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Table of Contents

February 2020; Volume 86,Issue 3

Spotlight

  • Free
    Articles of Significant Interest in This Issue
    Spotlight
    Articles of Significant Interest in This Issue

Biodegradation

  • Open Access
    Anaerobic Degradation of Syringic Acid by an Adapted Strain of <span class="named-content genus-species" id="named-content-1">Rhodopseudomonas palustris</span>
    Biodegradation
    Anaerobic Degradation of Syringic Acid by an Adapted Strain of Rhodopseudomonas palustris

    Lignin is the most abundant aromatic polymer on Earth and a resource that could eventually substitute for fossil fuels as a source of aromatic compounds for industrial and biotechnological applications. Engineering microorganisms for the production of aromatic-based biochemicals requires detailed knowledge of the metabolic pathways for the degradation of aromatics that are present in lignin. Our isolation and analysis of a...

    J. Zachary Oshlag, Yanjun Ma, Kaitlin Morse, Brian T. Burger, Rachelle A. Lemke, Steven D. Karlen, Kevin S. Myers, Timothy J. Donohue, Daniel R. Noguera

Biotechnology

  • Impact of Classical Strain Improvement of <em>Penicillium rubens</em> on Amino Acid Metabolism during β-Lactam Production
    Biotechnology
    Impact of Classical Strain Improvement of Penicillium rubens on Amino Acid Metabolism during β-Lactam Production

    Penicillium rubens is an important industrial producer of β-lactam antibiotics. High levels of penicillin production were enforced through extensive mutagenesis during a classical strain improvement (CSI) program over 70 years. Several mutations targeted amino acid metabolism and resulted in enhanced l-cysteine biosynthesis. This work provides a molecular explanation for the interrelation between...

    Min Wu, Ciprian G. Crismaru, Oleksandr Salo, Roel A. L. Bovenberg, Arnold J. M. Driessen
  • Open Access
    <em>In Situ</em> Activation and Heterologous Production of a Cryptic Lantibiotic from an African Plant Ant-Derived <em>Saccharopolyspora</em> Species
    Biotechnology
    In Situ Activation and Heterologous Production of a Cryptic Lantibiotic from an African Plant Ant-Derived Saccharopolyspora Species

    The discovery of novel antibiotics to tackle the growing threat of antimicrobial resistance is impeded by difficulties in accessing the full biosynthetic potential of microorganisms. The development of new tools to unlock the biosynthesis of cryptic bacterial natural products will greatly increase the repertoire of natural product scaffolds. Here, we report a strategy for the ectopic expression of pathway-specific positive regulators...

    Eleni Vikeli, David A. Widdick, Sibyl F. D. Batey, Daniel Heine, Neil A. Holmes, Mervyn J. Bibb, Dino J. Martins, Naomi E. Pierce, Matthew I. Hutchings, Barrie Wilkinson
  • Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast <span class="named-content genus-species" id="named-content-1">Yarrowia lipolytica</span>
    Biotechnology
    Understanding and Eliminating the Detrimental Effect of Thiamine Deficiency on the Oleaginous Yeast Yarrowia lipolytica

    Thiamine plays a crucial role as an essential cofactor for enzymes involved in carbon and energy metabolism in all living cells. Thiamine deficiency has detrimental consequences for cellular health. Yarrowia lipolytica, a nonconventional oleaginous yeast with broad biotechnological applications, is a native thiamine auxotroph whose affected cellular metabolism is not...

    Caleb Walker, Seunghyun Ryu, Richard J. Giannone, Sergio Garcia, Cong T. Trinh
  • New Sipanmycin Analogues Generated by Combinatorial Biosynthesis and Mutasynthesis Approaches Relying on the Substrate Flexibility of Key Enzymes in the Biosynthetic Pathway
    Biotechnology
    New Sipanmycin Analogues Generated by Combinatorial Biosynthesis and Mutasynthesis Approaches Relying on the Substrate Flexibility of Key Enzymes in the Biosynthetic Pathway

    Combinatorial biosynthesis has proved its usefulness in generating derivatives of already known compounds with novel or improved pharmacological properties. Sipanmycins are a family of glycosylated macrolactams produced by Streptomyces sp. strain CS149, whose antiproliferative activity is dependent on the sugar moieties attached to the aglycone. In this work, we report the generation of several sipanmycin analogues with...

