Applied and Environmental Science
Observation | Applied and Environmental ScienceStatistical Analysis of Community RNA Transcripts between Organic Carbon and Geogas-Fed Continental Deep Biosphere GroundwatersDespite being separated from the photosynthesis-driven surface by both distance and time, the deep biosphere is an important driver for the earth’s carbon and energy cycles. However, due to the difficulties in gaining access and low cell numbers, robust statistical omics studies have not been carried out, and this limits the conclusions that can be drawn. This study benchmarks the use of two separate sampling systems and demonstrates...
Editor's Pick Research Article | Applied and Environmental ScienceA Single Biosynthetic Gene Cluster Is Responsible for the Production of Bagremycin Antibiotics and Ferroverdin Iron ChelatorsAccess to whole-genome sequences has exposed the general incidence of the so-called cryptic biosynthetic gene clusters (BGCs), thereby renewing their interest for natural product discovery. As a consequence, genome mining is the often first approach implemented to assess the potential of a microorganism for producing novel bioactive metabolites. By revealing a new level of complexity of natural product biosynthesis, we further...
Research Article | Applied and Environmental ScienceStreamlined Genetic Manipulation of Diverse Bacteroides and Parabacteroides Isolates from the Human Gut MicrobiotaWe have entered an era when studies of the gut microbiota are transitioning from basic questions of composition and host effects to understanding the microbial molecules that underlie compositional shifts and mediate health and disease processes. The importance of the gut Bacteroidales to human health and disease and their potential as a source of engineered live biotherapeutics make these bacteria of particular interest for in...
Research Article | Applied and Environmental ScienceA Central Small RNA Regulatory Circuit Controlling Bacterial Denitrification and N2O EmissionsN2O is an important greenhouse gas and a major cause of ozone depletion. Denitrifying bacteria play vital roles in the production and consumption of N2O in many environments. Complete denitrification consists of the conversion of a soluble N-oxyanion, nitrate (NO3-), to an inert gaseous N-oxide, dinitrogen (N2). Incomplete denitrification can occur if conditions are prohibitive, for...
Author Reply | Applied and Environmental ScienceReply to Sun et al., “Identifying Composition Novelty in Microbiome Studies: Improvement of Prediction Accuracy”
Letter to the Editor | Applied and Environmental ScienceIdentifying Composition Novelty in Microbiome Studies: Improvement for Prediction Accuracy
Letter to the Editor | Applied and Environmental SciencePrecedence for the Role of Indole with Pathogens
Research Article | Applied and Environmental ScienceSynthetic Methane-Consuming Communities from a Natural Lake SedimentThe metabolism of methane is an important part of the global carbon cycle. While deciphering the community function and the potential role of the different functional guilds is very difficult when considering native complex communities, synthetic communities, built of species originating from a study site in question, present a simplified model and allow specific questions to be addressed as to carbon, nitrogen, and other nutrient...
Research Article | Applied and Environmental ScienceSulfur-Oxidizing Symbionts without Canonical Genes for Autotrophic CO2 FixationMany animals and protists depend on symbiotic sulfur-oxidizing bacteria as their main food source. These bacteria use energy from oxidizing inorganic sulfur compounds to make biomass autotrophically from CO2, serving as primary producers for their hosts. Here we describe a clade of nonautotrophic sulfur-oxidizing symbionts, “Candidatus Kentron,” associated with marine ciliates. They lack genes for known autotrophic...
Research Article | Applied and Environmental ScienceBacteria Floc, but Do They Flock? Insights from Population Interaction Models of Quorum SensingOur modeling efforts show how cell density can affect chemotaxis; they help to explain the roots of subgroup formation in bacterial populations. Our work also reinforces the notion that bacterial mechanisms are at times exhibited in higher-order organisms.