    1. Microbiology and Infectious Disease

    The human gut and groundwater harbor non-photosynthetic bacteria belonging to a new candidate phylum sibling to Cyanobacteria

    Sara C Di Rienzi, Itai Sharon ... Ruth E Ley
    Melainabacteria, a candidate phylum related to Cyanobacteria, has been identified in gut and sediment samples by genomic analysis.
    1. Microbiology and Infectious Disease

    Droplet-based high-throughput cultivation for accurate screening of antibiotic resistant gut microbes

    William J Watterson, Melikhan Tanyeri ... Savaş Tay
    High-throughput droplet-based cultivation of gut microbes reduces biases of traditional cultivation strategies and thereby enables detection of difficult-to-culture organisms, which is required in applications such as antibiotic screening.
    1. Plant Biology
    2. Structural Biology and Molecular Biophysics

    Carotenoid assembly regulates quinone diffusion and the Roseiflexus castenholzii reaction center-light harvesting complex architecture

    Jiyu Xin, Yang Shi ... Xiaoling Xu
    Investigations of the reaction center (RC)-light harvesting (LH) complex from an ancient chlorosome-less anoxygenic phototroph Roseiflexus castenholzii reveal the structural basis by which carotenoids assembly regulates the architecture and quinone exchange of bacterial RC-LH complex.
    1. Ecology
    2. Genetics and Genomics

    Viral dark matter and virus–host interactions resolved from publicly available microbial genomes

    Simon Roux, Steven J Hallam ... Matthew B Sullivan
    From public microbial genomes, VirSorter revealed 12,498 viral genome sequences that expand the map of the global virosphere and whose analyses improve understanding of viral taxonomy, evolution and virus-host interactions.
    1. Microbiology and Infectious Disease

    Highly parallelized droplet cultivation and prioritization of antibiotic producers from natural microbial communities

    Lisa Mahler, Sarah P Niehs ... Miriam A Rosenbaum
    This microscale cultivation strategy will help in the discovery of novel bacterial species and their prioritization for antibiotic screening campaigns.
    1. Biochemistry and Chemical Biology
    2. Ecology

    Molecular mechanisms of microbiome modulation by the eukaryotic secondary metabolite azelaic acid

    Ahmed A Shibl, Michael A Ochsenkühn ... Shady A Amin
    Characterization of the molecular mechanisms that enable azelaic acid, a secondary metabolite produced by photosynthetic organisms, to promote or inhibit different bacterial populations.

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