220 results found
    1. Microbiology and Infectious Disease

    Functional metagenomics-guided discovery of potent Cas9 inhibitors in the human microbiome

    Kevin J Forsberg, Ishan V Bhatt ... Harmit S Malik
    A high-throughput, activity-based selection identifies many phage-derived inhibitors of Cas9 from human fecal and oral metagenomes, with at least one inhibitor acting via a novel mechanism.
    1. Chromosomes and Gene Expression
    2. Genetics and Genomics

    Metagenomic chromosome conformation capture (meta3C) unveils the diversity of chromosome organization in microorganisms

    Martial Marbouty, Axel Cournac ... Romain Koszul
    A technique called meta3C provides an elegant and integrated approach to metagenomic analysis by allowing the de novo assembly, scaffolding and 3D characterization of unknown genomes from a complex mix of species
    1. Genetics and Genomics
    2. Microbiology and Infectious Disease

    A genome-phenome association study in native microbiomes identifies a mechanism for cytosine modification in DNA and RNA

    Weiwei Yang, Yu-Cheng Lin ... Laurence Ettwiller
    A novel DNA/RNA modifying enzyme catalyzing a previously unknown 5-carbamoyloxymethylcytosine modification has been discovered using a novel framework called Metagenomics Genome-Phenome Association.
    1. Genetics and Genomics

    Single-amino acid variants reveal evolutionary processes that shape the biogeography of a global SAR11 subclade

    Tom O Delmont, Evan Kiefl ... A Murat Eren
    An in-depth metagenomic analysis of possibly the most abundant and widespread microbial lineage in the surface ocean teases apart evolutionary processes that maintain its genomic heterogeneity and biogeography.
    1. Ecology
    2. Genetics and Genomics

    Genomic evidence for global ocean plankton biogeography shaped by large-scale current systems

    Daniel J Richter, Romain Watteaux ... Olivier Jaillon
    Analysis of genomic DNA composition of surface plankton communities reveals a stable, ocean basin-scale plankton biogeography that emerges from the intertwined effects of environmental variations and currents.
    1. Computational and Systems Biology
    2. Microbiology and Infectious Disease

    Microfluidic-based mini-metagenomics enables discovery of novel microbial lineages from complex environmental samples

    Feiqiao Brian Yu, Paul C Blainey ... Stephen R Quake
    Microfluidic-based mini-metagenomics enables the investigation of environmental microbial communities in high-throughput and with single-cell resolution, facilitating genome binning and quantification of function, abundance, and genome variation.
    1. Computational and Systems Biology

    Metage2Metabo, microbiota-scale metabolic complementarity for the identification of key species

    Arnaud Belcour, Clémence Frioux ... Anne Siegel
    Computational models and software connect metagenomics to metabolic network reconstruction, assess metabolic complementarity between species, and identify critical species associated to functions of interest.
    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. Microbiology and Infectious Disease

    Integrating taxonomic, functional, and strain-level profiling of diverse microbial communities with bioBakery 3

    Francesco Beghini, Lauren J McIver ... Nicola Segata
    The bioBakery 3 platform enables improved, integrated, and strain-level analysis of microbial communities from large-scale meta-omic data.
    1. Ecology

    Biophysical and physiological processes causing oxygen loss from coral reefs

    Cynthia B Silveira, Antoni Luque ... Forest Rohwer
    Coral reef heterotrophic bacteria and fleshy macroalgae cause oxygen loss from reef systems through microbial biomass accumulation and ebullition from algae surfaces.

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