    Mónica G. Malmierca, Ignacio Pérez-Victoria, Jesús Martín, Fernando Reyes, Carmen Méndez, José A. Salas, Carlos Olano

Environmental Microbiology

  • Viral Attachment to Biotic and Abiotic Surfaces in Seawater
    Environmental Microbiology | Spotlight
    Viral Attachment to Biotic and Abiotic Surfaces in Seawater

    Viruses play important roles in altering microbial community structure and biogeochemical cycles in marine environments. Viral attachment to nonhost surfaces can influence host viral infection rates; however, the prevalence of viral attachment to nonhost surfaces and the ratio of attached viruses to total viruses are little known. We used coastal seawater viral assemblages and used marine vibriophage (SIO-2) and enterobacteriophages (T2...

    Yosuke Yamada, Ryan Guillemette, Anne-Claire Baudoux, Nirav Patel, Farooq Azam
  • Multiple Megaplasmids Confer Extremely High Levels of Metal Tolerance in <em>Alteromonas</em> Strains
    Environmental Microbiology
    Multiple Megaplasmids Confer Extremely High Levels of Metal Tolerance in Alteromonas Strains

    Copper is commonly used as an antifouling agent on ship hulls. Alteromonas spp. are early colonizers of copper-based antifouling paint, but their mechanism of tolerance is poorly understood. Sequencing of A. macleodii strains isolated from copper test materials for marine ships indicated the presence of multiple megaplasmids. Plasmids serve as key vectors in horizontal gene transfer and confer traits such as metal...

    Kathleen D. Cusick, Shawn W. Polson, Gabriel Duran, Russell T. Hill
  • Structural and Functional Dynamics of Soil Microbes following Spruce Beetle Infestation
    Environmental Microbiology
    Structural and Functional Dynamics of Soil Microbes following Spruce Beetle Infestation

    Belowground impacts of bark beetle infestation have not been explored as thoroughly as their aboveground counterparts. In order to accurately model impacts of bark beetle-induced tree mortality on carbon and nutrient cycling and forest regeneration, the intricacies of soil microbial communities must be examined. In this study, we investigated the structure and function of soil bacterial and fungal communities following bark beetle...

    Gordon F. Custer, Linda T. A. van Diepen, William L. Stump
  • Open Access
    Medium-Chain Fatty Acid Synthesis by “<em>Candidatus</em> Weimeria bifida” gen. nov., sp. nov., and “<em>Candidatus</em> Pseudoramibacter fermentans” sp. nov.
    Environmental Microbiology | Spotlight
    Medium-Chain Fatty Acid Synthesis by “Candidatus Weimeria bifida” gen. nov., sp. nov., and “Candidatus Pseudoramibacter fermentans” sp. nov.

    Chain elongation by medium-chain fatty acid (MCFA)-producing microbiomes offers an opportunity to produce valuable chemicals from organic streams that would otherwise be considered waste. However, the physiology and energetics of chain elongation are only beginning to be studied, and many of these organisms remain uncultured. We analyzed MCFA production by two uncultured organisms that were identified as the main MCFA producers in a...

