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Molecular Biology and Physiology

  • Open Access
    Global Screening of Genomic and Transcriptomic Factors Associated with Phenotype Differences between Multidrug-Resistant and -Susceptible <span class="named-content genus-species" id="named-content-1">Candida haemulonii</span> Strains
    Research Article | Molecular Biology and Physiology
    Global Screening of Genomic and Transcriptomic Factors Associated with Phenotype Differences between Multidrug-Resistant and -Susceptible Candida haemulonii Strains

    A comprehensive, multi-omic survey was performed to disclose the genetic backgrounds and differences between multidrug-resistant and -susceptible C. haemulonii strains. Genes were identified with mutations or significant expression differences in multidrug-resistant compared to multidrug-susceptible strains, which were mainly involved in multidrug resistance, stress...

    Hao Zhang, Yifei Niu, Jingwen Tan, Weixia Liu, Ming-an Sun, Ence Yang, Qian Wang, Ruoyu Li, Yejun Wang, Wei Liu
  • Open Access
    Genomewide and Enzymatic Analysis Reveals Efficient <span class="sc">d</span>-Galacturonic Acid Metabolism in the Basidiomycete Yeast <span class="named-content genus-species" id="named-content-1">Rhodosporidium toruloides</span>
    Research Article | Molecular Biology and Physiology
    Genomewide and Enzymatic Analysis Reveals Efficient d-Galacturonic Acid Metabolism in the Basidiomycete Yeast Rhodosporidium toruloides

    The switch from the traditional fossil-based industry to a green and sustainable bioeconomy demands the complete utilization of renewable feedstocks. Many currently used bioconversion hosts are unable to utilize major components of plant biomass, warranting the identification of microorganisms with broader catabolic capacity and characterization of their unique biochemical pathways. d-Galacturonic acid is a plant...

    Ryan J. Protzko, Christina A. Hach, Samuel T. Coradetti, Magdalena A. Hackhofer, Sonja Magosch, Nils Thieme, Gina M. Geiselman, Adam P. Arkin, Jeffrey M. Skerker, John E. Dueber, J. Philipp Benz
  • Open Access
    Regulation of AmpC-Driven β-Lactam Resistance in <span class="named-content genus-species" id="named-content-1">Pseudomonas aeruginosa</span>: Different Pathways, Different Signaling
    Research Article | Molecular Biology and Physiology
    Regulation of AmpC-Driven β-Lactam Resistance in Pseudomonas aeruginosa: Different Pathways, Different Signaling

    The extensive use of β-lactam antibiotics and the bacterial adaptive capacity have led to the apparently unstoppable increase of antimicrobial resistance, one of the current major global health challenges. In the leading nosocomial pathogen Pseudomonas aeruginosa, the mutation-driven AmpC β-lactamase hyperproduction stands out as the main resistance mechanism, but the...

    Gabriel Torrens, Sara Belén Hernández, Juan Alfonso Ayala, Bartolome Moya, Carlos Juan, Felipe Cava, Antonio Oliver
  • Open Access
    Conditional Hfq Association with Small Noncoding RNAs in <span class="named-content genus-species" id="named-content-1">Pseudomonas aeruginosa</span> Revealed through Comparative UV Cross-Linking Immunoprecipitation Followed by High-Throughput Sequencing
    Research Article | Molecular Biology and Physiology
    Conditional Hfq Association with Small Noncoding RNAs in Pseudomonas aeruginosa Revealed through Comparative UV Cross-Linking Immunoprecipitation Followed by High-Throughput Sequencing

    The Gram-negative bacterium P. aeruginosa is ubiquitously distributed in diverse environments and can cause severe biofilm-related infections in at-risk individuals. Although the presence of a large number of putative sRNAs and widely conserved RNA chaperones in this bacterium implies the importance of posttranscriptional regulatory networks for environmental...

    Kotaro Chihara, Thorsten Bischler, Lars Barquist, Vivian A. Monzon, Naohiro Noda, Jörg Vogel, Satoshi Tsuneda
  • Open Access
    Chemogenomic Screen for Imipenem Resistance in Gram-Negative Bacteria
    Research Article | Molecular Biology and Physiology
    Chemogenomic Screen for Imipenem Resistance in Gram-Negative Bacteria

    Gram-negative carbapenem-resistant bacteria are a major threat to global health. The use of genome-wide screening approaches to probe for genes or mutations enabling resistance can lead to identification of molecular markers for diagnostics applications. We describe an approach called Mut-Seq that couples chemical mutagenesis and next-generation sequencing for studying resistance to imipenem in the Gram-negative bacteria...

