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genomics

  • Phylogenetic and Biogeographic Patterns of <span class="named-content genus-species" id="named-content-1">Vibrio parahaemolyticus</span> Strains from North America Inferred from Whole-Genome Sequence Data
    Public and Environmental Health Microbiology
    Phylogenetic and Biogeographic Patterns of Vibrio parahaemolyticus Strains from North America Inferred from Whole-Genome Sequence Data

    Vibrio parahaemolyticus is the most common cause of seafood-borne illness reported in the United States and is frequently associated with shellfish consumption. This study contributes to our knowledge of the biogeography and functional genomics of this species around North America.

    John J. Miller, Bart C. Weimer, Ruth Timme, Catharina H. M. Lüdeke, James B. Pettengill, D. J. Darwin Bandoy, Allison M. Weis, James Kaufman, B. Carol Huang, Justin Payne, Errol Strain, Jessica L. Jones
  • Key Enzymes for Anaerobic Lactate Metabolism in <span class="named-content genus-species" id="named-content-1">Geobacter sulfurreducens</span>
    Physiology
    Key Enzymes for Anaerobic Lactate Metabolism in Geobacter sulfurreducens

    Lactate is a microbial fermentation product as well as a source of carbon and electrons for microorganisms in the environment. Furthermore, lactate is a common amendment for stimulation of microbial growth in environmental biotechnology applications. However, anaerobic metabolism of lactate has been poorly studied for environmentally relevant microorganisms. Geobacter species are found in various environments and environmental...

    Toshiyuki Ueki
  • Open Access
    Identification of Natural Mutations Responsible for Altered Infection Phenotypes of <span class="named-content genus-species" id="named-content-1">Salmonella enterica</span> Clinical Isolates by Using Cell Line Infection Screens
    Genetics and Molecular Biology
    Identification of Natural Mutations Responsible for Altered Infection Phenotypes of Salmonella enterica Clinical Isolates by Using Cell Line Infection Screens

    Salmonella is a foodborne pathogen affecting over 200 million people and resulting in over 200,000 fatal cases per year. Its adhesion to and invasion into intestinal epithelial cells represent one of the first and key steps in the pathogenesis of salmonellosis. Still, around 35 to 40% of bacterial genes have no experimentally validated function, and their contribution to bacterial virulence, including adhesion and invasion,...

    Rafał Kolenda, Michał Burdukiewicz, Marcjanna Wimonć, Adrianna Aleksandrowicz, Aamir Ali, Istvan Szabo, Karsten Tedin, Josefin Bartholdson Scott, Derek Pickard, Peter Schierack
  • Genome-Wide Identification of Host-Segregating Single-Nucleotide Polymorphisms for Source Attribution of Clinical <span class="named-content genus-species" id="named-content-1">Campylobacter coli</span> Isolates
    Environmental Microbiology
    Genome-Wide Identification of Host-Segregating Single-Nucleotide Polymorphisms for Source Attribution of Clinical Campylobacter coli Isolates

    Genome-wide and source attribution studies based on Campylobacter species have shown their importance for the understanding of foodborne infections. Although the use of multilocus sequence typing based on 7 genes from C. jejuni is a powerful method to structure populations, when applied to C. coli...

    Quentin Jehanne, Ben Pascoe, Lucie Bénéjat, Astrid Ducournau, Alice Buissonnière, Evangelos Mourkas, Francis Mégraud, Emilie Bessède, Samuel K. Sheppard, Philippe Lehours
  • Mutant and Recombinant Phages Selected from <em>In Vitro</em> Coevolution Conditions Overcome Phage-Resistant <span class="named-content genus-species" id="named-content-1">Listeria monocytogenes</span>
    Evolutionary and Genomic Microbiology
    Mutant and Recombinant Phages Selected from In Vitro Coevolution Conditions Overcome Phage-Resistant Listeria monocytogenes

    Listeria monocytogenes is a life-threatening bacterial foodborne pathogen that can persist in food processing facilities for years. Phages can be used to control L. monocytogenes in food production, but phage-resistant bacterial subpopulations can regrow in phage-treated environments. Coevolution...

    Tracey Lee Peters, Yaxiong Song, Daniel W. Bryan, Lauren K. Hudson, Thomas G. Denes
  • Genetic and Phenotypic Factors Associated with Persistent Shedding of Shiga Toxin-Producing <span class="named-content genus-species" id="named-content-1">Escherichia coli</span> by Beef Cattle
    Environmental Microbiology
    Genetic and Phenotypic Factors Associated with Persistent Shedding of Shiga Toxin-Producing Escherichia coli by Beef Cattle

    Food animal reservoirs contribute to Shiga toxin-producing Escherichia coli (STEC) evolution via the acquisition of horizontally acquired elements like Shiga toxin bacteriophages that enhance pathogenicity. In cattle, persistent fecal shedding of STEC contributes to contamination of beef and dairy products and to crops being exposed to contaminated water systems....