    Matthew J. Scarborough, Kevin S. Myers, Timothy J. Donohue, Daniel R. Noguera
  • Dynamics of Solitary Predation by <span class="named-content genus-species" id="named-content-1">Myxococcus xanthus</span> on <span class="named-content genus-species" id="named-content-2">Escherichia coli</span> Observed at the Single-Cell Level
    Environmental Microbiology | Spotlight
    Dynamics of Solitary Predation by Myxococcus xanthus on Escherichia coli Observed at the Single-Cell Level

    Bacterial predation plays multiple essential roles in bacterial selection and mortality within microbial ecosystems. In addition to its ecological and evolutionary importance, many potential applications of bacterial predation have been proposed. The myxobacterium Myxococcus xanthus is a well-known predatory member of the soil microbial community. Its predation is...

    Wenchao Zhang, Yan Wang, Huining Lu, Qin Liu, Chuandong Wang, Wei Hu, Kun Zhao

Evolutionary and Genomic Microbiology

  • Emergence of a Plant Pathogen in Europe Associated with Multiple Intercontinental Introductions
    Evolutionary and Genomic Microbiology
    Emergence of a Plant Pathogen in Europe Associated with Multiple Intercontinental Introductions

    Xylella fastidiosa is an economically important plant-pathogenic bacterium that has emerged as a pathogen of global importance associated with a devastating epidemic in olive trees in Italy associated with X. fastidiosa subspecies pauca and other outbreaks in Europe, such as...

    Blanca B. Landa, Andreina I. Castillo, Annalisa Giampetruzzi, Alexandra Kahn, Miguel Román-Écija, María Pilar Velasco-Amo, Juan A. Navas-Cortés, Ester Marco-Noales, Silvia Barbé, Eduardo Moralejo, Helvecio D. Coletta-Filho, Pasquale Saldarelli, Maria Saponari, Rodrigo P. P. Almeida
  • Epidemiology of <em>Salmonella enterica</em> Serovar Dublin in Cattle and Humans in Denmark, 1996 to 2016: a Retrospective Whole-Genome-Based Study
    Evolutionary and Genomic Microbiology
    Epidemiology of Salmonella enterica Serovar Dublin in Cattle and Humans in Denmark, 1996 to 2016: a Retrospective Whole-Genome-Based Study

    S. Dublin causes economic losses in cattle production, and the bacterium is a public health concern. A surveillance and control program has been in place in Denmark since 2002 with the ultimate goal to eradicate S. Dublin from Danish cattle herds; however, a small proportion of herds have remained positive for many years. In this study, we demonstrate that herds with persistent infection often were infected with the...

    Eglė Kudirkiene, Gitte Sørensen, Mia Torpdahl, Leonardo V. de Knegt, Liza R. Nielsen, Erik Rattenborg, Shahana Ahmed, John E. Olsen

Food Microbiology

  • A Plasmid-Encoded Putative Glycosyltransferase Is Involved in Hop Tolerance and Beer Spoilage in <span class="named-content genus-species" id="named-content-1">Lactobacillus brevis</span>
    Food Microbiology
    A Plasmid-Encoded Putative Glycosyltransferase Is Involved in Hop Tolerance and Beer Spoilage in Lactobacillus brevis

    Lactobacillus brevis is a member of the lactic acid bacteria and is often reported as the causative agent of food or beverage spoilage, in particular, that of beer. Bacterial spoilage of beer may result in product withdrawal or recall, with concomitant economic losses for the brewing industry. A very limited number of genes involved in beer spoilage have been...

    Marine Feyereisen, Jennifer Mahony, Tadhg O’Sullivan, Viktor Boer, Douwe van Sinderen

Genetics and Molecular Biology

  • The Transcriptional Regulator HbxA Governs Development, Secondary Metabolism, and Virulence in <span class="named-content genus-species" id="named-content-1">Aspergillus fumigatus</span>
    Genetics and Molecular Biology
    The Transcriptional Regulator HbxA Governs Development, Secondary Metabolism, and Virulence in Aspergillus fumigatus

    The number of immunodepressed individuals is increasing, mainly due to the greater life expectancy in immunodepressed patients due to improvements in modern medical treatments. However, this population group is highly susceptible to invasive aspergillosis. This devastating illness, mainly caused by the fungus Aspergillus fumigatus, is associated with mortality rates...

