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Applied and Environmental Science

  • Open Access
    Identifying and Predicting Novelty in Microbiome Studies
    Research Article | Applied and Environmental Science
    Identifying and Predicting Novelty in Microbiome Studies

    We introduce two concepts to quantify the novelty of a microbiome. The first, the microbiome novelty score (MNS), allows identification of microbiomes that are especially different from what is already sequenced. The second, the microbiome attention score (MAS), allows identification of microbiomes that have many close neighbors, implying that considerable scientific attention is devoted to their study. By computing a microbiome focus...

    Xiaoquan Su, Gongchao Jing, Daniel McDonald, Honglei Wang, Zengbin Wang, Antonio Gonzalez, Zheng Sun, Shi Huang, Jose Navas, Rob Knight, Jian Xu
  • Open Access
    Members of the Genus <em>Methylobacter</em> Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland
    Research Article | Applied and Environmental Science
    Members of the Genus Methylobacter Are Inferred To Account for the Majority of Aerobic Methane Oxidation in Oxic Soils from a Freshwater Wetland

    Here we used soil metagenomics and metatranscriptomics to uncover novel members within the genus Methylobacter. We denote these closely related genomes as members of the lineage OWC Methylobacter. Despite the incredibly high microbial diversity in soils, here we present findings that unexpectedly showed that methane cycling was primarily mediated by a single genus for both methane production (“Candidatus...

    Garrett J. Smith, Jordan C. Angle, Lindsey M. Solden, Mikayla A. Borton, Timothy H. Morin, Rebecca A. Daly, Michael D. Johnston, Kay C. Stefanik, Richard Wolfe, Bohrer Gil, Kelly C. Wrighton
  • Open Access
    Research Article | Applied and Environmental Science
    Engineering Kluyveromyces marxianus as a Robust Synthetic Biology Platform Host

    The yeast Kluyveromyces marxianus grows at high temperatures and on a wide range of carbon sources, making it a promising host for industrial biotechnology to produce renewable chemicals from plant biomass feedstocks. However, major genetic engineering limitations have kept this yeast from replacing the commonly used yeast...

    Paul Cernak, Raissa Estrela, Snigdha Poddar, Jeffrey M. Skerker, Ya-Fang Cheng, Annika K. Carlson, Berling Chen, Victoria M. Glynn, Monique Furlan, Owen W. Ryan, Marie K. Donnelly, Adam P. Arkin, John W. Taylor, Jamie H. D. Cate

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