    Heather M. Blankenship, Samantha Carbonell, Rebekah E. Mosci, Karen McWilliams, Karen Pietrzen, Scott Benko, Ted Gatesy, Daniel Grooms, Shannon D. Manning
  • Open Access
    Mapping the Efficacy and Mode of Action of Ethylzingerone [4-(3-Ethoxy-4-Hydroxyphenyl) Butan-2-One] as an Active Agent against <em>Burkholderia</em> Bacteria
    Environmental Microbiology
    Mapping the Efficacy and Mode of Action of Ethylzingerone [4-(3-Ethoxy-4-Hydroxyphenyl) Butan-2-One] as an Active Agent against Burkholderia Bacteria

    Burkholderia bacteria are opportunistic pathogens that can overcome preservatives used in the manufacture of nonsterile industrial products and occasionally cause contamination. Consequently, new preservatives to prevent the growth of key risk Burkholderia cepacia complex bacteria in nonfood industrial products are urgently required. Here, we show that...

    Laura Rushton, Ahmad Khodr, Florence Menard-Szczebara, Jean-Yves Maillard, Sylvie Cupferman, Eshwar Mahenthiralingam
  • Genomic Landscape of <span class="named-content genus-species" id="named-content-1">Ornithobacterium rhinotracheale</span> in Commercial Turkey Production in the United States
    Environmental Microbiology
    Genomic Landscape of Ornithobacterium rhinotracheale in Commercial Turkey Production in the United States

    The whole-genome approach enhances our understanding of evolutionary relationships between clinical Ornithobacterium rhinotracheale isolates from different commercial turkey producers and allows for identification of genes associated with virulence, antimicrobial resistance, or mobile genetic elements that are often excluded using traditional typing methods....

    Emily A. Smith, Elizabeth A. Miller, Bonnie P. Weber, Jeannette Munoz Aguayo, Cristian Flores Figueroa, Jared Huisinga, Jill Nezworski, Michelle Kromm, Ben Wileman, Timothy J. Johnson
  • Oxidative Catabolism of (+)-Pinoresinol Is Initiated by an Unusual Flavocytochrome Encoded by Translationally Coupled Genes within a Cluster of (+)-Pinoresinol-Coinduced Genes in <em>Pseudomonas</em> sp. Strain SG-MS2
    Biodegradation | Spotlight
    Oxidative Catabolism of (+)-Pinoresinol Is Initiated by an Unusual Flavocytochrome Encoded by Translationally Coupled Genes within a Cluster of (+)-Pinoresinol-Coinduced Genes in Pseudomonas sp. Strain SG-MS2

    (+)-Pinoresinol is an important plant defense compound, a major food lignan for humans and some other animals, and the model compound used to study degradation of the β-β′ linkages in lignin. We report a gene cluster, in one strain each of Pseudomonas and Burkholderia, that is involved in the oxidative catabolism of (+)-pinoresinol. The flavoprotein component of the α-hydroxylase which heads the pathway belongs to the...

    Madhura Shettigar, Sahil Balotra, Annette Kasprzak, Stephen L. Pearce, Michael J. Lacey, Matthew C. Taylor, Jian-Wei Liu, David Cahill, John G. Oakeshott, Gunjan Pandey
  • Open Access
    Dissemination of Quinolone-Resistant <span class="named-content genus-species" id="named-content-1">Escherichia coli</span> in the Norwegian Broiler and Pig Production Chains and Possible Persistence in the Broiler Production Environment
    Evolutionary and Genomic Microbiology
    Dissemination of Quinolone-Resistant Escherichia coli in the Norwegian Broiler and Pig Production Chains and Possible Persistence in the Broiler Production Environment

    Since antimicrobial usage is low in Norwegian animal husbandry, Norway is an ideal country to study antimicrobial resistance in the absence of selective pressure from antimicrobial usage. In particular, the usage of quinolones is very low, which makes it possible to investigate the spread and development of quinolone resistance in natural environments. Comparison of quinolone-resistant...

    Håkon Kaspersen, Camilla Sekse, Eve Zeyl Fiskebeck, Jannice Schau Slettemeås, Roger Simm, Madelaine Norström, Anne Margrete Urdahl, Karin Lagesen

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