    Timothy Satterlee, Binita Nepal, Sophie Lorber, Olivier Puel, Ana M. Calvo

Invertebrate Microbiology

  • Influences of a Prolific Gut Fungus (<em>Zancudomyces culisetae</em>) on Larval and Adult Mosquito (<span class="named-content genus-species" id="named-content-1">Aedes aegypti</span>)-Associated Microbiota
    Invertebrate Microbiology
    Influences of a Prolific Gut Fungus (Zancudomyces culisetae) on Larval and Adult Mosquito (Aedes aegypti)-Associated Microbiota

    Mosquitoes are widespread vectors of numerous human pathogens and harbor microbiota known to affect host phenotypic traits. However, little research has directly investigated how bacterial communities associated with larvae and adults are connected. We characterized whole-body bacterial communities in mosquito larvae preceding pupation and in newly emerged adults, and investigated whether a significant biotic factor, fungal colonization...

    Jonas Frankel-Bricker, Sven Buerki, Kevin P. Feris, Merlin M. White

Microbial Ecology

  • Short-Chain <em>N</em>-Acylhomoserine Lactone Quorum-Sensing Molecules Promote Periodontal Pathogens in <em>In Vitro</em> Oral Biofilms
    Microbial Ecology
    Short-Chain N-Acylhomoserine Lactone Quorum-Sensing Molecules Promote Periodontal Pathogens in In Vitro Oral Biofilms

    Dental plaque is omnipresent in healthy oral cavities and part of our commensal microbial colonization. At the same time, dental plaque is the cause of the most common human diseases, caries and gum disease. Dental plaque consists of billions of microbes attached to the surface of your teeth. Communication among these microbes is pivotal for development of these complex communities yet poorly studied in dental plaque. In the present...

    Andrea Muras, Celia Mayer, Paz Otero-Casal, Rob A. M. Exterkate, Bernd W. Brandt, Wim Crielaard, Ana Otero, Bastiaan P. Krom
  • Open Access
    Comparative Genomics Guides Elucidation of Vitamin B<sub>12</sub> Biosynthesis in Novel Human-Associated <em>Akkermansia</em> Strains
    Microbial Ecology
    Comparative Genomics Guides Elucidation of Vitamin B12 Biosynthesis in Novel Human-Associated Akkermansia Strains

    There is significant interest in the therapeutic and probiotic potential of the common gut bacterium Akkermansia muciniphila. However, knowledge of both the genomic and physiological diversity of this bacterial lineage is limited. Using a combination of genomic, molecular biological, and traditional microbiological approaches, we identified at least four species-level...

    Nina Kirmiz, Kadir Galindo, Karissa L. Cross, Estefani Luna, Nicholas Rhoades, Mircea Podar, Gilberto E. Flores
  • Responses of Marine Diatom <span class="named-content genus-species" id="named-content-1">Skeletonema marinoi</span> to Nutrient Deficiency: Programmed Cell Death
    Microbial Ecology
    Responses of Marine Diatom Skeletonema marinoi to Nutrient Deficiency: Programmed Cell Death

    Our study showed how the ubiquitous diatom S. marinoi responded to different nutrient limitations with PCD in terms of physiological, morphological, biochemical, and molecular characteristics. Some PCD-related genes (PDCD4, GOX, and HSP90) induced by N deficiency were relatively upregulated compared to those induced by P deficiency. In contrast, the expression of the...

    Hualong Wang, Feng Chen, Tiezhu Mi, Qian Liu, Zhigang Yu, Yu Zhen

Physiology

  • Fungal Seed Pathogens of Wild Chili Peppers Possess Multiple Mechanisms To Tolerate Capsaicinoids
    Physiology
    Fungal Seed Pathogens of Wild Chili Peppers Possess Multiple Mechanisms To Tolerate Capsaicinoids

    Plants make chemical compounds to protect themselves. For example, chili peppers produce the spicy compound capsaicin to inhibit pathogen damage and animal feeding. In humans, capsaicin binds to a membrane channel protein, creating the sensation of heat, while in microbes, capsaicin limits energy production by binding respiratory enzymes. However, some data suggest that capsaicin also disrupts membranes. Here, we studied fungal...

