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functional metagenomics

  • Open Access
    Microbiome and Metagenome Analyses of a Closed Habitat during Human Occupation
    Research Article | Applied and Environmental Science
    Microbiome and Metagenome Analyses of a Closed Habitat during Human Occupation

    This study provides the first assessment of monitoring cultivable and viable microorganisms on surfaces within a submerged, closed, analog habitat. The results of the analyses presented herein suggest that the surface material plays a role in microbial community structure, as the microbial populations differed between LDP and metal/glass surfaces. The metal/glass surfaces had less-complex community, lower bioburden, and more closely...

    Ganesh Babu Malli Mohan, Ceth W. Parker, Camilla Urbaniak, Nitin K. Singh, Anthony Hood, Jeremiah J. Minich, Rob Knight, Michelle Rucker, Kasthuri Venkateswaran
  • Open Access
    Dairy Products and Dairy-Processing Environments as a Reservoir of Antibiotic Resistance and Quorum-Quenching Determinants as Revealed through Functional Metagenomics
    Research Article | Applied and Environmental Science
    Dairy Products and Dairy-Processing Environments as a Reservoir of Antibiotic Resistance and Quorum-Quenching Determinants as Revealed through Functional Metagenomics

    The study shows the potential of functional metagenomics analyses to uncover the diversity of functions in microbial communities prevailing in dairy products and their processing environments, evidencing that lactic acid bacteria (LAB) dominate the cheese microbiota, whereas Gram-negative microorganisms of animal or soil origin dominate the microbiota of milk and cheese-processing environments. The functional and in silico...

    Elena A. Alexa (Oniciuc), Calum J. Walsh, Laura M. Coughlan, Amal Awad, Cezara A. Simon, Lorena Ruiz, Fiona Crispie, Paul D. Cotter, Avelino Alvarez-Ordóñez
  • Open Access
    Developing a <em>Bacteroides</em> System for Function-Based Screening of DNA from the Human Gut Microbiome
    Research Article | Novel Systems Biology Techniques
    Developing a Bacteroides System for Function-Based Screening of DNA from the Human Gut Microbiome

    Human gut microbiome research has been supported by advances in DNA sequencing that make it possible to obtain gigabases of sequence data from metagenomes but is limited by a lack of knowledge of gene function that leads to incomplete annotation of these data sets. There is a need for the development of methods that can provide experimental data regarding microbial gene function. Functional metagenomics is one such method, but...

    Kathy N. Lam, Eric C. Martens, Trevor C. Charles
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