    Jessica Y. El Khoury, Alexandra Maure, Hélène Gingras, Philippe Leprohon, Marc Ouellette
  • Open Access
    Metabolic Modeling of <span class="named-content genus-species" id="named-content-1">Streptococcus mutans</span> Reveals Complex Nutrient Requirements of an Oral Pathogen
    Research Article | Molecular Biology and Physiology
    Metabolic Modeling of Streptococcus mutans Reveals Complex Nutrient Requirements of an Oral Pathogen

    Tooth decay is the most prevalent chronic disease in the United States. Decay is caused by the bacterium Streptococcus mutans, an oral pathogen that ferments sugars into tooth-destroying lactic acid. We constructed a complete metabolic model of S. mutans to systematically investigate how the...

    Kenan Jijakli, Paul A. Jensen
  • Open Access
    Genomewide Analysis of Mode of Action of the <em>S</em>-Adenosylmethionine Analogue Sinefungin in <span class="named-content genus-species" id="named-content-1">Leishmania infantum</span>
    Research Article | Molecular Biology and Physiology
    Genomewide Analysis of Mode of Action of the S-Adenosylmethionine Analogue Sinefungin in Leishmania infantum

    The two main cellular metabolic one-carbon donors are reduced folates and S-adenosylmethionine, whose biosynthetic pathways have proven highly effective in chemotherapeutic interventions in various cell types. Sinefungin, a nucleoside analogue of S-adenosylmethionine, was shown to have potent activity against the protozoan parasite Leishmania. Here, we studied resistance to sinefungin using whole-genome...

    Arijit Bhattacharya, Mansi Sharma, Charles Packianathan, Barry P. Rosen, Philippe Leprohon, Marc Ouellette
  • Open Access
    Conserved Central Intraviral Protein Interactome of the <em>Herpesviridae</em> Family
    Research Article | Molecular Biology and Physiology
    Conserved Central Intraviral Protein Interactome of the Herpesviridae Family

    Herpesviruses are an important socioeconomic burden for both humans and livestock. Throughout their long evolutionary history, individual herpesvirus species have developed remarkable host specificity, while collectively the Herpesviridae family has evolved to infect a large variety of eukaryotic hosts. The development of approaches to fight herpesvirus infections has been hampered by the complexity of herpesviruses’ genomes,...

    Anna Hernández Durán, Kay Grünewald, Maya Topf
  • Open Access
    Complex Responses to Hydrogen Peroxide and Hypochlorous Acid by the Probiotic Bacterium <span class="named-content genus-species" id="named-content-1">Lactobacillus reuteri</span>
    Research Article | Molecular Biology and Physiology
    Complex Responses to Hydrogen Peroxide and Hypochlorous Acid by the Probiotic Bacterium Lactobacillus reuteri

    Reactive oxidants, including hydrogen peroxide and hypochlorous acid, are antimicrobial compounds produced by the immune system during inflammation. Little is known, however, about how many important types of bacteria present in the human microbiome respond to these oxidants, especially commensal and other health-associated species. We have now mapped the stress response to both H2O2 and HOCl in the intestinal...

    Poulami Basu Thakur, Abagail R. Long, Benjamin J. Nelson, Ranjit Kumar, Alexander F. Rosenberg, Michael J. Gray
  • Open Access
    Sulfur Assimilation Alters Flagellar Function and Modulates the Gene Expression Landscape of <span class="named-content genus-species" id="named-content-1">Serratia marcescens</span>
    Research Article | Molecular Biology and Physiology
    Sulfur Assimilation Alters Flagellar Function and Modulates the Gene Expression Landscape of Serratia marcescens

    Serratia marcescens is a versatile bacterial species that inhabits diverse environmental niches and is capable of pathogenic interactions with host organisms ranging from insects to humans. This report demonstrates for the first time the extensive impacts that environmental sulfate availability and cysteine biosynthesis have on the transcriptome of...

    Mark T. Anderson, Lindsay A. Mitchell, Anna Sintsova, Katherine A. Rice, Harry L. T. Mobley

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