    Catharine A. Adams, Kolea Zimmerman, Kristi Fenstermacher, Mitchell G. Thompson, Will Skyrud, Scott Behie, Anne Pringle
  • Quantifying the Benefit of a Dedicated “Magnetoskeleton” in Bacterial Magnetotaxis by Live-Cell Motility Tracking and Soft Agar Swimming Assay
    Physiology
    Quantifying the Benefit of a Dedicated “Magnetoskeleton” in Bacterial Magnetotaxis by Live-Cell Motility Tracking and Soft Agar Swimming Assay

    In Magnetospirillum gryphiswaldense, magnetosomes are aligned in quasi-linear chains in a helical cell by a complex cytoskeletal network, including the actin-like MamK and adapter MamJ for magnetosome chain concatenation and segregation and MamY to position magnetosome chains along the shortest cellular axis of motility. Magnetosome chain positioning is assumed to be...

    Daniel Pfeiffer, Dirk Schüler
  • Protective Effect of the Golden Staphyloxanthin Biosynthesis Pathway on <span class="named-content genus-species" id="named-content-1">Staphylococcus aureus</span> under Cold Atmospheric Plasma Treatment
    Physiology
    Protective Effect of the Golden Staphyloxanthin Biosynthesis Pathway on Staphylococcus aureus under Cold Atmospheric Plasma Treatment

    Staphylococcus aureus is an important pathogen that can be widely distributed in the community and clinical settings. The emergence of S. aureus with multiple-antibiotic resistance has complicated staphylococcal infection control. The development of alternative strategies with powerful bactericidal...

    Yi Yang, Hao Wang, Huyue Zhou, Zhen Hu, Weilong Shang, Yifan Rao, Huagang Peng, Ying Zheng, Qiwen Hu, Rong Zhang, Haiyun Luo, Xiancai Rao

Plant Microbiology

  • Open Access
    Chemical Targeting and Manipulation of Type III Secretion in the Phytopathogen <span class="named-content genus-species" id="named-content-1">Xanthomonas campestris</span> for Control of Disease
    Plant Microbiology
    Chemical Targeting and Manipulation of Type III Secretion in the Phytopathogen Xanthomonas campestris for Control of Disease

    The bacterium Xanthomonas campestris pv. campestris is known to cause black rot disease in many socioeconomically important vegetable crops worldwide. The management and control of black rot disease have been tackled with chemical and host resistance methods with variable success. This has motivated the development of alternative methods for preventing this disease....

    Le Zhou, Cheng Wang, Guo-Hua Wang, Zai-Wa Wei, Qiu-Xia Fu, Xiao-Hong Hang, Mei Yang, Bo-Le Jiang, Ji-Liang Tang

Public and Environmental Health Microbiology

  • Open Access
    Carriage and Subtypes of Foodborne Pathogens Identified in Wild Birds Residing near Agricultural Lands in California: a Repeated Cross-Sectional Study
    Public and Environmental Health Microbiology
    Carriage and Subtypes of Foodborne Pathogens Identified in Wild Birds Residing near Agricultural Lands in California: a Repeated Cross-Sectional Study

    The shedding dynamics of foodborne pathogens by wild birds on farmland are not well characterized. This yearlong study sampled wild birds for foodborne pathogens within agricultural lands in northern California. There was a low prevalence of Salmonella spp., Escherichia coli O157:H7, and non-O157 Shiga-toxin producing...

    N. Navarro-Gonzalez, S. Wright, P. Aminabadi, A. Gwinn, T. V. Suslow, M. T. Jay-Russell
  • Control of Waterborne Human Viruses by Indigenous Bacteria and Protists Is Influenced by Temperature, Virus Type, and Microbial Species
    Public and Environmental Health Microbiology | Spotlight
    Control of Waterborne Human Viruses by Indigenous Bacteria and Protists Is Influenced by Temperature, Virus Type, and Microbial Species

    Waterborne human viruses can persist in the environment, causing a risk to human health over long periods of time. In this work, we demonstrate that in both freshwater and seawater environments, indigenous bacteria and protists can graze on waterborne viruses and thereby reduce their persistence. We furthermore demonstrate that the efficiency of the grazing process depends on temperature, virus type, and protist species. These findings...

    Margot Olive, Charles Gan, Anna Carratalà, Tamar Kohn
  • Prevalence of Potentially Pathogenic Antibiotic-Resistant <em>Aeromonas</em> spp. in Treated Urban Wastewater Effluents versus Recipient Riverine Populations: a 3-Year Comparative Study
    Public and Environmental Health Microbiology
    Prevalence of Potentially Pathogenic Antibiotic-Resistant Aeromonas spp. in Treated Urban Wastewater Effluents versus Recipient Riverine Populations: a 3-Year Comparative Study

    Aeromonads are Gram-negative, asporogenous rod-shaped bacteria that are autochthonous in fresh and brackish waters. Their pathogenic nature in poikilotherms and mammals, including humans, pose serious environmental and public health concerns especially with rising levels of antibiotic resistance. Wastewater treatment facilities serve as major reservoirs for the dissemination of antibiotic resistance genes (ARGs) and resistant bacterial...

    Troy Skwor, Sarah Stringer, Jason Haggerty, Jenilee Johnson, Sarah Duhr, Mary Johnson, Megan Seckinger, Maggie Stemme
  • Electronic Cigarette (E-Cigarette) Vapor Exposure Alters the <span class="named-content genus-species" id="named-content-1">Streptococcus pneumoniae</span> Transcriptome in a Nicotine-Dependent Manner without Affecting Pneumococcal Virulence
    Public and Environmental Health Microbiology | Spotlight
    Electronic Cigarette (E-Cigarette) Vapor Exposure Alters the Streptococcus pneumoniae Transcriptome in a Nicotine-Dependent Manner without Affecting Pneumococcal Virulence

    With the increasing popularity of e-cigarettes among cigarette smoking and nonsmoking adults and children and the recent reports of vaping-related lung illness and deaths, further analysis of the adverse health effects of e-cigarette vapor (EV) exposure is warranted. Since pathogenic bacteria such as Streptococcus pneumoniae can colonize the human nasopharynx as...

    Kamal Bagale, Santosh Paudel, Hayden Cagle, Erin Sigel, Ritwij Kulkarni

Author Correction

  • Free
    Correction for Bellenberg et al., “Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms”
    Author Correction
    Correction for Bellenberg et al., “Automated Microscopic Analysis of Metal Sulfide Colonization by Acidophilic Microorganisms”
    Sören Bellenberg, Antoine Buetti-Dinh, Vanni Galli, Olga Ilie, Malte Herold, Stephan Christel, Mariia Boretska, Igor V. Pivkin, Paul Wilmes, Wolfgang Sand, Mario Vera, Mark Dopson

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Applied and Environmental Microbiology: 86 (3)

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volume 86, issue 3
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  • Community Structure of Arbuscular Mycorrhizal Fungi in Soils of Switchgrass Harvested for Bioenergy
  • Plastics: Environmental and Biotechnological Perspectives on Microbial Degradation
  • Following Coffee Production from Cherries to Cup: Microbiological and Metabolomic Analysis of Wet Processing of Coffea arabica
  • Airborne Disinfection by Dry Fogging Efficiently Inactivates Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), Mycobacteria, and Bacterial Spores and Shows Limitations of Commercial Spore Carriers
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